Packages required but not available: 'lassoshooting', 'irr', 'elasticnet'

Package suggested but not available for checking: 'graph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'rlang'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'hash', 'ggplot2', 'testthat', 'gridExtra', 'TopKLists', 'stringr',
  'xtable', 'mongolite', 'VennDiagram', 'cowplot'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'car', 'lme4'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Last 13 lines of output:
  > # see also:
  > # todo:
  > # changelog: 
  > #
  > # Created: 2019-06-10
  > # Copyright: Steven E. Pav, 2019-2019
  > # Author: Steven E. Pav
  > # Comments: Steven E. Pav
  > 
  > # because Hadley says it should be like this.
  > # see https://github.com/hadley/devtools/wiki/Testing
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'xml2', 'xslt', 'magrittr', 'tibble', 'dplyr', 'tidyr'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'covr', 'readr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'checkmate', 'data.table', 'eplusr', 'future.apply', 'fst',
  'jsonlite', 'progressr', 'psychrolib', 'rappdirs', 'RNetCDF', 'units'

Packages suggested but not available for checking:
  'testthat', 'pingr', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'foreach', 'randomForest', 'doRNG', 'doParallel', 'rngtools'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'XML', 'httr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'testthat', 'shiny', 'DT', 'mime', 'readxl', 'ggplot2', 'ggiraph',
  'ggiraphExtra', 'shinycssloaders', 'shinyWidgets', 'FSA',
  'PMCMRplus', 'knitr', 'rmarkdown', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'
Package unavailable to check Rd xrefs: 'shiny'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package required but not available: 'ttutils'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'lavaan', 'stringr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'qtl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'mvtnorm'
Running examples in 'equalCovs-Ex.R' failed
The error most likely occurred in:

> ### Name: equalCovs
> ### Title: Testing the equality of two covariance matrices.
> ### Aliases: equalCovs
> ### Keywords: covariance matrices
> 
> ### ** Examples
> 
> library(mvtnorm)
Error in library(mvtnorm) : there is no package called 'mvtnorm'
Execution halted
Package required but not available: 'lavaan'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'semTools', 'printr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'rappdirs', 'xml2', 'xslt', 'locatexec'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'statmod', 'mirt'

Packages suggested but not available for checking:
  'knitr', 'ltm', 'rmarkdown', 'sna'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'equateIRT', 'numDeriv', 'statmod', 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'ltm'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
The following files contain a license that requires
distribution of original sources:
  'upgreek.sty'
Please ensure that you have complied with it.
Packages required but not available: 'broom', 'knitr', 'broom.mixed'

Packages suggested but not available for checking:
  'texPreview', 'testthat', 'ordinal', 'lme4', 'rmarkdown', 'covr',
  'forecast', 'latex2exp', 'ggplot2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'eha'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'PairedData'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'polynom', 'rootSolve', 'cubature', 'Rdpack'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'BiasedUrn'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'Rcpp', 'ncdf4', 'nnls', 'igraph', 'signal', 'quantreg', 'XML'

Packages suggested but not available for checking: 'R.rsp', 'mzR'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'vctrs', 'rlang', 'magrittr', 'pillar'

Packages suggested but not available for checking:
  'tibble', 'testthat', 'covr', 'knitr', 'rmarkdown', 'dplyr',
  'spelling', 'purrr', 'tidyr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'poweRlaw', 'evir'
Running examples in 'ercv-Ex.R' failed
The error most likely occurred in:

> ### Name: Tm
> ### Title: Multiple threshold test for a GPD
> ### Aliases: Tm
> ### Keywords: ercv
> 
> ### ** Examples
> 
> data("nidd.thresh",package = "evir")
Error in find.package(package, lib.loc, verbose = verbose) : 
  there is no package called 'evir'
Calls: data -> find.package
Execution halted
Packages required but not available:
  'lmtest', 'systemfit', 'tseries', 'urca'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'numDeriv', 'statnet', 'ergm', 'network', 'btergm', 'sna',
  'xergm.common'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'lda', 'quadprog', 'igraph', 'viridis', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ergm', 'network', 'statnet.common'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ergm', 'network', 'statnet.common', 'coda', 'RColorBrewer', 'purrr',
  'tibble'

Packages suggested but not available for checking: 'testthat', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ergm', 'network', 'Rcpp', 'texreg', 'RcppArmadillo'

Packages suggested but not available for checking:
  'covr', 'sna', 'lmtest', 'fmcmc', 'coda', 'knitr', 'rmarkdown',
  'tinytest'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ergm', 'network', 'statnet.common'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'network', 'robustbase', 'coda', 'trust', 'lpSolve',
  'statnet.common', 'rle', 'purrr', 'rlang', 'tibble'

Packages suggested but not available for checking:
  'latticeExtra', 'sna', 'latentnet', 'rmarkdown', 'knitr', 'Rmpi',
  'testthat', 'magrittr', 'tergm', 'ergm.count', 'ergm.userterms',
  'networkDynamic'

VignetteBuilder packages required for checking but not installed:
  'rmarkdown', 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/ergm.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'network', 'ergm', 'statnet.common'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'glue', 'magrittr', 'rlang'

Packages suggested but not available for checking: 'rmarkdown', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'colorspace', 'psych'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'plyr', 'signal', 'gtools'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'corpcor', 'irlba', 'fdrtool', 'mnormt', 'pacman'

Packages suggested but not available for checking:
  'prettydoc', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'rpanel'

Package suggested but not available for checking: 'akima'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'R6', 'rlang'

Packages suggested but not available for checking: 'testthat', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'scales', 'gridExtra', 'glmnet', 'pls', 'plsVarSel'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'VGAM', 'rootSolve'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'searcher'

Packages suggested but not available for checking:
  'testthat', 'covr', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
Packages required but not available: 'validate', 'lpSolveAPI'

Packages suggested but not available for checking:
  'testthat', 'covr', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'dplyr', 'vctrs', 'pillar', 'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages suggested but not available for checking: 'testthat', 'covr'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'Rcpp', 'RcppArmadillo'

Package suggested but not available for checking: 'simcdm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'shiny', 'miniUI', 'RColorBrewer', 'ggplot2', 'car', 'leaps',
  'broom', 'dplyr', 'tidyr', 'purrr', 'combinat'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'CircStats', 'ggplot2', 'pbapply', 'plotly', 'raster', 'rasterVis',
  'tiff'

Packages suggested but not available for checking:
  'knitr', 'pander', 'gridExtra', 'plyr', 'rmarkdown', 'sf', 'sp',
  'testthat', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'corpcor', 'svd'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'plyr', 'doParallel', 'mvnfast', 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking: 'knitr', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'plyr', 'readODS', 'readxl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'esreg'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'magrittr', 'dplyr', 'tidyr', 'tidyselect', 'stringr', 'purrr',
  'tibble', 'gtools', 'dfcrm', 'BOIN', 'trialr', 'DiagrammeR',
  'RColorBrewer', 'viridis', 'binom'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'ggplot2', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package unavailable to check Rd xrefs: 'metafor'
Packages suggested but not available for checking: 'knitr', 'rmarkdown'
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'dplyr', 'magrittr', 'purrr', 'rlang', 'ROCR', 'sf', 'shiny', 'units'

Packages suggested but not available for checking:
  'colorRamps', 'colourpicker', 'dichromat', 'DT', 'knitr', 'leafem',
  'leaflet', 'maps', 'maptools', 'raster', 'RColorBrewer', 'rmarkdown',
  'shinybusy', 'shinydashboard', 'shinyjs', 'testthat', 'tmap',
  'viridis', 'zip'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'igraph', 'XML', 'parmigene'

Package suggested but not available for checking: 'graph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'sp', 'multitaper', 'raster', 'rgdal', 'caTools', 'signal', 'fftw',
  'matrixStats', 'IRISSeismic', 'XML', 'shiny', 'rmarkdown',
  'reticulate', 'Rcpp'

Packages suggested but not available for checking: 'plot3D', 'rgl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'glmnet'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'raster', 'ggplot2', 'readr'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'lubridate'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'datamods', 'rstudioapi', 'shiny', 'htmltools', 'jsonlite',
  'shinyWidgets', 'ggplot2', 'scales', 'rlang', 'styler'

Packages suggested but not available for checking:
  'officer', 'rvg', 'rio', 'testthat', 'knitr', 'rmarkdown',
  'ggthemes', 'hrbrthemes'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
cv.ES: no visible binding for global variable 'var'
Undefined global functions or variables:
  var
Consider adding
  importFrom("stats", "var")
to your NAMESPACE file.
Packages required but not available:
  'quantreg', 'Rcpp', 'Formula', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Package required but not available: 'Rcpp'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'igraph'

Package suggested but not available for checking: 'tinytest'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'xml2', 'httr', 'haven', 'rvest', 'tibble'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'httr', 'purrr', 'readr', 'dplyr', 'tibble', 'rlang'

Packages suggested but not available for checking: 'testthat', 'keyring'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Hmisc'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'brms', 'lme4', 'dplyr', 'magrittr', 'tidyr', 'ggplot2', 'rlang',
  'foreach', 'doParallel', 'cowplot'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'glmnet', 'Rcpp', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available: 'igraph', 'qgraph', 'dplyr', 'ggplot2'

Packages suggested but not available for checking:
  'mvtnorm', 'JGL', 'psych'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'DEoptim', 'stringr', 'BBmisc', 'Rdpack', 'numDeriv', 'matrixStats',
  'autoimage'

Packages suggested but not available for checking:
  'gamlss.dist', 'knitr', 'rmarkdown', 'AdequacyModel', 'readr',
  'covr', 'testthat', 'vdiffr', 'spelling'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Formula', 'generics', 'Rcpp', 'rlang', 'RcppEigen'

Packages suggested but not available for checking:
  'fabricatr', 'randomizr', 'AER', 'clubSandwich', 'emmeans',
  'estimability', 'ivpack', 'margins', 'modelsummary', 'prediction',
  'RcppEigen', 'sandwich', 'stargazer', 'testthat', 'car'

Package which this enhances but not available for checking: 'texreg'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'foreach', 'reshape2', 'ggplot2', 'goftest', 'testthat', 'rlang'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'doParallel', 'gridExtra'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'dplyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'metaBLUE'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'PSCBS', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
There are ::: calls to the package's namespace in its code. A package
  almost never needs to use ::: for its own objects:
  'estoutstorage'
descsto: no visible global function definition for 'is'
Undefined global functions or variables:
  is
Consider adding
  importFrom("methods", "is")
to your NAMESPACE file (and ensure that your DESCRIPTION Imports field
contains 'methods').
Packages required but not available:
  'lazyeval', 'minpack.lm', 'Formula', 'gmm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
.Transition: no visible global function definition for 'rnorm'
.Transition.DC: no visible global function definition for 'runif'
Simu.Cond.HR: no visible global function definition for 'rpois'
Simu.Cond.HR: no visible global function definition for 'runif'
Simu.Cond.HR: no visible global function definition for 'hist'
Simu.Cond.HR: no visible global function definition for 'var'
Simu.HR: no visible global function definition for 'rpois'
Simu.HR: no visible global function definition for 'runif'
Simu.HR: no visible global function definition for 'hist'
Simu.HR: no visible global function definition for 'var'
Undefined global functions or variables:
  hist rnorm rpois runif var
Consider adding
  importFrom("graphics", "hist")
  importFrom("stats", "rnorm", "rpois", "runif", "var")
to your NAMESPACE file.
Packages required but not available:
  'quantmod', 'zoo', 'matrixStats', 'Rcpp'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'magrittr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'sfsmisc', 'ggplot2', 'magrittr', 'dplyr', 'rlang', 'tidyr', 'purrr',
  'Hmisc', 'tibble'

Packages suggested but not available for checking:
  'testthat', 'viridisLite'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'xtable', 'Hmisc'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'mapdata', 'fields', 'maps'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'maps', 'goftest', 'spatstat.geom', 'spatstat.core', 'spatstat',
  'Rcpp', 'fields'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'mvtnorm'

Packages suggested but not available for checking:
  'SimComp', 'multcomp', 'mratios'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'dplyr', 'httr', 'jsonlite', 'Rmpfr'

Packages suggested but not available for checking: 'testthat', 'httptest'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'circlize', 'cowplot', 'dplyr', 'ggalluvial', 'ggplot2', 'ggridges',
  'reshape2', 'magrittr'

Packages suggested but not available for checking:
  'broom', 'knitr', 'pbapply', 'rmarkdown', 'tidyr', 'stringr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'geometry', 'data.table', 'SNPRelate', 'gdsfmt', 'plot3D'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'DBI', 'downloader', 'fs', 'janitor', 'lubridate',
  'stringr', 'readr', 'rlang', 'rvest', 'tibble', 'usethis', 'xml2'

Packages suggested but not available for checking:
  'dbplyr', 'knitr', 'RSQLite', 'RPostgreSQL', 'RMySQL', 'ggplot2',
  'testthat', 'rmarkdown'

VignetteBuilder packages required for checking but not installed:
  'knitr', 'rmarkdown', 'ggplot2', 'dplyr', 'dbplyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ff', 'bit'

Packages suggested but not available for checking:
  'RSQLite', 'zoo', 'DBI', 'RODBC', 'RJDBC'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages required but not available: 'data.table', 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'ggplot2', 'kmi', 'geepack'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'magrittr', 'httr', 'urltools', 'dplyr', 'rvest', 'purrr', 'jsonlite'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'tidyr', 'xslt', 'dplyr', 'xml2', 'magrittr'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'stringr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'graph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'GenSA', 'polyclip', 'polylabelr', 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'covr', 'knitr', 'pBrackets', 'RConics', 'rmarkdown', 'testthat',
  'spelling'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'DatabaseConnector', 'SqlRender', 'RSQLite'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'magrittr', 'dplyr', 'xml2', 'tidyr', 'httr', 'rvest', 'rlang',
  'stringr', 'readr', 'pdftools', 'antiword'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'tidytext', 'wordcloud', 'purrr', 'ggplot2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'httr', 'jsonlite', 'plyr', 'dplyr', 'progress', 'urltools', 'purrr',
  'xml2', 'tibble', 'tidyr', 'rlang'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'ggplot2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'dplyr', 'tidyr', 'readr'
Packages required but not available:
  'shiny', 'VGAM', 'data.table', 'plyr', 'clinfun'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'broom', 'classInt', 'countrycode', 'curl', 'dplyr', 'httr',
  'jsonlite', 'lubridate', 'RColorBrewer', 'readr', 'RefManageR', 'sf',
  'sp', 'stringi', 'stringr', 'tibble', 'tidyr', 'tidyselect'

Packages suggested but not available for checking:
  'Cairo', 'ggplot2', 'knitr', 'mapproj', 'plotrix', 'markdown',
  'rmarkdown', 'roxygen2', 'rsdmx', 'rvest', 'testthat', 'tmap',
  'usethis'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'tfplot', 'dse', 'setRNG', 'tframe'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'agricolae', 'car', 'dplyr', 'entropy', 'ggcorrplot', 'ggplot2',
  'gridExtra', 'kSamples', 'psych', 'reshape2', 'Rdpack', 'vegan'

Packages suggested but not available for checking:
  'ccChooser', 'corehunter', 'rJava'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'testthat', 'ggplot2'
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'cli', 'crayon', 'dplyr', 'extrafont', 'ggplot2', 'mc2d', 'magrittr',
  'purrr', 'readr', 'readxl', 'rlang', 'rstudioapi', 'scales',
  'stringi', 'tibble', 'tidyr', 'vctrs', 'viridis'

Packages suggested but not available for checking:
  'DT', 'EnvStats', 'covr', 'ggalt', 'knitr', 'flexdashboard',
  'forcats', 'furrr', 'mockery', 'pander', 'psych', 'rmarkdown',
  'shiny', 'shinytest', 'spelling', 'statip', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'metafor', 'MetaUtility', 'dplyr'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'zoo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'EnvStats'

Packages suggested but not available for checking:
  'rmarkdown', 'knitr', 'SpatialExtremes'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'FNN'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'FNN', 'R.utils', 'limSolve', 'mclust', 'quadprog', 'plyr', 'kernlab'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
powerSet : <anonymous>: no visible global function definition for
  'combn'
Undefined global functions or variables:
  combn
Consider adding
  importFrom("utils", "combn")
to your NAMESPACE file.
mposterior: no visible global function definition for 'optim'
rl.pred: no visible global function definition for 'matplot'
rl.pst: no visible binding for global variable 'quantile'
rl.pst: no visible global function definition for 'matplot'
Undefined global functions or variables:
  matplot optim quantile
Consider adding
  importFrom("graphics", "matplot")
  importFrom("stats", "optim", "quantile")
to your NAMESPACE file.
Package suggested but not available for checking: 'akima'
Skipping vignette re-building
Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages required but not available:
  'EventDetectR', 'shinyBS', 'shiny', 'shinydashboard', 'shinyjs',
  'XML', 'plotly', 'DT', 'ggplot2'

Packages suggested but not available for checking:
  'roxygen2', 'shinytest', 'testthat', 'devtools'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'imputeTS', 'forecast', 'ggplot2', 'gridExtra', 'neuralnet'

Packages suggested but not available for checking:
  'testthat', 'caret', 'e1071'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'sandwich'

Packages suggested but not available for checking:
  'testthat', 'prodlim', 'knitr', 'rmarkdown', 'rio', 'data.table'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'rmutil'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'purrr', 'dplyr', 'magrittr'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Found the following hidden files and directories:
  .gitignore
These were most likely included in error. See section 'Package
structure' in the 'Writing R Extensions' manual.
Malformed Description field: should contain one or more complete sentences.
make_dyads : ff: no visible global function definition for 'aggregate'
make_scale: no visible global function definition for 'read.csv'
plot_dyad: no visible global function definition for 'is'
read_eventdata : read_ed_file: no visible global function definition
  for 'read.csv'
Undefined global functions or variables:
  aggregate is read.csv
Consider adding
  importFrom("methods", "is")
  importFrom("stats", "aggregate")
  importFrom("utils", "read.csv")
to your NAMESPACE file (and ensure that your DESCRIPTION Imports field
contains 'methods').
Packages required but not available:
  'abind', 'tensorA', 'glmnet', 'AtmRay', 'dbscan', 'changepoint'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'zoo', 'xts', 'testthat', 'sandwich'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/replications.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'shiny', 'miniUI', 'rstudioapi', 'httr', 'curl',
  'jsonlite', 'magrittr', 'data.table', 'testthat', 'dplyr', 'tidyr',
  'rlang', 'scales', 'tidyquant', 'RColorBrewer', 'stringr', 'purrr',
  'readr', 'openxlsx'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ProfileLikelihood', 'sandwich', 'foreach', 'doParallel'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'sensitivitymv'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'rstan', 'rstanarm', 'loo', 'LearnBayes', 'LaplacesDemon'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'gridExtra', 'meta', 'EmpiricalCalibration', 'rJava',
  'BeastJar', 'Cyclops', 'HDInterval', 'coda', 'rlang'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'sn'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'sensitivity2x2xk', 'sensitivitymult', 'sensitivitymv', 'senstrat',
  'DOS2'

Packages suggested but not available for checking:
  'optmatch', 'DiPs', 'approxmatch'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'gsl', 'SparseM'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'seqinr', 'ape', 'geiger', 'shiny', 'phytools'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'plyr', 'reshape2', 'ggplot2', 'vegan', 'ape', 'expm', 'matrixcalc',
  'mvtnorm', 'coda', 'igraph', 'MCMCpack', 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'dplyr', 'testthat', 'foreach', 'magrittr', 'gridExtra',
  'doParallel', 'PHENIX', 'cowplot'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'deSolve', 'geometry', 'ggplot2', 'interp', 'reshape2', 'rgl'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'coda'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'reshape2', 'geomorph', 'stringr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'rrepast', 'futile.logger', 'reshape', 'ggplot2', 'deSolve',
  'plot3D', 'plyr', 'data.table', 'RNetLogo'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'evd'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'RANN', 'evd', 'fitdistrplus'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'partykit'

Packages suggested but not available for checking:
  'Formula', 'kernlab', 'mlbench', 'multcomp', 'party', 'xtable'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'rjags'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Formula', 'rjags', 'coda', 'ggplot2', 'foreach', 'doParallel',
  'doRNG'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
EW : PhiP : Phi: no visible global function definition for 'pnorm'
Undefined global functions or variables:
  pnorm
Consider adding
  importFrom("stats", "pnorm")
to your NAMESPACE file.
Package required but not available: 'numDeriv'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'exactci', 'ssanv'

Packages suggested but not available for checking:
  'testthat', 'Exact', 'ggplot2', 'gridExtra'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
BinomialCIone: no visible global function definition for 'na.omit'
PairedCIone: no visible global function definition for 'na.omit'
Undefined global functions or variables:
  na.omit
Consider adding
  importFrom("stats", "na.omit")
to your NAMESPACE file.
Package required but not available: 'ssanv'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'raster', 'sf'

Packages suggested but not available for checking:
  'dplyr', 'knitr', 'rgdal', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
build.mcx.obj: no visible global function definition for 'glm'
build.mcx.obj: no visible binding for global variable 'poisson'
build.mcx.obj: no visible global function definition for 'fitted'
cab: no visible global function definition for 'rbinom'
cab: no visible global function definition for 'runif'
mcexact: no visible global function definition for 'update'
rounded.tprob: no visible global function definition for 'pt'
simtable.cab: no visible global function definition for 'rbinom'
simtable.cab: no visible global function definition for 'runif'
Undefined global functions or variables:
  fitted glm poisson pt rbinom runif update
Consider adding
  importFrom("stats", "fitted", "glm", "poisson", "pt", "rbinom",
             "runif", "update")
to your NAMESPACE file.
Package required but not available: 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'rootSolve'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'checkmate', 'fs', 'magrittr', 'ore', 'purrr', 'readr', 'rlang',
  'roxygen2', 'rstudioapi', 'strex', 'stringr', 'styler', 'usethis',
  'withr'

Packages suggested but not available for checking:
  'clipr', 'covr', 'crayon', 'knitr', 'pacman', 'rmarkdown',
  'spelling', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'exams', 'glue', 'stringr', 'stringi', 'xml2'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'exams', 'glue', 'stringr', 'stringi', 'pkgbuild', 'xml2'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'base64enc', 'knitr', 'magick', 'png', 'RCurl', 'RJSONIO',
  'rmarkdown', 'tinytex', 'tth'
Packages unavailable to check Rd xrefs: 'RJSONIO', 'RCurl', 'knitr', 'tth', 'rmarkdown', 'png'
Running examples in 'exams-Ex.R' failed
The error most likely occurred in:

> ### Name: exams2blackboard
> ### Title: Generation of Exams in Blackboard Format
> ### Aliases: exams2blackboard make_itembody_blackboard
> ### Keywords: utilities
> 
> ### ** Examples
> 
> ## load package and enforce par(ask = FALSE)
> library("exams")
> options(device.ask.default = FALSE)
> 
> ## define an exams (= list of exercises)
> myexam <- list(
+   "boxplots",
+   "ttest",
+   "anova",
+   "scatterplot",
+   "relfreq"
+ )
> 
> ## output directory
> dir.create(mydir <- tempfile())
> 
> ## generate .zip with Blackboard exam in temporary directory
> exams2blackboard(myexam, n = 3, dir = mydir)
Loading required namespace: tth
Failed with error:  'there is no package called 'tth''
Error in make_exercise_transform_html(converter = converter, base64 = base64,  : 
  requireNamespace("tth") is not TRUE
Calls: exams2blackboard -> make_exercise_transform_html -> stopifnot
Execution halted
Errors in running code in vignettes:
when running code in 'exams2.Rnw'
  ...

> options(width = 76, prompt = "R> ", continue = "+  ")

> library("exams")

> library("base64enc")

  When sourcing 'exams2.R':
Error: there is no package called 'base64enc'
Execution halted

  'exams.Rnw'... OK
  'exams2.Rnw'... failed
Error(s) in re-building vignettes:
--- re-building 'exams.Rnw' using Sweave
Loading required namespace: tinytex
Failed with error:  'there is no package called 'tinytex''
Loading required namespace: tinytex
Failed with error:  'there is no package called 'tinytex''
Loading required namespace: tinytex
Failed with error:  'there is no package called 'tinytex''
Loading required namespace: tinytex
Failed with error:  'there is no package called 'tinytex''
Loading required namespace: tinytex
Failed with error:  'there is no package called 'tinytex''
Loading required namespace: tinytex
Failed with error:  'there is no package called 'tinytex''
Loading required namespace: tinytex
Failed with error:  'there is no package called 'tinytex''
Loading required namespace: tinytex
Failed with error:  'there is no package called 'tinytex''
Loading required namespace: tinytex
Failed with error:  'there is no package called 'tinytex''
Loading required namespace: tinytex
Failed with error:  'there is no package called 'tinytex''
Loading required namespace: tinytex
Failed with error:  'there is no package called 'tinytex''
--- finished re-building 'exams.Rnw'

--- re-building 'exams2.Rnw' using Sweave

Error: processing vignette 'exams2.Rnw' failed with diagnostics:
 chunk 1 (label = preliminaries) 
Error in library("base64enc") : there is no package called 'base64enc'

--- failed re-building 'exams2.Rnw'

SUMMARY: processing the following file failed:
  'exams2.Rnw'

Error: Vignette re-building failed.
Execution halted
Packages required but not available: 'splancs', 'SpatialTools'

Package suggested but not available for checking: 'spBayes'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'BH'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'stringr', 'tidyr', 'lubridate', 'roperators', 'plyr'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages required but not available: 'htmlwidgets', 'jsonlite'

Packages suggested but not available for checking:
  'shiny', 'testthat', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'tidyr', 'dplyr', 'readxl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'checkmate', 'reticulate'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'devtools', 'RUnit', 'pkgload',
  'rprojroot'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'jsonlite'

Package suggested but not available for checking: 'js'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'sp', 'withr'

Packages suggested but not available for checking:
  'INLA', 'testthat', 'rgeos', 'rgdal'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'chandwich', 'Rcpp', 'RcppRoll', 'RcppArmadillo'

Packages suggested but not available for checking:
  'knitr', 'revdbayes', 'rmarkdown', 'testthat', 'zoo'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

Package suggested but not available for checking: 'mlbench'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LinkingTo' for 'Rcpp' is unused as it has no 'include' directory
Packages required but not available:
  'curl', 'plyr', 'tibble', 'jsonlite', 'rappdirs'

Packages suggested but not available for checking: 'testthat', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'curl', 'jsonlite', 'zip', 'data.table'

Package suggested but not available for checking: 'tinytest'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Biostrings', 'IRanges', 'Rsamtools', 'GenomicRanges', 'aod', 'VGAM',
  'GenomicAlignments', 'dplyr', 'magrittr'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/ExomeDepth-vignette.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'sybil', 'gage', 'igraph'

Package suggested but not available for checking: 'Biobase'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'tidyr', 'dplyr', 'ggplot2', 'corrplot', 'multiwayvcov', 'lmtest',
  'plm', 'stargazer', 'scales', 'shiny', 'DT', 'openssl', 'tictoc',
  'shinycssloaders', 'kableExtra', 'rio', 'zip', 'rlang'

Packages suggested but not available for checking:
  'gapminder', 'rmarkdown', 'htmltools', 'knitr', 'devtools'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'plyr', 'orthopolynom', 'polynom', 'glmnet'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'flexclust', 'plyr', 'RColorBrewer', 'gplots', 'NbClust', 'moments',
  'rJava', 'flexmix', 'matlab', 'ape', 'commonsMath'

Package suggested but not available for checking: 'phylobase'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'assertthat'

Packages suggested but not available for checking: 'smoof', 'cec2013'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'stargazer'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'stargazer'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'covr', 'spelling'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'spelling.R'
  Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'far', 'dplyr', 'DoE.base', 'rlist', 'purrr'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
print.cdf : numform: warning in formatC(x, dig = digits): partial
  argument match of 'dig' to 'digits'
print.cdf: warning in get("x", env = environment(x)): partial argument
  match of 'env' to 'envir'
print.cdf: warning in get("y", env = environment(x)): partial argument
  match of 'env' to 'envir'
print.ogive : numform: warning in formatC(x, dig = digits): partial
  argument match of 'dig' to 'digits'
print.ogive: warning in get("x", env = environment(x)): partial
  argument match of 'env' to 'envir'
print.ogive: warning in get("y", env = environment(x)): partial
  argument match of 'env' to 'envir'
quantile.expert: warning in formatC(paste(100 * probs, "%", sep = ""),
  format = "fg", wid = 1, digits = dig): partial argument match of
  'wid' to 'width'
MS: no visible global function definition for 'tail'
Undefined global functions or variables:
  tail
Consider adding
  importFrom("utils", "tail")
to your NAMESPACE file.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Packages required but not available: 'CORElearn', 'semiArtificial'

Packages suggested but not available for checking: 'e1071', 'randomForest'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'data.table', 'DT', 'ggplot2', 'ggridges', 'lemon', 'lm.beta',
  'mediation', 'remotes', 'shiny', 'shinydashboard', 'weights'

Package suggested but not available for checking: 'moments'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'assertthat', 'broom', 'dplyr', 'DBI', 'DT', 'forcats', 'ggplot2',
  'gridExtra', 'magrittr', 'odbc', 'rlang', 'rpart.plot', 'shiny',
  'stringr', 'tibble', 'tidyr', 'rmarkdown'

Packages suggested but not available for checking:
  'knitr', 'palmerpenguins', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'ggplot2'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'shiny', 'DT', 'dplyr', 'tidyr', 'ggplot2', 'highr', 'formatR',
  'scatterD3', 'RColorBrewer'

Packages suggested but not available for checking:
  'FactoMineR', 'ade4', 'GDAtools', 'quanteda', 'quanteda.textmodels',
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'RColorBrewer', 'sfsmisc', 'Rmpfr'
Packages required but not available:
  'RColorBrewer', 'ggplot2', 'repmis', 'SuperLearner', 'gam',
  'foreach', 'glmnet', 'polspline', 'e1071', 'xgboost', 'Rcpp'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'prettyGraphs'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'mclust', 'gtools', 'blockmodels', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'forecast'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'magrittr', 'htmlTable', 'matrixStats', 'data.table'

Packages suggested but not available for checking:
  'DT', 'htmltools', 'knitr', 'rmarkdown', 'repr', 'ggplot2',
  'testthat', 'openxlsx', 'fst', 'huxtable'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
Packages required but not available: 'ggplot2', 'reshape2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'quantreg', 'mnormt'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'stringr', 'markdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'numDeriv', 'optimx'

Packages suggested but not available for checking:
  'ggplot2', 'knitr', 'PerformanceAnalytics', 'SuppDists', 'truncdist',
  'VGAM', 'xtable', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'dplyr', 'tidyr', 'lazyeval'

Packages suggested but not available for checking: 'testthat', 'data.table'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'assertthat', 'numDeriv'

Packages suggested but not available for checking: 'testthat', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Package required but not available: 'rmeta'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
bars: no visible global function definition for 'segments'
cv.binomial: no visible binding for global variable 'var'
cv.binomial: no visible global function definition for 'abline'
cv.normal: no visible binding for global variable 'var'
cv.normal: no visible global function definition for 'abline'
cv.poisson: no visible binding for global variable 'var'
cv.poisson: no visible global function definition for 'abline'
plot.extlasso: no visible global function definition for 'matplot'
plot.extlasso: no visible global function definition for 'axis'
Undefined global functions or variables:
  abline axis matplot segments var
Consider adding
  importFrom("graphics", "abline", "axis", "matplot", "segments")
  importFrom("stats", "var")
to your NAMESPACE file.
exbio: no visible global function definition for 'as.formula'
exbio: no visible global function definition for 'glm'
exbio: no visible binding for global variable 'gaussian'
exbio: no visible global function definition for 'Gamma'
exbio: no visible global function definition for 'pchisq'
Undefined global functions or variables:
  Gamma as.formula gaussian glm pchisq
Consider adding
  importFrom("stats", "Gamma", "as.formula", "gaussian", "glm", "pchisq")
to your NAMESPACE file.
Packages required but not available: 'raster', 'rgdal', 'sp', 'rgeos'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Packages suggested but not available for checking:
  'testthat', 'LaplacesDemon', 'VGAM', 'evd', 'hoa', 'skellam',
  'triangle', 'actuar'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
Packages required but not available: 'extrafontdb', 'Rttf2pt1'

Package suggested but not available for checking: 'fontcm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'testthat', 'covr', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package required but not available: 'chk'

Packages suggested but not available for checking:
  'covr', 'hms', 'knitr', 'testthat', 'tibble'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Package required but not available: 'rJava'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'sf', 'dplyr', 'tidyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'numDeriv', 'evd', 'sn', 'CompRandFld', 'quadprog', 'copula',
  'nloptr', 'gtools', 'mvtnorm', 'rlist', 'fda'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Formula'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Package suggested but not available for checking: 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'
Packages required but not available: 'goftest', 'evd', 'gmm', 'evir'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'evd', 'copula', 'mvtnorm', 'plot3D', 'tmvtnorm', 'pracma'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Lmoments', 'distillery'

Package suggested but not available for checking: 'fields'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'lmomco', 'berryFunctions', 'pbapply', 'RColorBrewer', 'evir',
  'ismev', 'fExtremes', 'extRemes', 'evd', 'Renext'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'gWidgets2', 'gWidgets2tcltk'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'emplik', 'evd'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
bootstrapCMLE: no visible global function definition for 'qweibull'
bootstrapCMLE: no visible binding for global variable 'sd'
bootstrapCMLE: no visible global function definition for 'quantile'
bootstrapCenWbMix: no visible binding for global variable 'sd'
bootstrapCenWbMix: no visible global function definition for 'quantile'
cenWeibullMLE: no visible global function definition for 'sd'
expmx.p2.censor: no visible global function definition for 'dweibull'
expmx.p2.censor: no visible global function definition for 'pweibull'
genWbMixIni: no visible global function definition for 'runif'
log.llh.p2.censor: no visible global function definition for 'dweibull'
log.llh.p2.censor: no visible global function definition for 'pweibull'
quanWbMix : t.fun: no visible global function definition for 'pweibull'
quanWbMix: no visible global function definition for 'uniroot'
quanWbMix.int : t.fun: no visible global function definition for
  'pweibull'
quanWbMix.int: no visible global function definition for 'uniroot'
simWbMix: no visible global function definition for 'rbinom'
simWbMix: no visible global function definition for 'rweibull'
Undefined global functions or variables:
  dweibull pweibull quantile qweibull rbinom runif rweibull sd uniroot
Consider adding
  importFrom("stats", "dweibull", "pweibull", "quantile", "qweibull",
             "rbinom", "runif", "rweibull", "sd", "uniroot")
to your NAMESPACE file.
Packages required but not available:
  'cli', 'doRNG', 'doSNOW', 'dplyr', 'foreach', 'generics', 'ggplot2',
  'glue', 'lubridate', 'purrr', 'Rcpp', 'rlang', 'tibble', 'tidyr',
  'vctrs', 'progress', 'RcppArmadillo'

Packages suggested but not available for checking:
  'magrittr', 'clisymbols', 'covr', 'exuberdata', 'forcats',
  'gridExtra', 'knitr', 'rmarkdown', 'spelling', 'stringr', 'testthat',
  'withr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'dplyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'stringi', 'stringr', 'tibble', 'readr', 'intervals'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'dplyr', 'ggplot2', 'tidyr', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'cli', 'dplyr', 'english', 'lubridate', 'magrittr', 'pillar',
  'purrr', 'rlang', 'stringr', 'tibble', 'tidyr', 'tidyselect'

Packages suggested but not available for checking:
  'eyedata', 'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'tibble', 'data.table', 'tidyr'

Packages suggested but not available for checking: 'testthat', 'dplyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
Packages required but not available: 'data.table', 'stringr', 'plyr'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'magrittr', 'purrr', 'rlang', 'forestmodel', 'ggplot2'

Packages suggested but not available for checking:
  'covr', 'testthat', 'roxygen2', 'knitr', 'rmarkdown', 'future',
  'furrr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'doSNOW', 'foreach', 'ggplot2', 'lavaan', 'moments', 'progress'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'drc', 'dplyr'

Packages suggested but not available for checking:
  'testthat', 'readxl', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'dplyr', 'rlang', 'tidyr', 'GGally', 'scales', 'magrittr',
  'purrr'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Title field: should not end in a period.
Packages required but not available: 'knitr', 'markdown', 'R.utils'

Packages suggested but not available for checking: 'testthat', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'magrittr', 'assertable', 'ggplot2', 'purrr', 'dplyr', 'nls2',
  'rlang', 'tidyr'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'haven', 'jsonlite', 'readxl', 'magrittr', 'textreadr', 'tibble',
  'stringr', 'writexl', 'purrr', 'mboxr', 'vroom', 'rmarkdown', 'tidyr'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'striprtf', 'xml2', 'dplyr', 'rvest',
  'antiword', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'forcats', 'ggplot2', 'lubridate', 'rlang', 'tsibble'

Packages suggested but not available for checking:
  'covr', 'DT', 'e1071', 'knitr', 'miniUI', 'rmarkdown', 'ROCR',
  'shiny', 'testthat', 'tibble', 'tidyr', 'tsibbledata'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'car', 'ggplot2', 'lme4', 'plyr', 'reshape2', 'scales', 'stringr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'data.table', 'DT', 'ggplot2', 'ggridges', 'moments', 'shiny',
  'shinydashboard', 'weights'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'foreach', 'ggplot2', 'digest', 'plyr', 'reshape', 'Jmisc'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ada', 'e1071', 'GA', 'gbm', 'optimx', 'glmnet', 'ROCR'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'mlbench', 'doParallel'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available: 'NMF', 'rgl', 'reshape2'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'fabletools', 'rlang', 'tsibble', 'lubridate', 'prophet',
  'dplyr', 'distributional'

Packages suggested but not available for checking:
  'tsibbledata', 'testthat', 'ggplot2', 'covr', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'fabletools', 'Rcpp', 'rlang', 'dplyr', 'tsibble', 'tibble', 'tidyr',
  'distributional'

Packages suggested but not available for checking:
  'covr', 'feasts', 'forecast', 'knitr', 'rmarkdown', 'spelling',
  'testthat', 'tsibbledata'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'tsibble', 'tibble', 'ggplot2', 'tidyselect', 'rlang', 'dplyr',
  'tidyr', 'generics', 'R6', 'vctrs', 'distributional', 'progressr',
  'lifecycle'

Packages suggested but not available for checking:
  'covr', 'crayon', 'fable', 'future.apply', 'knitr', 'pillar',
  'feasts', 'rmarkdown', 'spelling', 'testthat', 'tsibbledata',
  'lubridate'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'doParallel', 'foreach', 'label.switching', 'mvtnorm',
  'RColorBrewer', 'corrplot', 'mclust', 'coda', 'ggplot2',
  'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'rlang'

Packages suggested but not available for checking:
  'testthat', 'data.table', 'mvnfast', 'extraDistr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'htmltools', 'glue'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'matrixcalc'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'magrittr', 'dplyr', 'httr', 'jsonlite', 'knitr', 'stringr',
  'snakecase', 'rlang'

Packages suggested but not available for checking:
  'magick', 'ggplot2', 'purrr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'animation'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rlab'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'rARPACK'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ade4', 'ggplot2', 'ggrepel', 'xtable', 'scatterplot3d'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'abind', 'dendextend', 'FactoMineR', 'ggpubr', 'reshape2',
  'ggrepel', 'tidyr'

Packages suggested but not available for checking:
  'ade4', 'ca', 'igraph', 'knitr', 'mclust'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'FactoMineR', 'rrcov', 'rmarkdown', 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'car', 'DT', 'ellipse', 'flashClust', 'leaps', 'scatterplot3d',
  'ggplot2', 'ggrepel'

Packages suggested but not available for checking:
  'missMDA', 'knitr', 'Factoshiny', 'markdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'partitions'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'psych'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'statmod', 'abind', 'polycor'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'foreach', 'iterators', 'fields', 'doParallel',
  'RcppArmadillo'

Package suggested but not available for checking: 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'arm', 'genlasso', 'prodlim', 'sandwich', 'igraph', 'pbmcapply',
  'pbapply', 'mvtnorm', 'stringr', 'doParallel', 'foreach', 'estimatr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'mvtnorm'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'dplyr', 'reshape2', 'colorRamps', 'proxy', 'ggpubr',
  'scales', 'mvtnorm', 'knitr', 'magrittr', 'agricolae', 'forcats',
  'formula.tools'

Packages suggested but not available for checking:
  'survminer', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'multcomp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking:
  'plotrix', 'relaimpo', 'nortest', 'lmtest', 'car', 'kernlab', 'usdm',
  'hier.part'
Packages unavailable to check Rd xrefs: 'kernlab', 'relaimpo', 'hier.part', 'nortest', 'lmtest', 'usdm', 'car', 'SciViews', 'plotrix'
Note: found 5 marked Latin-1 strings
Packages required but not available:
  'GIGrvg', 'Rcpp', 'corrplot', 'stochvol', 'RcppArmadillo'

Packages suggested but not available for checking:
  'LSD', 'coda', 'knitr', 'RColorBrewer', 'testthat', 'zoo'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/paper.Rtex'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'coda', 'HDInterval', 'lpSolve'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'purrr', 'rlang'

Packages suggested but not available for checking:
  'testthat', 'covr', 'roxygen2', 'knitr', 'rmarkdown', 'ggplot2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'FactoMineR', 'shiny', 'FactoInvestigate', 'ggplot2', 'DT',
  'colourpicker', 'ggrepel', 'shinydashboard', 'shinyjqui', 'missMDA'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'jsonlite', 'httr', 'R6', 'caTools', 'rlang'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'RProtoBuf', 'R6'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'RJSONIO', 'RCurl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'elasticnet', 'sparseLDA', 'sda', 'glmnet', 'mnormt', 'crossval',
  'corpcor', 'matrixStats'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'RSpectra', 'Rcpp', 'RcppEigen'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/fad-vignette.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'BBmisc', 'checkmate'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'ranger'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'optiSolve', 'glmnet'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'DALEX', 'ggplot2', 'patchwork', 'ggdendro', 'ggrepel', 'scales'

Packages suggested but not available for checking:
  'ranger', 'gbm', 'knitr', 'rmarkdown', 'covr', 'testthat', 'spelling'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'caret', 'devtools', 'e1071', 'ggplot2', 'pROC'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'matrixStats'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
faisalconjoint: no visible global function definition for 'barplot'
faisalconjoint: no visible global function definition for 'text'
faisalconjoint: no visible global function definition for 'jpeg'
faisalconjoint: no visible global function definition for 'dev.off'
Undefined global functions or variables:
  barplot dev.off jpeg text
Consider adding
  importFrom("grDevices", "dev.off", "jpeg")
  importFrom("graphics", "barplot", "text")
to your NAMESPACE file.
Packages required but not available: 'fritools', 'igraph', 'MakefileR'

Packages suggested but not available for checking:
  'cleanr', 'covr', 'cyclocomp', 'devtools', 'hunspell', 'knitr',
  'lintr', 'packager', 'pkgbuild', 'pkgload', 'rasciidoc', 'rmarkdown',
  'roxygen2', 'rprojroot', 'RUnit', 'spelling', 'testthat', 'withr',
  'usethis'

VignetteBuilder packages required for checking but not installed:
  'knitr', 'rasciidoc'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'mvtnorm', 'polycor', 'pscl', 'VGAM'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Familias', 'paramlink'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'tis'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'kinship2', 'truncnorm', 'eha', 'pracma'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'kinship2', 'paramlink', 'Rsolnp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'plyr', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'pheatmap', 'pROC'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'mvtnorm'

Package suggested but not available for checking: 'FAdist'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'future', 'R.utils'

Packages suggested but not available for checking:
  'future.batchtools', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'CompQuadForm', 'kinship2', 'coxme', 'bdsmatrix'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'mnormt', 'impute'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'ellipse'
Package suggested but not available for checking: 'testthat'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'sensitivity', 'igraph', 'DiceKriging'

Packages suggested but not available for checking: 'manipulate', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'shiny'
Skipping vignette re-building
Packages suggested but not available for checking:
  'unitizer', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'RJSONIO', 'plyr', 'data.table', 'classInt', 'ggplot2', 'labeling',
  'XML'

Packages suggested but not available for checking: 'knitr', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/FAOSTAT.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'sem', 'mvtnorm', 'lavaan', 'mirt', 'pbapply'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'htmlwidgets', 'jsonlite'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'lme4'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'nnls', 'preprocessCore'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'BBmisc', 'checkmate', 'stringi', 'readr'

Packages suggested but not available for checking:
  'RWeka', 'testthat', 'OpenML'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'ncvreg', 'fBasics', 'RcppArmadillo'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'shiny', 'miniUI', 'data.table', 'magrittr', 'shinyWidgets',
  'Benchmarking', 'shinycssloaders', 'readr', 'rlang', 'tibble',
  'dplyr', 'DT'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'testthat', 'covr'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'timeDate', 'timeSeries', 'fBasics', 'fOptions'

Package suggested but not available for checking: 'RUnit'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'igraph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'timeDate', 'timeSeries', 'fBasics', 'fMultivar', 'robustbase', 'sn',
  'ecodist', 'mvnormtest', 'energy'

Packages suggested but not available for checking: 'mnormt', 'RUnit'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'e1071', 'fitdistrplus', 'ggplot2', 'lubridate', 'openxlsx',
  'PearsonDS', 'plyr', 'purrr', 'RcppRoll', 'scales', 'tidyhydat',
  'tidyr', 'zyp'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Packages suggested but not available for checking: 'testthat', 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'reticulate', 'generics', 'png', 'ggplot2', 'ggpubr', 'glue'

Packages suggested but not available for checking:
  'knitr', 'testthat', 'rmarkdown', 'curl', 'magrittr', 'data.table',
  'vctrs', 'R.utils', 'viridis', 'zeallot'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available: 'Rcpp', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'igraph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package which this enhances but not available for checking: 'flashClust'
Package unavailable to check Rd xrefs: 'flashClust'
Packages required but not available: 'bindata', 'Rcpp'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'dynpred', 'foreach'

Packages suggested but not available for checking:
  'testthat', 'cmprsk', 'crrp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Formula', 'CUB'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'RUnit'
Packages required but not available: 'data.table', 'tibble', 'stringr'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'covr', 'spelling'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'raster', 'sp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'testthat', 'microbenchmark', 'knitr', 'rmarkdown', 'sf'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RobustGaSP', 'RcppEigen'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppEigen'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'glm2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'mvtnorm', 'rbenchmark', 'RcppEigen'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'jmuOutlier'
Package unavailable to check Rd xrefs: 'jmuOutlier'
Packages required but not available: 'matrixStats', 'Rcpp', 'RcppEigen'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'fastICA', 'energy'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/fastJT.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'rARPACK'

Packages suggested but not available for checking: 'coxKM', 'SKAT'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'pdist', 'assertthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'foreach', 'doParallel', 'gtools', 'data.table', 'stringdist',
  'stringr', 'stringi', 'Rcpp', 'FactoClass', 'adagio', 'dplyr',
  'plotrix', 'RcppArmadillo', 'RcppEigen'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package which this enhances but not available for checking: 'speedglm'
'LazyData' is specified without a 'data' directory
Packages required but not available: 'Rcpp', 'BH'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
Package suggested but not available for checking: 'testthat'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'sp', 'raster', 'rgdal'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
File 'fastmatch/libs/x64/fastmatch.dll':
  Found non-API call to R: 'match5'

Compiled code should not call non-API entry points in R.

See 'Writing portable packages' in the 'Writing R Extensions' manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'doParallel', 'foreach', 'igraph', 'tidygraph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'matrixStats', 'Rcpp', 'RcppEigen'

Package suggested but not available for checking: 'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'plyr', 'future', 'RcppArmadillo', 'RcppProgress'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'covr', 'microbenchmark'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'geepack'
'LazyData' is specified without a 'data' directory
Running examples in 'fastpseudo-Ex.R' failed
The error most likely occurred in:

> ### Name: fast_pseudo_mean
> ### Title: Calculate pseudo-observations.
> ### Aliases: fast_pseudo_mean
> 
> ### ** Examples
> 
> # Dummy data
> 
> id <- c(1, 2, 3, 4)
> female <- c(0, 1, 1, 0)
> time <- c(23, 45, 38, 66)
> event <- c(1, 0, 0, 0)
> 
> # Compute pseudo-observations
> 
> pseudo = fast_pseudo_mean(time, event, 50)
> 
> # Create a data frame
> 
> test <- data.frame(id, female, pseudo)
> 
> # Fit a regression model
> 
> library(geepack)
Error in library(geepack) : there is no package called 'geepack'
Execution halted
Packages required but not available:
  'dplyr', 'gridExtra', 'ggplot2', 'magrittr', 'readr', 'rmarkdown',
  'rvest', 'tibble', 'tidyr', 'scales', 'xml2'

Package suggested but not available for checking: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'mosaic', 'maxLik', 'numDeriv', 'dplyr', 'ggplot2', 'miscTools'

Packages suggested but not available for checking:
  'ggformula', 'mosaicCalc', 'tidyr', 'readr', 'faraway', 'Hmisc',
  'DAAG', 'multcomp', 'vcd', 'car', 'alr3', 'corrgram',
  'BradleyTerry2', 'cubature', 'knitr', 'mosaicData', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'matrixStats', 'Rcpp', 'RcppEigen'

Package suggested but not available for checking: 'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ellipsis', 'glue', 'igraph', 'magrittr', 'RSpectra', 'tibble',
  'tidygraph'

Packages suggested but not available for checking:
  'covr', 'dplyr', 'ggplot2', 'knitr', 'rmarkdown', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'xgboost'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'base64enc', 'Cairo'

Package suggested but not available for checking: 'Rserve'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'limSolve', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'abind', 'ggplot2', 'gridExtra', 'matrixStats', 'plyr', 'Rcpp',
  'tibble', 'RcppArmadillo'

Packages suggested but not available for checking:
  'AmesHousing', 'covr', 'earth', 'htmltools', 'knitr', 'ranger',
  'reticulate', 'rmarkdown', 'rstudioapi', 'tinytest', 'titanic',
  'xgboost'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'survC1', 'set', 'reshape2', 'do', 'plyr', 'car', 'e1071', 'tseries',
  'ggplot2', 'ggrepel', 'PredictABEL', 'survIDINRI'

Package suggested but not available for checking: 'rms'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'slam'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'kinship2', 'multgee'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'lle', 'locfit', 'matrixStats', 'pheatmap', 'princurve',
  'randomForest', 'RColorBrewer', 'Rtsne', 'som', 'umap'

Packages suggested but not available for checking:
  'DESeq2', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'minpack.lm', 'timeSeries'

Packages suggested but not available for checking: 'zoo', 'xts'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

Package suggested but not available for checking: 'magrittr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'glue', 'lifecycle', 'rlang'

Packages suggested but not available for checking:
  'covr', 'dplyr', 'intrval', 'knitr', 'magrittr', 'rmarkdown',
  'roxygen2', 'testthat', 'tibble', 'tidyr', 'vctrs', 'withr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'R6', 'httpcode', 'whisker'

Packages suggested but not available for checking:
  'crul', 'curl', 'httr', 'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'lme4', 'dplyr', 'ggplot2', 'jsonlite', 'truncnorm', 'rlang'

Packages suggested but not available for checking:
  'testthat', 'tidyr', 'knitr', 'rmarkdown', 'roxygen2', 'covr',
  'cowplot', 'ggExtra', 'purrr', 'broom', 'broom.mixed', 'psych'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'xml2'

Packages suggested but not available for checking:
  'httr', 'tinytest', 'ttdo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'glpkAPI'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'assertthat', 'dplyr', 'magrittr', 'purrr', 'rlang', 'ROI',
  'ROI.plugin.ecos', 'stringr', 'tibble', 'tidyr'

Packages suggested but not available for checking:
  'spelling', 'jsonlite', 'curl', 'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'timeDate', 'timeSeries', 'gss', 'stabledist'

Packages suggested but not available for checking: 'akima', 'RUnit'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'pbatR', 'fgui', 'rootSolve'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
FBN.histogramMaxima: no visible global function definition for 'hist'
FBN.kmeans: no visible global function definition for 'median'
FBN.kmeans: no visible global function definition for 'kmeans'
FBNormalization: no visible global function definition for 'read.table'
FBNormalization: no visible global function definition for 'median'
FBNormalization: no visible global function definition for 'hist'
FBNormalization: no visible global function definition for 'par'
FBNormalization: no visible global function definition for 'dev.print'
FBNormalization: no visible binding for global variable 'bmp'
FBNormalization: no visible global function definition for 'sd'
FBNormalization: no visible global function definition for
  'write.table'
medianFilter: no visible global function definition for 'median'
Undefined global functions or variables:
  bmp dev.print hist kmeans median par read.table sd write.table
Consider adding
  importFrom("grDevices", "bmp", "dev.print")
  importFrom("graphics", "hist", "par")
  importFrom("stats", "kmeans", "median", "sd")
  importFrom("utils", "read.table", "write.table")
to your NAMESPACE file.
Packages required but not available: 'timeDate', 'timeSeries', 'fBasics'

Package suggested but not available for checking: 'RUnit'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'RCurl', 'jsonlite', 'digest', 'futile.logger', 'bit64', 'plyr',
  'data.table'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'igraph', 'stringr'

Packages suggested but not available for checking:
  'RJSONIO', 'RCurl', 'httr', 'XML', 'Rlab', 'xtable', 'speedglm',
  'glmnet'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'bayestestR'

Packages suggested but not available for checking:
  'BayesFactor', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'fractional', 'R6', 'Rcpp', 'registry', 'stringr', 'tictoc',
  'tikzDevice', 'magrittr'

Packages suggested but not available for checking:
  'arules', 'covr', 'hasseDiagram', 'knitr', 'markdown', 'rmarkdown',
  'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'assertthat', 'rlang'

Packages suggested but not available for checking: 'covr', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'glmnet', 'combinat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'fBasics', 'fOptions', 'fExoticOptions'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'kerdiest', 'pspline', 'sfsmisc'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Biostrings', 'seqRFLP', 'stringi'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'igraph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'reshape2', 'ggplot2'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'timeDate', 'timeSeries', 'fBasics', 'fMultivar'

Packages suggested but not available for checking: 'RUnit', 'mvtnorm', 'sn'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'mclust', 'ggplot2', 'DataVisualizations'

Packages suggested but not available for checking:
  'kernlab', 'cclust', 'dbscan', 'kohonen', 'MCL', 'ADPclust',
  'DatabionicSwarm', 'orclus', 'subspace', 'flexclust', 'ABCanalysis',
  'apcluster', 'pracma', 'EMCluster', 'pdfCluster', 'parallelDist',
  'plotly', 'ProjectionBasedClustering', 'GeneralizedUmatrix',
  'mstknnclust', 'densityClust', 'energy', 'R.utils', 'tclust',
  'Spectrum', 'genie', 'protoclust', 'fastcluster', 'clusterability',
  'signal', 'reshape2', 'PPCI', 'clustrd', 'smacof', 'rgl', 'prclust',
  'CEC', 'dendextend', 'moments', 'prabclus', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'magrittr', 'purrr'
'LazyData' is specified without a 'data' directory
Packages required but not available: 'face', 'fields'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'tiff', 'stringr', 'bitops', 'fields'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'microbenchmark'

VignetteBuilder packages required for checking but not installed:
  'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'stringdist', 'purrr', 'magrittr', 'tibble'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'CompQuadForm', 'pracma', 'fda', 'vars'

Packages suggested but not available for checking: 'testthat', 'fields'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'fdapace'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Formula', 'Rcpp', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'fda', 'doParallel', 'ggplot2', 'doBy', 'magic', 'foreach'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'testthat', 'covr', 'spelling', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Note: found 75 marked UTF-8 strings
Running 'spelling.R'
  Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'Rcpp', 'Hmisc', 'pracma', 'numDeriv', 'RcppEigen'

Packages suggested but not available for checking:
  'plot3D', 'rgl', 'aplpack', 'ks', 'gtools', 'knitr', 'rmarkdown',
  'EMCluster', 'minqa', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'geometry', 'rgl', 'plot3D', 'plot3Drgl', 'RcppEigen'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'tibble', 'magrittr', 'reshape2', 'patchwork', 'fdapace',
  'FastGP'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'fds'

Package suggested but not available for checking: 'deSolve'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'coda', 'foreach', 'mvtnorm', 'matrixcalc', 'fields',
  'doParallel', 'viridisLite', 'tolerance', 'testthat', 'RcppArmadillo'

Packages suggested but not available for checking:
  'akima', 'plot3D', 'plot3Drgl', 'rgl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'fda'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'fda', 'doParallel', 'iterators', 'foreach'

Package suggested but not available for checking: 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'mboost', 'gamboostLSS', 'stabs', 'zoo'

Packages suggested but not available for checking:
  'fda', 'fields', 'ggplot2', 'maps', 'mapdata', 'knitr', 'refund',
  'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/FLAM_canada.Rnw'
   'inst/doc/FLAM_fuel.Rnw'
   'inst/doc/FLAM_viscosity.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'matlab', 'corrplot'

Packages suggested but not available for checking: 'fds', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Packages suggested but not available for checking:
  'rtdists', 'RWiener', 'ggplot2', 'reshape2', 'testthat', 'knitr',
  'rmarkdown', 'microbenchmark', 'ggnewscale', 'ggforce'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'magrittr', 'usethis'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'arules', 'mclust', 'pls', 'car', 'caret', 'e1071', 'FactoMineR',
  'flexclust', 'fpc', 'glmnet', 'ibr', 'irr', 'kohonen', 'leaps',
  'mda', 'meanShiftR', 'questionr', 'randomForest', 'ROCR', 'Rtsne',
  'SnowballC', 'text2vec', 'stopwords', 'wordcloud', 'xgboost'

Package suggested but not available for checking: 'fds'

Package which this enhances but not available for checking: 'NMF'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'doParallel', 'forecast', 'foreach', 'gplots', 'iterators',
  'itertools', 'psych', 'png', 'Rcpp', 'tseries', 'xts', 'zoo',
  'RcppArmadillo'

Package suggested but not available for checking: 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Fgmutils', 'data.table', 'sqldf', 'randomcoloR', 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ade4', 'ape', 'geometry', 'vegan'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'MCMCpack', 'qvalue'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rdpack'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'fda', 'Rcpp', 'mosaic', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'stepR'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rainbow', 'RCurl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'xtable'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'DiscreteFDR', 'Rcpp', 'PoissonBinomial', 'pracma'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'lars', 'rms'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'stringr', 'randomForest', 'rpart.plot', 'GA', 'e1071', 'ggplot2',
  'magrittr', 'tibble', 'dplyr', 'reticulate'

Package suggested but not available for checking: 'doParallel'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'fabletools', 'rlang', 'tibble', 'tsibble', 'ggplot2', 'dplyr',
  'tidyr', 'scales', 'vctrs', 'lubridate', 'slider', 'lifecycle'

Packages suggested but not available for checking:
  'tsibbledata', 'pillar', 'knitr', 'rmarkdown', 'testthat', 'covr',
  'seasonal', 'urca', 'fracdiff', 'fable'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'tibble', 'hms'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rpart.plot', 'plyr'

Packages suggested but not available for checking:
  'png', 'knitr', 'Metrics', 'mlr', 'gbm', 'randomForest'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'testthat', 'spelling', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
Running 'spelling.R'
  Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'Rcpp', 'digest', 'magrittr', 'BH'

Packages suggested but not available for checking:
  'RUnit', 'glmnet', 'knitr', 'xgboost', 'rmarkdown', 'pROC'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'data.table', 'ggplot2'

Packages suggested but not available for checking:
  'flexclust', 'clustMixType', 'knitr', 'rmarkdown', 'testthat',
  'attempt', 'ClustImpute', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ks', 'plot3D'

Packages suggested but not available for checking:
  'knitr', 'misc3d', 'rgl', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'lokern'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'reticulate', 'caret', 'dplyr', 'purrr', 'stringr', 'tibble',
  'magrittr', 'cli', 'testthat', 'rstudioapi'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available: 'dplyr', 'readr', 'vroom'

Packages suggested but not available for checking:
  'testthat', 'scales', 'knitr', 'rmarkdown', 'fs', 'lubridate',
  'ggplot2', 'stringr', 'usethis', 'utf8'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'sp', 'data.table', 'devtools', 'igraph', 'curl', 'rgdal', 'raster',
  'Hmisc', 'rgeos', 'readr', 'lubridate', 'tibble', 'dplyr',
  'magrittr', 'foreach', 'ncdf4', 'stringr', 'sf', 'httr', 'xml2'

Packages suggested but not available for checking:
  'testthat', 'covr', 'roxygen2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'httr', 'curl', 'jsonlite'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'magrittr', 'xml2', 'purrr', 'rvest', 'stringi', 'httr',
  'tidyr', 'tidytext'

Packages suggested but not available for checking: 'ggplot2', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'maps', 'mapdata', 'proj4', 'sp', 'gstat', 'automap'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'tibble', 'xml2', 'lubridate', 'digest', 'readr', 'stringr'

Packages suggested but not available for checking: 'testthat', 'devtools'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'aod', 'Formula', 'plm', 'Rdpack', 'dplyr'

Packages suggested but not available for checking:
  'texreg', 'testthat', 'knitr', 'rmarkdown', 'ggplot2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'prettycode', 'curl'

Packages suggested but not available for checking:
  'knitr', 'printr', 'testthat', 'covr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'lme4', 'ggplot2', 'sae', 'fields', 'snowfall', 'snow'

Package suggested but not available for checking: 'pscl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Formula', 'numDeriv', 'Rcpp'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'poibin'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'rstan', 'ggplot2', 'ergm', 'network', 'extrafont', 'matrixStats',
  'reshape2'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'ggplot2'
Package required but not available: 'statmod'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'rlang', 'dplyr', 'magrittr', 'scales', 'gganimate', 'ggplot2',
  'tibble', 'purrr', 'geozoo', 'tourr', 'stringr', 'ggrepel',
  'ggforce', 'tidyr'

Packages suggested but not available for checking:
  'roxygen2', 'covr', 'pkgdown', 'testthat', 'forcats', 'patchwork'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'nls.multstart', 'simpleboot'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'timeDate', 'timeSeries', 'fBasics', 'fOptions'

Package suggested but not available for checking: 'RUnit'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'tmvtnorm', 'fCertificates', 'mvtnorm', 'fExoticOptions', 'fOptions'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'timeDate', 'timeSeries', 'fBasics', 'fGarch'

Package suggested but not available for checking: 'RUnit'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ff', 'fastmatch', 'bit'

Packages suggested but not available for checking:
  'testthat', 'LaF', 'biglm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rvest', 'xts', 'xml2', 'zoo', 'plyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'R2HTML'

Package suggested but not available for checking: 'tkrplot'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'ggplot2', 'gridExtra'
'library' or 'require' calls in package code:
  'ggplot2' 'gridExtra'
  Please use :: or requireNamespace() instead.
  See section 'Suggested packages' in the 'Writing R Extensions' manual.
FFieldPtRepDemo: no visible global function definition for 'ggplot'
FFieldPtRepDemo: no visible binding for global variable 'mtcars'
FFieldPtRepDemo: no visible global function definition for 'aes'
FFieldPtRepDemo: no visible binding for global variable 'mpg'
FFieldPtRepDemo: no visible global function definition for 'geom_point'
FFieldPtRepDemo: no visible global function definition for 'geom_text'
FFieldPtRepDemo: no visible global function definition for 'ggtitle'
FFieldPtRepDemo: no visible global function definition for
  'geom_segment'
FFieldPtRepDemo: no visible global function definition for
  'grid.arrange'
Undefined global functions or variables:
  aes geom_point geom_segment geom_text ggplot ggtitle grid.arrange mpg
  mtcars
Consider adding
  importFrom("datasets", "mtcars")
to your NAMESPACE file.
Running examples in 'FField-Ex.R' failed
The error most likely occurred in:

> ### Name: FField-package
> ### Title: Force field simulation for a set of points
> ### Aliases: FField FField-package
> ### Keywords: package
> 
> ### ** Examples
> 
> # Repel points
> coords <-
+   FFieldPtRep(coords = cbind(mtcars$wt * 100 / max(mtcars$wt), 
+                              mtcars$mpg * 100 / max(mtcars$mpg)),
+               rep.fact = 40)
> head(mtcars)
                   mpg cyl disp  hp drat    wt  qsec vs am gear carb
Mazda RX4         21.0   6  160 110 3.90 2.620 16.46  0  1    4    4
Mazda RX4 Wag     21.0   6  160 110 3.90 2.875 17.02  0  1    4    4
Datsun 710        22.8   4  108  93 3.85 2.320 18.61  1  1    4    1
Hornet 4 Drive    21.4   6  258 110 3.08 3.215 19.44  1  0    3    1
Hornet Sportabout 18.7   8  360 175 3.15 3.440 17.02  0  0    3    2
Valiant           18.1   6  225 105 2.76 3.460 20.22  1  0    3    1
> head(coords)
         x        y
1 45.11259 58.47014
2 54.19136 61.20140
3 40.34714 69.42976
4 62.48920 65.94822
5 59.81417 56.33633
6 66.54832 53.33343
>   
> # Demo
> FFieldPtRepDemo()
Error in library(ggplot2) : there is no package called 'ggplot2'
Calls: FFieldPtRepDemo -> library
Execution halted
Packages suggested but not available for checking: 'car', 'testthat'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'jsonlite', 'httr'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'bit'

Packages suggested but not available for checking: 'biglm', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'cachem', 'checkmate', 'dplyr', 'glue', 'httr', 'jsonlite',
  'lifecycle', 'lubridate', 'magrittr', 'memoise', 'purrr', 'rappdirs',
  'ratelimitr', 'rlang', 'stringr', 'tibble', 'tidyr'

Packages suggested but not available for checking:
  'covr', 'curl', 'httptest', 'knitr', 'rmarkdown', 'testthat', 'withr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'fftw'
ftest: no visible global function definition for 'wilcox.test'
ftest: no visible global function definition for 't.test'
Undefined global functions or variables:
  t.test wilcox.test
Consider adding
  importFrom("stats", "t.test", "wilcox.test")
to your NAMESPACE file.
Packages required but not available:
  'timeDate', 'timeSeries', 'fBasics', 'fastICA'

Package suggested but not available for checking: 'RUnit'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'data.table', 'jpmesh', 'magrittr', 'purrr', 'raster', 'readr',
  'rlang', 'sf', 'stars', 'stringr', 'terra', 'tibble', 'units', 'xml2'

Packages suggested but not available for checking:
  'covr', 'roxygen2', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'fgeo.tool', 'glue', 'lubridate', 'magrittr', 'purrr',
  'rlang', 'tibble', 'tidyr', 'withr'

Packages suggested but not available for checking:
  'covr', 'fgeo.plot', 'fgeo.x', 'ggplot2', 'knitr', 'measurements',
  'readr', 'rmarkdown', 'spelling', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'fgeo.tool', 'ggplot2', 'ggrepel', 'glue', 'magrittr',
  'purrr', 'rlang', 'stringr'

Packages suggested but not available for checking:
  'covr', 'fgeo.analyze', 'fgeo.x', 'gridExtra', 'knitr', 'rmarkdown',
  'spelling', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'cli', 'crayon', 'dplyr', 'fgeo.analyze', 'fgeo.plot', 'fgeo.tool',
  'fgeo.x', 'glue', 'magrittr', 'purrr', 'rlang', 'rstudioapi'

Packages suggested but not available for checking:
  'covr', 'DT', 'kableExtra', 'knitr', 'rmarkdown', 'spelling',
  'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'glue', 'magrittr', 'purrr', 'readr', 'rlang', 'tibble',
  'tidyselect'

Packages suggested but not available for checking:
  'covr', 'fgeo.x', 'knitr', 'pingr', 'roxygen2', 'spelling',
  'stringr', 'testthat', 'tidyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'memoise'

Packages suggested but not available for checking: 'spelling', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'JGL', 'fdapace'

Packages suggested but not available for checking:
  'mvtnorm', 'fda', 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'sqldf', 'stringr', 'plyr', 'data.table', 'devEMF', 'png', 'ggplot2',
  'gridExtra'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'mvtnorm', 'numDeriv'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/intro-fgpt.Rnw'
(Is a VignetteBuilder field missing?)
fgeasy: no visible global function definition for 'dist'
fgeasy : cor.est: no visible global function definition for 'cor.test'
fgeasy: no visible binding for global variable 'var'
fgperm : runrand: no visible global function definition for 'runif'
fgperm : runrand: no visible global function definition for 'ave'
fgploc : runrand: no visible global function definition for 'runif'
fgploc : runrand: no visible global function definition for 'ave'
fyshuffle: no visible global function definition for 'runif'
plot.fg: no visible global function definition for 'par'
plot.fg: no visible global function definition for 'segments'
plot.fg: no visible binding for global variable 'quantile'
plot.fg: no visible global function definition for 'abline'
plot.fg: no visible global function definition for 'axis'
summary.fg: no visible binding for global variable 'quantile'
Undefined global functions or variables:
  abline ave axis cor.test dist par quantile runif segments var
Consider adding
  importFrom("graphics", "abline", "axis", "par", "segments")
  importFrom("stats", "ave", "cor.test", "dist", "quantile", "runif",
             "var")
to your NAMESPACE file.
Files named as vignettes but with no recognized vignette engine:
   'vignettes/intro-fgpt.Rnw'
(Is a VignetteBuilder field missing?)
Found the following significant warnings:
  fgsg.h:96:61: warning: passing argument 8 of 'dpotrs_' from incompatible pointer type [-Wincompatible-pointer-types]
  fgsg.h:202:41: warning: passing argument 5 of 'dpotrf_' from incompatible pointer type [-Wincompatible-pointer-types]
  fgsg.h:347:41: warning: passing argument 5 of 'dpotrf_' from incompatible pointer type [-Wincompatible-pointer-types]
  fgsg.h:460:41: warning: passing argument 5 of 'dpotrf_' from incompatible pointer type [-Wincompatible-pointer-types]
  fgsg.h:516:61: warning: passing argument 8 of 'dpotrs_' from incompatible pointer type [-Wincompatible-pointer-types]
  fgsg.h:636:41: warning: passing argument 5 of 'dpotrf_' from incompatible pointer type [-Wincompatible-pointer-types]
  fgsg.h:717:41: warning: passing argument 5 of 'dpotrf_' from incompatible pointer type [-Wincompatible-pointer-types]
  fgsg.h:852:41: warning: passing argument 5 of 'dpotrf_' from incompatible pointer type [-Wincompatible-pointer-types]
  fgsg.h:996:41: warning: passing argument 5 of 'dpotrf_' from incompatible pointer type [-Wincompatible-pointer-types]
See 'C:/msys64/home/tomas/ucrt3/svn/ucrt3/r_packages/pkgcheck/CRAN/FGSG/FGSG.Rcheck/00install.out' for details.
Packages required but not available:
  'xml2', 'stringr', 'httr', 'dplyr', 'plyr', 'data.table'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'progress', 'Rcpp', 'tseries', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'interval', 'KMsurv', 'perm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'VGAM', 'foreach', 'doParallel'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'JADE', 'Rcpp', 'RcppArmadillo'

Package suggested but not available for checking: 'BSSasymp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'numDeriv', 'mvtnorm', 'ggplot2', 'scales', 'tensor', 'abind'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'msm', 'flexsurv', 'sn',
  'gapminder', 'GGally'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/fic.Rnw'
   'inst/doc/linear.Rnw'
   'inst/doc/loss.Rnw'
   'inst/doc/multistate.Rnw'
   'inst/doc/skewnormal.Rnw'
   'inst/doc/survival.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'raster', 'sp', 'caret', 'ggplot2', 'geosphere', 'vegan', 'rgeos',
  'stringdist', 'concaveman'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'kableExtra', 'imager', 'randomForest',
  'rgdal', 'RStoolbox', 'maptools'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rgl', 'RColorBrewer'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'spam', 'maps'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'R6', 'assertthat', 'httpuv', 'uuid', 'stringi', 'future', 'later',
  'reqres', 'glue', 'crayon'

Packages suggested but not available for checking:
  'testthat', 'covr', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'filehash', 'DBI', 'RSQLite'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'callr', 'covr', 'testthat'
'LazyData' is specified without a 'data' directory
Skipping vignette re-building
Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'RSQLite'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages suggested but not available for checking: 'io', 'testthat'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'stringr', 'checkmate', 'magrittr', 'purrr', 'rlang', 'strex',
  'stringi', 'withr'

Packages suggested but not available for checking:
  'covr', 'dplyr', 'knitr', 'rmarkdown', 'spelling', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'KRIS', 'rARPACK'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'CVXR', 'Rcpp', 'Rdpack', 'ROptSpace', 'RSpectra', 'nabor',
  'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'testthat', 'spelling'
'LazyData' is specified without a 'data' directory
Running 'spelling.R'
  Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'timeDate', 'timeSeries'

Package suggested but not available for checking: 'RUnit'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'bdsmatrix', 'broom', 'dplyr', 'forcats', 'GGally', 'ggplot2',
  'gridExtra', 'lme4', 'magrittr', 'mice', 'pillar', 'pROC', 'purrr',
  'scales', 'stringr', 'tidyr'

Packages suggested but not available for checking:
  'cmprsk', 'coxme', 'knitr', 'readr', 'rlang', 'rmarkdown', 'rstan',
  'survey', 'survminer', 'testthat', 'tibble'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available: 'quantmod', 'zoo', 'xts', 'TTR'

Packages suggested but not available for checking:
  'foreach', 'XML', 'testthat', 'timeSeries'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'curl', 'digest', 'httr', 'jsonlite', 'lubridate', 'lutz'

Packages suggested but not available for checking:
  'future', 'knitr', 'rmarkdown', 'testthat', 'vcr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'reshape2', 'RCurl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'xml2', 'EML', 'data.table', 'digest', 'hoardr'

Packages suggested but not available for checking:
  'testthat', 'crul', 'jsonlite'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'quadprog'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'htmlwidgets'

Package suggested but not available for checking: 'shiny'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'arm', 'glmnet', 'lars', 'quadprog', 'glinternet', 'igraph',
  'sandwich', 'lmtest', 'limSolve'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'reticulate', 'testthat'
Running 'run-all.R'
Running the tests in 'tests/run-all.R' failed.
Complete output:
  > library("testthat")
  Error in library("testthat") : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'pdftools', 'stringr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'shiny', 'ggplot2', 'scales', 'gridExtra'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package unavailable to check Rd xrefs: 'FinePop'
Packages suggested but not available for checking: 'diveRsity', 'ape'
Packages unavailable to check Rd xrefs: 'ape', 'diveRsity'
Packages required but not available:
  'tune', 'tibble', 'rlang', 'yardstick', 'workflows', 'purrr', 'cli',
  'dials', 'dplyr', 'tidyr', 'tidyselect', 'ggplot2'

Packages suggested but not available for checking:
  'spelling', 'BradleyTerry2', 'lme4', 'rsample', 'recipes',
  'modeldata', 'parsnip', 'testthat', 'covr', 'discrim', 'klaR'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'RUnit'
Packages required but not available:
  'Rcpp', 'klaR', 'ggplot2', 'GGally', 'Rcmdr', 'plyr', 'reshape',
  'rgl', 'gridExtra', 'scales', 'car', 'RcppProgress', 'RcppGSL'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'sdprisk', 'numDeriv'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'stabledist', 'RcppArmadillo', 'BH'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'xml2', 'dplyr', 'httr', 'rvest', 'XBRL', 'curl'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'zoo'

Packages suggested but not available for checking:
  'moments', 'distrEx', 'tseries', 'urca', 'lmtest', 'sandwich',
  'psych', 'GPArotation', 'chron', 'polynom', 'e1071'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'httr', 'jsonlite', 'dplyr', 'tibble', 'lubridate', 'tidyr',
  'stringr', 'readr', 'magrittr', 'purrr', 'furrr', 'forcats', 'future'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'matrixStats', 'RcppArmadillo'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
Packages required but not available: 'R6', 'cli', 'shiny'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'ggplot2'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'reshape2', 'truncnorm', 'xtable'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'chk', 'testthat', 'covr'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Skipping vignette re-building
Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'dplyr', 'magrittr'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages required but not available:
  'elasticnet', 'ggplot2', 'ellipse', 'plyr'

Packages suggested but not available for checking: 'testthat', 'aricode'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'tkrplot'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'igraph', 'RcppArmadillo', 'Rcpp'

Package suggested but not available for checking: 'rgl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Note: found 7 marked UTF-8 strings
Packages required but not available:
  'data.table', 'lme4', 'bootstrap', 'numDeriv'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'plyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'fda.usc'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'chron', 'mclust', 'rMR', 'respirometry'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ape', 'jsonlite', 'memoise', 'rlang'

Packages suggested but not available for checking:
  'diversitree', 'geiger', 'hisse', 'knitr', 'markdown', 'phytools',
  'picante', 'rfishbase', 'rmarkdown', 'spelling', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'gridExtra', 'png', 'downloader', 'httr', 'magrittr',
  'stringr', 'dplyr', 'tidyr', 'scales', 'rlang', 'curl'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'rfishbase', 'rnaturalearth',
  'pkgdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rdpack', 'Rcpp', 'BH'

Packages suggested but not available for checking:
  'testthat', 'rlang', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'FitAR'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'leaps', 'ltsa', 'bestglm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'httr', 'stringr', 'jsonlite'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'ggplot2', 'ggthemes'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'pracma'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Skipping vignette re-building
Packages suggested but not available for checking:
  'actuar', 'rgenoud', 'mc2d', 'gamlss.dist', 'knitr', 'ggplot2',
  'GeneralizedHyperbolic', 'rmarkdown', 'Hmisc'

VignetteBuilder package required for checking but not installed: 'knitr'
Package unavailable to check Rd xrefs: 'Hmisc'
Running 't-CIcdfplot.R'
  Running 't-bootdist.R'
Running the tests in 'tests/t-bootdist.R' failed.
Last 13 lines of output:
                               1-mle-lnorm
  Kolmogorov-Smirnov statistic   0.1672498
  Cramer-von Mises statistic     0.6373593
  Anderson-Darling statistic     3.4721179
  
  Goodness-of-fit criteria
                                 1-mle-lnorm
  Akaike's Information Criterion    1068.810
  Bayesian Information Criterion    1074.099
  > 
  > # use of plotdist to find good reasonable initial values for parameters
  > plotdist(ATV, "pareto", para=list(shape=1, scale=500))
  Error in plotdist(ATV, "pareto", para = list(shape = 1, scale = 500)) : 
    The  dpareto  function must be defined
  Execution halted
Errors in running code in vignettes:
when running code in 'paper2JSS.Rnw'
  ...
Error in loadVignetteBuilder(pkgdir) : vignette builder 'knitr' not found
Calls: <Anonymous> -> loadVignetteBuilder
Execution halted

... incomplete output.  Crash?

  'paper2JSS.Rnw' using 'UTF-8'... failed to complete the test
Packages required but not available: 'ICSNP', 'mvtnorm'

Packages suggested but not available for checking:
  'knitr', 'ggplot2', 'prettydoc', 'reshape2', 'rmarkdown', 'R.rsp',
  'testthat'

VignetteBuilder packages required for checking but not installed:
  'knitr', 'rmarkdown', 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'rmarkdown', 'knitr'
Packages required but not available: 'hypergeo', 'bbmle'

Packages suggested but not available for checking:
  'testthat', 'devtools', 'covr', 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'car'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'foreach'

Packages suggested but not available for checking: 'devEMF', 'doParallel'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'XML', 'gglasso', 'RcppEigen'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'DT', 'shiny', 'dplyr', 'maxLik', 'R.utils'

Packages suggested but not available for checking:
  'actuar', 'ald', 'benchden', 'BiasedUrn', 'bridgedist', 'Davies',
  'DiscreteInverseWeibull', 'DiscreteLaplace', 'DiscreteWeibull',
  'emdbook', 'emg', 'EnvStats', 'evd', 'evir', 'ExtDist', 'extremefit',
  'FAdist', 'FatTailsR', 'fBasics', 'fExtremes', 'flexsurv', 'gambin',
  'gb', 'GenBinomApps', 'GeneralizedHyperbolic', 'gld', 'GLDEX',
  'glogis', 'GSM', 'hermite', 'HyperbolicDist', 'ihs', 'KScorrect',
  'loglognorm', 'marg', 'mc2d', 'minimax', 'msm', 'nCDunnett',
  'NormalLaplace', 'normalp', 'ParetoPosStable', 'PearsonDS',
  'poistweedie', 'polyaAeppli', 'qmap', 'QRM', 'ReIns', 'reliaR',
  'Renext', 'revdbayes', 'RMKdiscrete', 'RMTstat', 'sadists',
  'skellam', 'SkewHyperbolic', 'skewt', 'SMR', 'sn', 'stabledist',
  'STAR', 'statmod', 'trapezoid', 'triangle', 'truncnorm',
  'VarianceGamma'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'doMC', 'foreach', 'RSvgDevice', 'devEMF'
'library' or 'require' calls in package code:
  'devEMF' 'doMC' 'foreach' 'grDevices'
  Please use :: or requireNamespace() instead.
  See section 'Suggested packages' in the 'Writing R Extensions' manual.
Packages required but not available:
  'mclust', 'ADGofTest', 'fitdistrplus', 'assertthat', 'purrr',
  'ggplot2', 'cowplot'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'fitdistrplus', 'actuar', 'e1071', 'ggplot2', 'goftest', 'shiny',
  'miniUI', 'rstudioapi', 'DT'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'httr', 'jsonlite', 'lubridate', 'magrittr', 'purrr',
  'readr', 'rlang', 'rvest', 'stringr', 'tidyr', 'tidyselect', 'xml2',
  'tibble', 'progress', 'glue', 'cli'

Packages suggested but not available for checking:
  'covr', 'ggplot2', 'knitr', 'rmarkdown', 'testthat', 'roxygen2',
  'elo', 'spelling', 'curl'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'ggplot2', 'dplyr', 'tidyr', 'readr', 'tibble', 'stringr', 'broom',
  'knitr', 'rmarkdown', 'patchwork', 'fivethirtyeightdata'

VignetteBuilder package required for checking but not installed: 'knitr'
Package unavailable to check Rd xrefs: 'fivethirtyeightdata'
Note: found 584 marked UTF-8 strings
Running examples in 'fivethirtyeight-Ex.R' failed
The error most likely occurred in:

> ### Name: ahca_polls
> ### Title: American Health Care Act Polls
> ### Aliases: ahca_polls
> ### Keywords: datasets
> 
> ### ** Examples
> 
> # To convert data frame to tidy data (long) format, run:
> library(dplyr)
Error in library(dplyr) : there is no package called 'dplyr'
Execution halted
Skipping vignette re-building
Packages suggested but not available for checking:
  'testthat', 'schumaker', 'cubature', 'knitr', 'foreach',
  'doParallel', 'SQUAREM'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Skipping vignette re-building
Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages required but not available: 'jsonlite', 'tibble', 'tidyr'

Packages suggested but not available for checking:
  'testthat', 'covr', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'numDeriv', 'sandwich', 'Rcpp', 'dreamerr'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'data.table', 'plm', 'pander'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'multxpert', 'multcomp', 'MHTdiscrete'
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Skipping vignette re-building
Packages suggested but not available for checking:
  'RUnit', 'knitr', 'rmarkdown', 'covr', 'pkgdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages required but not available: 'mathjaxr', 'Rdpack', 'curl'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'FKF', 'NFCP'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'rARPACK', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'BBmisc', 'checkmate', 'mlr'

Packages suggested but not available for checking:
  'devtools', 'e1071', 'ggplot2', 'lhs', 'mda', 'mlbench', 'numDeriv',
  'parallelMap', 'ParamHelpers', 'plotly', 'plyr', 'RANN', 'R.rsp',
  'shape', 'shiny', 'smoof', 'testthat'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'tidyr', 'eurostat', 'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'
Running examples in 'flagr-Ex.R' failed
The error most likely occurred in:

> ### Name: flag_divide
> ### Title: Assignment of the weights for the multiple flags
> ### Aliases: flag_divide
> 
> ### ** Examples
> 
> flags <- tidyr::spread(test_data[, c(1:3)], key = time, value = flags)
Error in loadNamespace(x) : there is no package called 'tidyr'
Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'dplyr', 'evaluate', 'ggplot2', 'glue', 'knitr', 'magrittr', 'purrr',
  'rmarkdown', 'stringr'

Packages suggested but not available for checking:
  'learnr', 'rstudioapi', 'shiny', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'magrittr', 'mice', 'glmnet', 'gmp', 'rlang', 'tidyr',
  'xgboost', 'devtools'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo', 'RcppGSL'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'igraph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'fda', 'Rcpp', 'RcppEigen'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'htmlwidgets', 'jsonlite'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
Packages required but not available:
  'dplyr', 'cowplot', 'ggplot2', 'MetricsWeighted', 'rpart.plot',
  'tidyr', 'tidyselect', 'withr'

Packages suggested but not available for checking:
  'knitr', 'caret', 'mlr3', 'mlr3learners', 'moderndive', 'ranger',
  'rmarkdown', 'testthat', 'xgboost'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'dplyr', 'tibble', 'magrittr'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'stringr', 'tibble', 'tidyr', 'readxl'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'pander'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'RCurl', 'xml2', 'httr', 'crayon'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'modeltools'

Packages suggested but not available for checking:
  'ellipse', 'clue', 'seriation', 'skmeans'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'numDeriv', 'mclust', 'statmod', 'ContaminatedMixt'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'jsonlite', 'htmltools', 'knitr', 'htmlwidgets', 'rmarkdown', 'shiny'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
Package required but not available: 'scam'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'MonoPoly', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
Packages required but not available: 'flexmix', 'gnm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'modeltools'

Packages suggested but not available for checking:
  'actuar', 'diptest', 'Ecdat', 'ellipse', 'gclus', 'glmnet', 'lme4',
  'mlbench', 'multcomp', 'mvtnorm', 'SuppDists'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'sf'

Packages suggested but not available for checking:
  'testthat', 'stringr', 'knitr', 'rmarkdown', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'rstan', 'rstantools', 'loo', 'bayesplot', 'ggplot2',
  'Formula', 'BH', 'RcppEigen', 'StanHeaders'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'matrixcalc', 'Epi', 'formula.tools', 'orthogonalsplinebasis',
  'statmod'

Packages suggested but not available for checking: 'relsurv', 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'smerc', 'sp', 'spdep'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'flexsurv', 'gtools'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'assertthat', 'deSolve', 'generics', 'magrittr', 'mstate', 'muhaz',
  'mvtnorm', 'numDeriv', 'quadprog', 'Rcpp', 'rlang', 'rstpm2',
  'purrr', 'tibble', 'tidyr', 'dplyr', 'tidyselect'

Packages suggested but not available for checking:
  'colorspace', 'eha', 'ggplot2', 'knitr', 'msm', 'testthat', 'TH.data'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/multistate.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'officer', 'rmarkdown', 'knitr', 'htmltools', 'xml2', 'data.table',
  'uuid', 'gdtools', 'rlang', 'base64enc'

Packages suggested but not available for checking:
  'testthat', 'xtable', 'webshot', 'magick', 'ggplot2', 'scales',
  'broom', 'bookdown', 'equatags'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'magrittr', 'RCurl', 'jsonlite', 'stringr'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'bazar', 'pryr'

Packages suggested but not available for checking: 'knitr', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rgdal', 'rgeos', 'sp'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'geosphere', 'ggplot2', 'ggrepel', 'magrittr', 'rlang',
  'sf', 'tibble'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'bit', 'ggsn', 'ggmap', 'ggplot2', 'CircStats', 'circular',
  'GeoLight', 'fields', 'maptools', 'raster', 'RcppArmadillo', 'rgdal',
  'rgeos', 'sp', 'truncnorm'

Packages suggested but not available for checking:
  'covr', 'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'htmltools', 'glue', 'jsonlite', 'checkmate'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'assertive.base', 'assertive.files', 'assertive.numbers',
  'assertive.properties', 'assertive.strings', 'assertive.types',
  'data.table', 'magrittr', 'minpack.lm', 'plyr', 'pracma', 'stringi',
  'withr'

Packages suggested but not available for checking:
  'bookdown', 'devtools', 'microbenchmark', 'multipanelfigure',
  'pander', 'roxygen2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'cherry', 'e1071', 'plyr', 'someMTP'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'purrr', 'rlang', 'magrittr', 'cli', 'ggplot2', 'tibble', 'withr',
  'viridisLite'

Packages suggested but not available for checking:
  'rmarkdown', 'knitr', 'covr', 'tidyverse', 'plotly', 'htmlwidgets',
  'htmltools', 'pracma'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'flip', 'car', 'plyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'gplots'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'chk', 'blob', 'lifecycle'

Packages suggested but not available for checking:
  'covr', 'spelling', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'evd', 'TLMoments', 'magrittr', 'copula'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'httr', 'dplyr', 'jsonlite', 'stringdist'

Packages suggested but not available for checking: 'testthat', 'shiny'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'data.table', 'BiodiversityR', 'cowplot', 'flextable',
  'officer', 'dplyr', 'tidyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
RIind: no visible global function definition for 'aggregate'
RIind: no visible binding for global variable 'sd'
RIpop: no visible global function definition for 'aggregate'
RIpop: no visible binding for global variable 'sd'
SI: no visible global function definition for 'sd'
SI2: no visible global function definition for 'sd'
SI3: no visible global function definition for 'aggregate'
SI3: no visible global function definition for 'pairs'
SI3: no visible global function definition for 'cor'
SI4: no visible global function definition for 'aggregate'
SI4: no visible global function definition for 'sd'
fCV: no visible global function definition for 'sd'
Undefined global functions or variables:
  aggregate cor pairs sd
Consider adding
  importFrom("graphics", "pairs")
  importFrom("stats", "aggregate", "cor", "sd")
to your NAMESPACE file.
Package suggested but not available for checking: 'SemiPar'
Malformed Title field: should not end in a period.
'library' or 'require' call to 'stats' in package code.
  Please use :: or requireNamespace() instead.
  See section 'Suggested packages' in the 'Writing R Extensions' manual.
GCV: no visible global function definition for 'lm'
GCV: no visible global function definition for 'resid'
ffplot: no visible global function definition for 'par'
ffplot: no visible global function definition for 'points'
ffplot: no visible global function definition for 'legend'
flowfield: no visible global function definition for 'write.table'
gpr: no visible global function definition for 'quantile'
gpr: no visible global function definition for 'var'
smoothp: no visible global function definition for 'lm'
smoothp: no visible global function definition for 'predict'
smoothp: no visible global function definition for 'resid'
smoothp: no visible global function definition for 'optimize'
Undefined global functions or variables:
  legend lm optimize par points predict quantile resid var write.table
Consider adding
  importFrom("graphics", "legend", "par", "points")
  importFrom("stats", "lm", "optimize", "predict", "quantile", "resid",
             "var")
  importFrom("utils", "write.table")
to your NAMESPACE file.
Running examples in 'flowfield-Ex.R' failed
The error most likely occurred in:

> ### Name: Flow Field Forecasting
> ### Title: Forecast of a univariate time series Flow Field Forecasting
> ### Aliases: 'Flow Field Forecasting'
> ### Keywords: package
> 
> ### ** Examples
> 
> library(SemiPar)
Error in library(SemiPar) : there is no package called 'SemiPar'
Execution halted
Package required but not available: 'zoo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'params', 'diagram', 'whisker', 'readr'

Packages suggested but not available for checking:
  'reshape2', 'knitr', 'testthat', 'funr', 'rmarkdown'

Packages which this enhances but not available for checking:
  'ggplot2', 'openxlsx', 'pacman', 'cowplot'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'zyp', 'changepoint', 'evir'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'combinat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
Running 'test_package.R'
Running the tests in 'tests/test_package.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'Rcpp', 'RcppParallel'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'dlnm', 'mvmeta', 'tsModel'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'pracma'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'caTools'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking: 'testthat', 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'Rcpp', 'knitr', 'kableExtra', 'rmarkdown'

Packages suggested but not available for checking: 'testthat', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'knitr', 'kableExtra', 'rmarkdown'

Packages suggested but not available for checking: 'testthat', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'fitdistrplus', 'STAR', 'EnvStats', 'extraDistr', 'quadprog'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'forecast'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'tidyverse'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'assertthat', 'fmdates', 'lubridate', 'tibble'

Packages suggested but not available for checking:
  'covr', 'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'numDeriv', 'splines2', 'orthopolynom', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'coda'

Packages suggested but not available for checking:
  'covr', 'knitr', 'rmarkdown', 'mcmc', 'tinytest', 'mvtnorm',
  'adaptMCMC'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'minimalRSD'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'assertthat', 'lubridate'

Packages suggested but not available for checking:
  'covr', 'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'deSolve', 'rootSolve', 'coda', 'minpack.lm', 'minqa'

Package suggested but not available for checking: 'diagram'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'flexmix', 'glmnet', 'Rcpp', 'abind', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'caret', 'solitude', 'kernlab', 'C50', 'e1071', 'FactoMineR',
  'dplyr', 'factoextra', 'ggplot2', 'RcppArmadillo'

Packages suggested but not available for checking:
  'testthat', 'covr', 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'foreach', 'iterators', 'doParallel'

Packages suggested but not available for checking:
  'ggplot2', 'RColorBrewer', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'jsonlite', 'httr', 'dplyr', 'magrittr', 'tidyr', 'lubridate'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'reshape', 'Biobase', 'expm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'viridisLite', 'RNifti', 'ggplot2', 'reshape2', 'gridExtra', 'tidyr',
  'optparse', 'RcppEigen', 'imager', 'pracma'

Packages suggested but not available for checking:
  'testthat', 'covr', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'metafor', 'aws'

Packages suggested but not available for checking:
  'tkrplot', 'fastICA', 'adimpro', 'oro.nifti'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages unavailable to check Rd xrefs: 'vcd', 'Epi'
Package required but not available: 'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
BSOptionValue: no visible global function definition for 'pnorm'
ImpliedVol: no visible global function definition for 'uniroot'
callFMstable: no visible global function definition for 'integrate'
fitGivenQuantile: no visible global function definition for 'uniroot'
matchQuartiles: no visible global function definition for 'optim'
putFMstable: no visible global function definition for 'integrate'
standardStableQuantile: no visible global function definition for
  'qnorm'
tailsGstable: no visible global function definition for 'integrate'
Undefined global functions or variables:
  integrate optim pnorm qnorm uniroot
Consider adding
  importFrom("stats", "integrate", "optim", "pnorm", "qnorm", "uniroot")
to your NAMESPACE file.
Packages required but not available: 'tibble', 'crayon'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'timeDate', 'timeSeries', 'fBasics', 'cubature', 'mvtnorm', 'sn'

Packages suggested but not available for checking: 'RUnit', 'akima'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'chemometrics', 'mvtnorm'
Packages required but not available: 'timeDate', 'timeSeries', 'fBasics'

Package suggested but not available for checking: 'RUnit'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'data.table', 'RANN', 'proxy', 'gmp'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'htmlwidgets'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'clisymbols', 'crayon', 'curl', 'httr', 'jsonlite', 'rlang', 'rvest',
  'tibble', 'xml2'

Packages suggested but not available for checking:
  'covr', 'dplyr', 'knitr', 'progress', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'tibble', 'ggplot2', 'lubridate', 'TMB', 'sf', 'stringr', 'tidyr',
  'purrr', 'dplyr', 'trip', 'assertthat', 'patchwork', 'future',
  'furrr', 'CircStats', 'mvtnorm', 'tmvtnorm', 'lifecycle', 'RcppEigen'

Packages suggested but not available for checking:
  'testthat', 'covr', 'knitr', 'rmarkdown', 'rgeos', 'rworldmap'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library("testthat")
  Error in library("testthat") : there is no package called 'testthat'
  Execution halted
Note: found 41 marked UTF-8 strings
Packages required but not available: 'rlang', 'htmltools'

Packages suggested but not available for checking:
  'covr', 'knitr', 'testthat', 'rsvg'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: 'extrafont'
Malformed Description field: should contain one or more complete sentences.
Packages required but not available: 'hrbrthemes', 'extrafont', 'ggplot2'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available: 'hrbrthemes', 'extrafont', 'ggplot2'

Packages suggested but not available for checking:
  'stringr', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'fontBitstreamVera', 'fontLiberation'

Packages suggested but not available for checking: 'testthat', 'htmltools'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'cowplot', 'magrittr', 'stringr', 'tibble',
  'tidyr', 'viridis', 'igraph', 'ggraph', 'minerva', 'rlang',
  'labeling'

Packages suggested but not available for checking:
  'knitr', 'infotheo', 'minet'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'rgl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'magrittr', 'rlang'

Packages suggested but not available for checking:
  'covr', 'testthat', 'knitr', 'rmarkdown', 'microbenchmark'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Note: found 234 marked UTF-8 strings
Packages required but not available:
  'airportr', 'dplyr', 'magrittr', 'rlang'

Packages suggested but not available for checking:
  'devtools', 'knitr', 'rmarkdown', 'testthat', 'tibble', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'timeDate', 'timeSeries', 'fBasics'

Package suggested but not available for checking: 'RUnit'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'lubridate', 'magrittr', 'xml2', 'rvest', 'dplyr', 'plyr', 'stringr',
  'lmodel2', 'reshape2', 'ggplot2', 'ggplotify', 'gridExtra'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'vegan'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ellipsis', 'magrittr', 'rlang', 'tibble'

Packages suggested but not available for checking:
  'covr', 'dplyr', 'ggplot2', 'knitr', 'readr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'iterators'

Packages suggested but not available for checking:
  'randomForest', 'doMC', 'doParallel', 'testthat', 'knitr',
  'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'astsa', 'reshape2'

Packages suggested but not available for checking:
  'psd', 'fBasics', 'knitr', 'markdown', 'testthat', 'rSFA'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'quantreg', 'quadprog'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'forecast', 'ggplot2', 'mtsdi', 'psych', 'quadprog', 'quantreg'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'forecast', 'thief', 'doParallel', 'foreach', 'ggplot2', 'purrr',
  'zoo'

Packages suggested but not available for checking:
  'GMDH', 'knitr', 'rmarkdown', 'roxygen2', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'tidyr', 'rlang', 'magrittr', 'lubridate', 'ggplot2',
  'future.apply', 'purrr', 'data.table', 'dtplyr', 'tibble'

Packages suggested but not available for checking:
  'glmnet', 'DT', 'knitr', 'rmarkdown', 'xgboost', 'randomForest',
  'testthat', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'colorspace', 'fracdiff', 'ggplot2', 'lmtest', 'magrittr', 'Rcpp',
  'timeDate', 'tseries', 'urca', 'zoo', 'RcppArmadillo'

Packages suggested but not available for checking:
  'forecTheta', 'knitr', 'rmarkdown', 'rticles', 'seasonal',
  'testthat', 'uroot'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'PSF', 'decomposedPSF', 'ggplot2', 'gridExtra', 'imputeTestbench',
  'reshape2', 'forecast', 'circlize', 'RColorBrewer'

Packages suggested but not available for checking: 'knitr', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'osqp', 'cli', 'corpcor', 'pracma'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'forecast', 'tseries'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'genetics', 'combinat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'tcltk2', 'tkrplot'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'GA', 'zoo', 'doParallel', 'ggplot2', 'directlabels', 'cowplot',
  'moments', 'Rcpp', 'jsonlite', 'progress', 'rcorpora', 'scales',
  'viridisLite', 'fields', 'RColorBrewer', 'rlang'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'evd'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'purrr', 'tibble', 'magrittr', 'dplyr'

Packages suggested but not available for checking:
  'testthat', 'randomForest', 'ranger', 'parsnip'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'randomForest', 'nloptr', 'moments'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'magrittr', 'rlang', 'glue', 'ggplot2', 'stringr', 'dplyr', 'tidyr',
  'proxy', 'purrr', 'ggridges', 'mvnfast', 'sf', 'sfheaders',
  'snakecase', 'tibble', 'yardstick', 'blockCV', 'forcats', 'patchwork'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'data.table', 'purrr'

Package suggested but not available for checking: 'randomForest'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ars', 'pracma'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'plyr', 'tidyr', 'ggplot2'

Package suggested but not available for checking: 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'ggthemes', 'tidyr', 'broom', 'purrr', 'forcats',
  'plyr', 'tibble', 'systemfit', 'ggpmisc', 'rlang', 'car', 'magrittr',
  'minpack.lm', 'FinCal', 'formattable', 'scales', 'ggdendro',
  'gridExtra', 'tidyselect', 'shiny', 'miniUI'

Packages suggested but not available for checking:
  'covr', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'dplyr', 'broom', 'rlang', 'tibble'

Packages suggested but not available for checking: 'metafor', 'labelled'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'magrittr', 'checkmate'

Packages suggested but not available for checking:
  'testthat', 'abind', 'knitr', 'rmarkdown', 'rmeta'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'igraph', 'ggplot2', 'rapportools', 'partykit', 'pkgKitten', 'knitr',
  'mlbench'

Package suggested but not available for checking: 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'plyr', 'dplyr', 'viridis', 'tidyr', 'moments', 'tibble'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'data.tree'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'APfun', 'doParallel', 'foreach', 'imager', 'plyr', 'progress',
  'raster', 'Rcpp', 'rgeos', 'sp'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'nloptr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rlang', 'magrittr'

Packages suggested but not available for checking: 'testthat', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'magrittr', 'tibble', 'reticulate'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'data.table', 'xml2', 'raster', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'homals', 'sampling', 'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
INFCvpe: no visible binding for global variable 'INFCstats'
INFCvpe: no visible binding for global variable 'INFCdomain'
Undefined global functions or variables:
  INFCdomain INFCstats
Skipping vignette re-building
Packages suggested but not available for checking:
  'shiny', 'testit', 'rmarkdown', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'test-all.R'
Running the tests in 'tests/test-all.R' failed.
Complete output:
  > library(testit)
  Error in library(testit) : there is no package called 'testit'
  Execution halted
Packages required but not available:
  'htmltools', 'htmlwidgets', 'knitr', 'rmarkdown'

Packages suggested but not available for checking:
  'testthat', 'DT', 'shiny', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'data.table'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'operator.tools'

Packages suggested but not available for checking: 'magrittr', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'covr', 'testthat'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Skipping vignette re-building
Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'meta'

VignetteBuilder packages required for checking but not installed:
  'knitr', 'rmarkdown'
Packages required but not available:
  'pedtools', 'pedprobr', 'ribd', 'pedmut', 'glue'

Packages suggested but not available for checking:
  'testthat', 'ggplot2', 'poibin'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dbscan', 'Distance', 'ggvoronoi', 'htmlwidgets', 'lidR', 'plotly',
  'progress', 'Rcpp', 'raster', 'scales', 'sp', 'tidyr', 'vroom',
  'RcppEigen'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'robustbase'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'dplyr', 'FactoMineR', 'forcats', 'ggplot2', 'knitr', 'likert',
  'rmarkdown', 'tidyr'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages required but not available: 'sp', 'maps', 'shapefiles'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ape', 'TreeSim'

Packages suggested but not available for checking:
  'paleotree', 'knitr', 'rmarkdown', 'devtools'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'raster', 'reshape2', 'dplyr', 'RStoolbox', 'yaImpute', 'sp',
  'spatstat.geom', 'spatstat', 'randomForest', 'rgdal', 'caret',
  'trend', 'data.table'

Packages suggested but not available for checking:
  'ggplot2', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'raster'

Packages suggested but not available for checking:
  'rgdal', 'knitr', 'rmarkdown', 'covr', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available: 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'dplyr', 'tidyr', 'purrr', 'ggplot2',
  'rbenchmark'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available: 'reshape', 'fields'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'corpcor'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'sm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'test-all.R'
Running the tests in 'tests/test-all.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'mclust', 'flexmix', 'prabclus', 'diptest', 'robustbase', 'kernlab'

Packages suggested but not available for checking:
  'tclust', 'pdfCluster', 'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ThreeWay', 'mvtnorm', 'ExPosition', 'rootSolve'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Packages suggested but not available for checking: 'testthat', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'data.table', 'Formula', 'Rcpp', 'dreamerr'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'fixest', 'pdftools'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'data.table', 'iotools'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'pmml', 'XML', 'R.utils', 'arules', 'foreach', 'doParallel', 'pryr'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'timeDate', 'timeSeries', 'fBasics', 'fAssets', 'fCopulae',
  'robustbase', 'Rglpk', 'slam', 'Rsolnp', 'quadprog', 'kernlab',
  'rneos'

Packages suggested but not available for checking:
  'Rsocp', 'Rnlminb2', 'Rdonlp2', 'Rsymphony', 'dplR', 'bcp', 'fGarch',
  'mvoutlier'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'cli', 'crayon', 'expsmooth', 'fma', 'forecast', 'ggplot2',
  'magrittr', 'purrr', 'rstudioapi'

Packages suggested but not available for checking:
  'GGally', 'gridExtra', 'Mcomp', 'seasonal', 'tidyverse', 'vars'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'cli', 'crayon', 'dplyr', 'fable', 'fabletools', 'feasts', 'ggplot2',
  'lubridate', 'magrittr', 'purrr', 'rstudioapi', 'tibble', 'tidyr',
  'tsibble', 'tsibbledata', 'urca'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'forecast', 'fma', 'expsmooth', 'lmtest', 'tseries'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'FuzzyNumbers', 'FuzzyNumbers.Ext.2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'longmemo', 'forecast', 'urca'
Packages required but not available: 'emg', 'numDeriv'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'abind'

Packages suggested but not available for checking:
  'wavelets', 'pcaPP', 'RandomFields', 'snowFT'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'imager', 'plyr'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'ggplot2', 'dplyr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Packages suggested but not available for checking:
  'covr', 'testthat', 'withr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'metafor', 'netmeta', 'plotrix'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'magrittr', 'msm', 'ggplot2', 'expint', 'tibble', 'numDeriv'

Packages suggested but not available for checking:
  'dplyr', 'plotly', 'gridExtra', 'egg'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'cmprsk'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'survC1', 'doBy', 'statmod', 'rootSolve', 'shiny'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'nleqslv', 'reshape2', 'ggplot2', 'numDeriv', 'Rcpp'

Packages suggested but not available for checking: 'knitr', 'gridExtra'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'bbmle', 'lamW'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Package required but not available: 'sampling'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'jsonlite'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'cccp', 'Rglpk', 'timeSeries'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Namespace in Imports field not imported from: 'utils'
  All declared Imports should be used.
Skipping vignette re-building
Packages suggested but not available for checking: 'e1071', 'XML', 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'
Errors in running code in vignettes:
when running code in 'lala2015pmml.Rtex'
  ...
Error in loadVignetteBuilder(pkgdir) : vignette builder 'R.rsp' not found
Calls: <Anonymous> -> loadVignetteBuilder
Execution halted

... incomplete output.  Crash?

  'lala2015pmml.Rtex' using 'UTF-8'... failed to complete the test
Packages required but not available: 'CCP', 'calibrate', 'corpcor'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'corrplot', 'fdadensity', 'fdapace', 'pracma', 'osqp'

Packages suggested but not available for checking: 'Rcpp', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'httr', 'jsonlite', 'rlang', 'tibble'

Packages suggested but not available for checking:
  'covr', 'dplyr', 'ggplot2', 'knitr', 'purrr', 'rmarkdown',
  'testthat', 'xts', 'zoo'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'partitions', 'mathjaxr'

Packages suggested but not available for checking:
  'knitr', 'testthat', 'magrittr', 'markdown', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages required but not available: 'magrittr', 'magic', 'plyr'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'smacof', 'vegan', 'ellipse'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'pkgfilecache', 'xml2'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'oro.nifti', 'gifti', 'cifti'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'neurobase', 'R.utils', 'reshape2'

Packages suggested but not available for checking:
  'magrittr', 'knitr', 'oro.nifti', 'rgl', 'rmarkdown', 'pander',
  'fslr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'glmertree', 'pre', 'WGCNA'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'fontquiver'

Packages suggested but not available for checking: 'covr', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'timeDate', 'timeSeries', 'fBasics', 'lmtest', 'polspline'

Package suggested but not available for checking: 'RUnit'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'sp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available: 'mvtnorm', 'fda', 'freqdom'

Package suggested but not available for checking: 'MARSS'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'mvtnorm', 'matrixcalc'

Packages suggested but not available for checking: 'fda', 'MARSS'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'GGally', 'FNN', 'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'reshape2', 'ggplot2', 'shiny'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'dplyr', 'rlang', 'stringr'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'vars', 'urca', 'knitr', 'pbapply'

Packages suggested but not available for checking:
  'testthat', 'stringr', 'mAr', 'reshape2', 'ggplot2', 'zoo', 'BigVAR'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'rmarkdown', 'knitr', 'DT', 'ggplot2', 'gtools'

Packages suggested but not available for checking:
  'haven', 'testthat', 'covr', 'shiny'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'ggplot2'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'stringr', 'miscTools', 'Hmisc', 'pROC', 'RcppArmadillo'

Packages suggested but not available for checking:
  'gplots', 'RColorBrewer', 'cvTools', 'glmnet', 'randomForest',
  'e1071', 'naivebayes', 'mRMRe', 'epiR', 'DescTools', 'irr',
  'survminer', 'BeSS', 'ggplot2', 'robustbase'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'sass', 'htmltools', 'shiny', 'rstudioapi'

Packages suggested but not available for checking:
  'shinyWidgets', 'shinydashboard', 'bs4Dash', 'knitr', 'rmarkdown',
  'testthat', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'FrF2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'DoE.base', 'sfsmisc', 'scatterplot3d', 'igraph'

Packages suggested but not available for checking: 'FrF2.catlg128', 'BsMD'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'tibble'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'callr', 'checkmate', 'desc', 'devtools', 'packager', 'pkgload',
  'reshape', 'RUnit', 'testthat', 'whoami', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages unavailable to check Rd xrefs: 'devtools', 'callr'
'LazyData' is specified without a 'data' directory
Running examples in 'fritools-Ex.R' failed
The error most likely occurred in:

> ### Name: get_options
> ### Title: Get Options For Packages
> ### Aliases: get_options
> 
> ### ** Examples
> 
> example("set_options", package = "fritools")

st_ptn> options("cleanr" = NULL)

st_ptn> defaults <- list(max_file_width = 80, max_file_length = 300,
st_ptn+                  max_lines = 65, max_lines_of_code = 50,
st_ptn+                  max_num_arguments = 5, max_nesting_depth = 3,
st_ptn+                  max_line_width = 80, check_return = TRUE)

st_ptn> set_options(package_name = "cleanr", defaults)
Error in loadNamespace(x) : there is no package called 'checkmate'
Calls: example ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
Running 'runit.R'
Running the tests in 'tests/runit.R' failed.
Last 13 lines of output:
      tapply
  
  > if (! dir.exists(unit_dir)) {
  +     stop("Can not find RUnit test directory ", unit_dir,
  +          ". Try to (re)install the package first.")
  + }
  > setup_file <- file.path(unit_dir, "setup.R")
  > if (file.exists(setup_file)) source(setup_file)
  > package_suite <- RUnit::defineTestSuite("fritools_unit_test",
  +                                         dirs = unit_dir,
  +                                         testFileRegexp = "^runit.*\\.[rR]",
  +                                         testFuncRegexp = "^test_+")
  Error in loadNamespace(x) : there is no package called 'RUnit'
  Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
  Execution halted
Packages required but not available:
  'digest', 'dplyr', 'ggplot2', 'Hmisc', 'plyr', 'Rcpp', 'sp',
  'spacetime', 'sparseinv'

Packages suggested but not available for checking:
  'covr', 'dggrids', 'gstat', 'INLA', 'knitr', 'mapproj', 'rgeos',
  'rgdal', 'spdep', 'splancs', 'testthat', 'verification'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages unavailable to check Rd xrefs: 'frm', 'frmpd'
Packages unavailable to check Rd xrefs: 'frm', 'frmhet'
Packages required but not available: 'partitions', 'Rmpfr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages unavailable to check Rd xrefs: 'frmhet', 'frmpd'
Package required but not available: 'Rcpp'

Packages suggested but not available for checking:
  'knitr', 'testthat', 'moments', 'PDQutils', 'e1071', 'microbenchmark'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/fromo.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'micEcon', 'lmtest', 'moments', 'Formula', 'miscTools', 'plm'

Packages suggested but not available for checking: 'MCMCpack', 'fdrtool'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'classInt', 'colorspace', 'rgl', 'sp'

Package suggested but not available for checking: 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'ggplot2', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'httr', 'jsonlite', 'tibble', 'tidyr'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'data.table', 'tidyverse', 'zoo', 'lubridate'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package unavailable to check Rd xrefs: 'FSA'
Packages required but not available:
  'car', 'dplyr', 'dunn.test', 'lmtest', 'plotrix', 'plyr', 'sciplot',
  'withr'

Packages suggested but not available for checking:
  'DescTools', 'fishmethods', 'FSAdata', 'knitr', 'marked', 'nlstools',
  'pkgdown', 'psych', 'Rcapture', 'rmarkdown', 'testthat', 'tibble',
  'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'reshape', 'freesurferformats', 'pkgfilecache', 'rgl', 'squash',
  'fields', 'data.table', 'magick'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'sphereplot', 'misc3d', 'viridis',
  'RColorBrewer'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'caret', 'gsubfn', 'hmeasure'

Packages suggested but not available for checking:
  'ada', 'arm', 'Boruta', 'bst', 'C50', 'car', 'caTools', 'Cubist',
  'e1071', 'earth', 'elasticnet', 'ellipse', 'evtree', 'extraTrees',
  'fastICA', 'foba', 'gam', 'gbm', 'glmnet', 'hda', 'HDclassif',
  'Hmisc', 'ipred', 'kernlab', 'kknn', 'klaR', 'kohonen', 'KRLS',
  'lars', 'leaps', 'LogicReg', 'mboost', 'mda', 'mlbench', 'neuralnet',
  'nodeHarvest', 'obliqueRF', 'pamr', 'partDSA', 'party', 'penalized',
  'penalizedLDA', 'pls', 'pROC', 'proxy', 'qrnn', 'quantregForest',
  'randomForest', 'RANN', 'relaxo', 'rFerns', 'rocc', 'rrcov', 'RRF',
  'rrlda', 'RSNNS', 'RWeka', 'sda', 'sparseLDA', 'spls', 'stepPlr',
  'superpc'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'kyotil', 'reticulate'

Packages suggested but not available for checking: 'R.rsp', 'RUnit'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rrcov', 'rJava', 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'digest', 'entropy', 'randomForest', 'RWeka'

Package suggested but not available for checking: 'mlbench'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'foreach', 'iterators', 'BH', 'RcppArmadillo', 'testthat'

Packages suggested but not available for checking:
  'testthat', 'RcppArmadillo', 'dplyr', 'RWeka', 'entropy',
  'FSelector', 'randomForest', 'doParallel', 'covr', 'htmltools',
  'magrittr', 'knitr', 'RTCGA.rnaseq', 'ggplot2', 'microbenchmark',
  'pbapply', 'tibble', 'rmarkdown', 'lintr', 'pkgdown', 'withr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'neuralnet', 'digest', 'caret', 'mlbench', 'Rdpack', 'GA', 'dplyr',
  'tidyr', 'prodlim', 'rlang', 'purrr', 'e1071'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'RSNNS'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'XML', 'purrr', 'dplyr', 'tibble', 'tidyr', 'rlang', 'googlesheets',
  'stringr', 'readxl', 'readtext', 'zip', 'xml2', 'rjson', 'shiny',
  'R.utils'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'oro.nifti', 'neurobase', 'R.utils'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'glasso', 'lars', 'mpmi', 'freqdom', 'randomForestSRC'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'sparsevar', 'plot.matrix', 'svMisc', 'MTS'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'FuzzyR', 'lsa'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rfast'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'labdsv'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'psych', 'corpcor', 'GPArotation'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'testthat', 'covr', 'pillar', 'tibble', 'crayon', 'rmarkdown',
  'knitr', 'withr', 'spelling', 'vctrs'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
GNU make is a SystemRequirements.
Running 'spelling.R'
  Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'lavaan', 'plyr', 'reshape2', 'ggplot2', 'scales', 'tcltk2',
  'gridExtra'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'igraph', 'mvtnorm', 'qtl', 'stringr', 'glmnet', 'RcppEigen'

Packages suggested but not available for checking:
  'plotly', 'knitr', 'rmarkdown', 'network', 'ggnetwork'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Package required but not available: 'Rcpp'

Packages suggested but not available for checking: 'testthat', 'lintr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages required but not available: 'CompQuadForm', 'SKAT', 'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Packages suggested but not available for checking:
  'testthat', 'bit64', 'data.table', 'lintr', 'nanotime', 'crayon'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'httr', 'pbapply', 'purrr', 'dplyr', 'tibble'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'jsonlite', 'flextable', 'tidyr', 'purrr', 'magrittr',
  'rmarkdown', 'rlang', 'stringr', 'tibble', 'tidyselect', 'xfun',
  'yaml', 'vctrs'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'qpdf'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'timeDate', 'timeSeries', 'fBasics'

Package suggested but not available for checking: 'RUnit'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'forecast', 'rainbow', 'sde', 'colorspace', 'pcaPP', 'fda',
  'pdfCluster', 'ecp', 'strucchange', 'e1071'

Packages suggested but not available for checking:
  'fds', 'R2jags', 'vars', 'meboot'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'zoo', 'BH'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'sna'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'dplyr'
'LazyData' is specified without a 'data' directory
Packages required but not available: 'snowfall', 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'lme4', 'afex'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'crul', 'magrittr', 'xml2', 'jsonlite', 'rplos', 'rcrossref',
  'microdemic', 'aRxiv', 'rentrez', 'data.table', 'hoardr', 'pdftools',
  'storr', 'tibble', 'digest', 'fauxpas'

Packages suggested but not available for checking:
  'roxygen2', 'testthat', 'pubchunks', 'vcr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'igraph', 'devtools', 'ggrepel'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'narray', 'biclust', 'reshape', 'RColorBrewer', 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'fda', 'dplyr', 'ggplot2', 'rlang', 'tidyr', 'patchwork'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'data.table'

Packages suggested but not available for checking: 'testthat', 'jsonlite'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'Rdpack', 'BH'

Packages suggested but not available for checking:
  'Ckmeans.1d.dp', 'DiffXTables', 'GridOnClusters', 'testthat',
  'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Hmisc'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'mvbutils'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'keras', 'tensorflow', 'fda.usc', 'fda', 'ggplot2', 'ggpubr',
  'caret', 'pbapply', 'reshape2', 'flux', 'doParallel', 'foreach'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'multcompView', 'clusterCrit'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'knitr', 'R.rsp'

VignetteBuilder packages required for checking but not installed:
  'knitr', 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
Packages required but not available:
  'dplyr', 'tidyr', 'stringr', 'purrr', 'magrittr', 'tibble',
  'tidyselect'

Packages suggested but not available for checking:
  'testthat', 'covr', 'knitr', 'rmarkdown', 'ggplot2', 'igraph'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'testthat', 'memoise', 'pryr'
Packages unavailable to check Rd xrefs: 'memoise', 'pryr'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'abind', 'fields', 'foreach'

Packages suggested but not available for checking:
  'covr', 'fda', 'ggplot2', 'gridExtra', 'reshape2', 'zoo', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'geometry', 'vegan'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'MFPCA', 'funData', 'ranger', 'pec', 'tdROC', 'prodlim', 'Rdpack',
  'purrr'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'fda', 'elasticnet'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'clue', 'GPArotation', 'mvtnorm', 'nleqslv', 'Rcsdp', 'RSpectra'

Packages suggested but not available for checking: 'rmarkdown', 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'foreach', 'knitr', 'scales', 'qdapRegex', 'microbenchmark',
  'doFuture', 'future', 'progressr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'fda'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'timeDate', 'timeSeries', 'fBasics', 'urca'

Package suggested but not available for checking: 'RUnit'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'fda', 'funFEM', 'abind', 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Hmisc', 'ROCR', 'ggplot2', 'gridExtra', 'pander', 'reshape2',
  'scales', 'dplyr', 'lazyeval', 'RColorBrewer', 'moments', 'entropy',
  'cli', 'stringr'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'glue', 'tibble', 'magrittr', 'broom', 'purrr', 'rlang',
  'tidyr'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'ggrepel', 'ggplot2', 'scales'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'COUNT', 'tidyr', 'covr', 'Cairo'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'ggplot2'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'purrr', 'testthat'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Skipping vignette re-building
Packages suggested but not available for checking:
  'ade4', 'ggplot2', 'knitr', 'rmarkdown', 'testthat', 'tidytext'

VignetteBuilder package required for checking but not installed: 'knitr'
Package unavailable to check Rd xrefs: 'ade4'
'LazyData' is specified without a 'data' directory
Running examples in 'funrar-Ex.R' failed
The error most likely occurred in:

> ### Name: distinctiveness
> ### Title: Functional Distinctiveness on site-species matrix
> ### Aliases: distinctiveness
> 
> ### ** Examples
> 
> data("aravo", package = "ade4")
Error in find.package(package, lib.loc, verbose = verbose) : 
  there is no package called 'ade4'
Calls: data -> find.package
Execution halted
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package required but not available: 'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
'LazyData' is specified without a 'data' directory
Packages required but not available: 'dbscan', 'Jmisc', 'Kendall', 'Rdpack'

Packages suggested but not available for checking:
  'ggplot2', 'knitr', 'patchwork', 'rmarkdown'

VignetteBuilder packages required for checking but not installed:
  'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rmpfr', 'gmp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'knitr', 'dplyr'

Packages suggested but not available for checking:
  'magrittr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'future', 'ellipsis', 'globals', 'lifecycle', 'purrr', 'rlang',
  'vctrs'

Packages suggested but not available for checking:
  'carrier', 'covr', 'dplyr', 'knitr', 'listenv', 'magrittr',
  'rmarkdown', 'testthat', 'withr', 'tidyselect'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'igraph', 'RcppEigen'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'irlba', 'Rcpp', 'glmnet', 'RSpectra', 'RcppEigen'

Packages suggested but not available for checking:
  'testthat', 'ggplot2', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'htmlwidgets', 'jsonlite', 'magrittr', 'caret', 'pROC', 'reshape2',
  'shiny'

Packages suggested but not available for checking: 'rmarkdown', 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'bbmle'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'ggplot2', 'mvtnorm'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages required but not available: 'lambda.r', 'futile.options'

Packages suggested but not available for checking: 'testthat', 'jsonlite'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'futile.options', 'RUnit'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/bayesianIncidenceRateModel.Rnw'
(Is a VignetteBuilder field missing?)
'LazyData' is specified without a 'data' directory
Files named as vignettes but with no recognized vignette engine:
   'vignettes/bayesianIncidenceRateModel.Rnw'
(Is a VignetteBuilder field missing?)
Packages required but not available: 'future', 'globals'

Packages suggested but not available for checking:
  'listenv', 'R.rsp', 'markdown'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'future', 'batchtools'

Packages suggested but not available for checking:
  'future.apply', 'listenv', 'markdown', 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'future', 'callr'

Packages suggested but not available for checking:
  'future.apply', 'listenv', 'markdown', 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'data.table', 'dplyr', 'ggplot2', 'ggthemes', 'leaflet', 'Rcpp',
  'stringr', 'tidyr'

Packages suggested but not available for checking:
  'gridExtra', 'knitr', 'mapproj', 'maps', 'rmarkdown', 'testthat',
  'weathermetrics'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'digest', 'globals', 'listenv', 'parallelly'

Packages suggested but not available for checking:
  'RhpcBLASctl', 'R.rsp', 'markdown'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'future', 'cli', 'crayon', 'prettyunits', 'sessioninfo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'assertthat', 'progress', 'purrr'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking: 'knitr', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
fuzzyBHexact: warning in round(pvals, d = dp): partial argument match
  of 'd' to 'digits'
fuzzyBHexact: warning in round(pprev, d = dp): partial argument match
  of 'd' to 'digits'
fuzzyBHexact: warning in round(p.minus, d = 4): partial argument match
  of 'd' to 'digits'
fuzzyBHexact: warning in round(p.plus, d = 4): partial argument match
  of 'd' to 'digits'
fuzzyBHexact: warning in round(a.minus, d = 4): partial argument match
  of 'd' to 'digits'
fuzzyBHexact: warning in round(a.plus, d = 4): partial argument match
  of 'd' to 'digits'
fuzzyBHexact: warning in round(new.p.minus, d = 4): partial argument
  match of 'd' to 'digits'
fuzzyBHexact: warning in round(new.p.plus, d = 4): partial argument
  match of 'd' to 'digits'
fuzzyBHexact: warning in round(pvals, d = 4): partial argument match of
  'd' to 'digits'
fuzzyBHexact: warning in round(pprev, d = 4): partial argument match of
  'd' to 'digits'
fuzzyBHexact: warning in round(tau, d = 4): partial argument match of
  'd' to 'digits'
probRejTies: no visible binding for global variable 'nn'
Undefined global functions or variables:
  nn
Packages required but not available:
  'randomForest', 'foreach', 'doParallel', 'ggplot2', 'mvtnorm'

Packages suggested but not available for checking: 'WGCNA', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'stringdist', 'stringr', 'dplyr', 'tidyr', 'purrr', 'geosphere',
  'tibble'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'ggplot2', 'qdapDictionaries', 'readr', 'rvest',
  'rmarkdown', 'maps', 'IRanges', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ROI', 'FuzzyNumbers', 'ROI.plugin.glpk'

Package suggested but not available for checking: 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'RankAggreg'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'FuzzyNumbers'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking: 'knitr', 'digest'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/FuzzyNumbersTutorial.Rnw'
(Is a VignetteBuilder field missing?)
Files named as vignettes but with no recognized vignette engine:
   'vignettes/FuzzyNumbersTutorial.Rnw'
(Is a VignetteBuilder field missing?)
Package required but not available: 'FuzzyNumbers'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'limSolve', 'quadprog'

Packages suggested but not available for checking:
  'testthat', 'FuzzyNumbers'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'shiny', 'plyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'maptools', 'PBSmapping', 'raster', 'sp'
Packages required but not available:
  'MultinomialCI', 'FuzzyNumbers', 'DEoptim'

Packages suggested but not available for checking: 'markovchain', 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'FuzzyNumbers', 'polynom'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
NeedsCompilation field must take value 'yes' or 'no'
'library' or 'require' call to 'splines' which was already attached by Depends.
  Please remove these calls from your code.
Package in Depends field not imported from: 'splines'
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
gensurf: no visible global function definition for 'persp'
gensurf: no visible global function definition for 'rainbow'
plotMF: no visible global function definition for 'plot.new'
plotMF: no visible global function definition for 'plot.window'
plotMF: no visible global function definition for 'runif'
plotMF: no visible global function definition for 'predict'
plotMF: no visible global function definition for 'interpSpline'
plotMF: no visible global function definition for 'lines'
plotMF: no visible global function definition for 'text'
plotMF: no visible global function definition for 'title'
plotMF: no visible global function definition for 'axis'
plotMF: no visible global function definition for 'box'
Undefined global functions or variables:
  axis box interpSpline lines persp plot.new plot.window predict
  rainbow runif text title
Consider adding
  importFrom("grDevices", "rainbow")
  importFrom("graphics", "axis", "box", "lines", "persp", "plot.new",
             "plot.window", "text", "title")
  importFrom("stats", "predict", "runif")
to your NAMESPACE file.
Packages required but not available: 'reticulate', 'R6'

Packages suggested but not available for checking:
  'testthat', 'covr', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'cvTools'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package unavailable to check Rd xrefs: 'cffdrs'
Packages required but not available:
  'collapse', 'Formula', 'Rcpp', 'dreamerr', 'Matrix.utils',
  'generics', 'gtools', 'RcppEigen'

Packages suggested but not available for checking:
  'fixest', 'lfe', 'data.table', 'fabricatr', 'tinytest', 'covr',
  'knitr', 'rmarkdown', 'spelling', 'broom', 'modelsummary'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'zoo', 'strucchange', 'car', 'sandwich'

Packages suggested but not available for checking: 'lmtest', 'foreach'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'doFuture', 'foreach', 'future', 'geosphere', 'ggplot2', 'progressr'

Packages suggested but not available for checking:
  'magrittr', 'progress', 'scales', 'tictoc'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'fastmatch', 'data.table', 'hutils'

Packages suggested but not available for checking:
  'testthat', 'withr', 'rlang', 'zoo', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'igraph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'KEGGREST', 'minval', 'sybil'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'shiny', 'xlsx', 'rJava', 'xlsxjars', 'reshape2', 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'jsonlite', 'cgdsr', 'stringr', 'htmlwidgets'

Packages suggested but not available for checking:
  'shiny', 'knitr', 'rmarkdown', 'kableExtra'

VignetteBuilder packages required for checking but not installed:
  'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'GA', 'psych'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'hash'

Package suggested but not available for checking: 'ArrayBin'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'igraph', 'Rcpp', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'unittest'
Running 'test-gadget.R'
Running the tests in 'tests/test-gadget.R' failed.
Complete output:
  > library(gadget2)
  > library(unittest, quietly = TRUE)
  Error in library(unittest, quietly = TRUE) : 
    there is no package called 'unittest'
  Execution halted
FPTsimul: no visible global function definition for 'runif'
histplot: no visible global function definition for 'dev.new'
histplot: no visible global function definition for 'hist'
histplot: no visible global function definition for 'par'
histplot: no visible global function definition for 'legend'
mdt: no visible binding for global variable 'deltat'
plot.FPTdensity: no visible global function definition for 'dev.new'
res_summary: no visible global function definition for 'write.table'
res_summary: no visible global function definition for 'sd'
res_summary: no visible global function definition for 'median'
vdt: no visible binding for global variable 'deltat'
Undefined global functions or variables:
  deltat dev.new hist legend median par runif sd write.table
Consider adding
  importFrom("grDevices", "dev.new")
  importFrom("graphics", "hist", "legend", "par")
  importFrom("stats", "deltat", "median", "runif", "sd")
  importFrom("utils", "write.table")
to your NAMESPACE file.
Packages required but not available:
  'sp', 'classInt', 'sf', 'rgdal', 'RColorBrewer', 'maptools',
  'stringr', 'raster', 'rosm', 'jsonlite', 'gridExtra', 'rgeos',
  'ggmap', 'ggspatial', 'ggplot2', 'dplyr', 'prettymapr'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'kableExtra', 'mapproj', 'tidyr', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'matrixStats', 'R.methodsS3'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'geosphere', 'magrittr', 'maptools', 'raster', 'rlang', 'sp'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'fields', 'FNN'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
CI.RMSEA: no visible global function definition for 'qchisq'
CI.RMSEA: no visible global function definition for 'pchisq'
GAIPE.RMSEA: no visible global function definition for 'par'
GAIPE.RMSEA: no visible global function definition for 'abline'
GAIPE.RMSEA: no visible global function definition for 'colors'
GAIPE.RMSEA: no visible global function definition for 'text'
GAIPE.RMSEA: no visible global function definition for 'arrows'
GAIPE.RMSEA: no visible global function definition for 'points'
GAIPE.RMSEA: no visible global function definition for 'axis'
GAIPE.RMSEA: no visible global function definition for 'lines'
GAIPE.RMSEA: no visible global function definition for 'legend'
GAIPE.RMSEA: no visible global function definition for 'pchisq'
GAIPE.RMSEA: no visible global function definition for 'qchisq'
GAIPE.RMSEA: no visible global function definition for 'mtext'
GAIPE.RMSEA: no visible global function definition for 'title'
PA.RMSEA: no visible global function definition for 'pchisq'
PA.RMSEA: no visible global function definition for 'qchisq'
Undefined global functions or variables:
  abline arrows axis colors legend lines mtext par pchisq points qchisq
  text title
Consider adding
  importFrom("grDevices", "colors")
  importFrom("graphics", "abline", "arrows", "axis", "legend", "lines",
             "mtext", "par", "points", "text", "title")
  importFrom("stats", "pchisq", "qchisq")
to your NAMESPACE file.
Packages required but not available:
  'assertthat', 'crul', 'data.table', 'digest', 'httr', 'jsonlite',
  'sf', 'sp', 'stringr', 'wellknown'

Packages suggested but not available for checking:
  'covr', 'dplyr', 'ggplot2', 'knitr', 'ozmaps', 'pkgdown',
  'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'circlize', 'data.table', 'doParallel', 'dplyr', 'DT', 'ggplot2',
  'foreach', 'RColorBrewer', 'rtracklayer', 'stringr', 'unbalhaar',
  'webshot'

Packages suggested but not available for checking:
  'Hmisc', 'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'genalg', 'DEoptim'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'magrittr', 'dplyr', 'httr', 'jsonlite', 'lubridate', 'rlang',
  'tidyjson', 'tibble', 'tidyr', 'tidyselect'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'lme4', 'geoR'
Packages required but not available:
  'ArgumentCheck', 'clusterCrit', 'NbClust', 'GA', 'ggplot2', 'Rfast'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'doParallel', 'gtools', 'foreach'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'mboost', 'stabs'

Packages suggested but not available for checking:
  'gamlss', 'gamlss.dist', 'BayesX', 'R2BayesX'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'mboost'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'randomForest', 'latticeExtra'

Packages suggested but not available for checking:
  'leaps', 'quantreg', 'sp', 'diagram', 'oz', 'forecast', 'kernlab',
  'Ecdat', 'mlbench', 'DAAGbio', 'car', 'DAAG', 'ape', 'knitr',
  'prettydoc', 'rmarkdown', 'bookdown'

VignetteBuilder packages required for checking but not installed:
  'knitr', 'rmarkdown', 'bookdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'VineCopula', 'gsl', 'numDeriv', 'copula', 'igraph', 'foreach',
  'doParallel'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'gam', 'mlbench', 'caTools'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'gridExtra'

Packages suggested but not available for checking: 'hexbin', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'shiny'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'maxLik', 'Formula', 'stringr'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'e1071', 'lpSolveAPI'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'lpSolveAPI', 'combinat', 'gtools', 'ineq', 'kappalab'

Package suggested but not available for checking: 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'gamlss.dist', 'gamlss'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'gamlss.dist', 'gamlss'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'gamlss.dist', 'gamlss'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'gamlss.dist', 'gamlss'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rpanel', 'gamlss.dist', 'gamlss.tr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package unavailable to check Rd xrefs: 'gamlss'
Packages required but not available:
  'gamlss', 'foreach', 'doParallel', 'gamlss.data', 'gamlss.dist',
  'glmnet'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'gamlss', 'gamlss.dist'

Packages suggested but not available for checking:
  'gamlss.cens', 'gamlss.tr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'gamlss', 'glmnet', 'lars'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'gamlss.dist', 'gamlss'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'gamlss'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'gamlss.data', 'gamlss.dist'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'gamlss.dist', 'gamlss', 'gamlss.add', 'spam'

Packages suggested but not available for checking:
  'knitr', 'spdep', 'maptools'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'gamlss.dist', 'gamlss'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'lme4'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'gamm4', 'doParallel', 'foreach', 'plotly', 'RColorBrewer'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'IsoplotR', 'rlang', 'rxylib'

Packages suggested but not available for checking:
  'covr', 'knitr', 'magrittr', 'rmarkdown', 'testthat', 'vdiffr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'foreach'

Packages suggested but not available for checking: 'akima', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'glmnet', 'robustHD', 'foreach', 'doParallel', 'Rcpp',
  'RcppArmadillo'

Package suggested but not available for checking: 'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available: 'foreach', 'mda'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'assertthat', 'httpuv', 'httr', 'googleAnalyticsR', 'jsonlite',
  'lazyeval', 'lubridate', 'plyr', 'R6', 'rvest', 'stringr', 'XML',
  'xml2', 'scales', 'selectr', 'tibble'

Packages suggested but not available for checking:
  'devtools', 'ggplot2', 'knitr', 'rmarkdown', 'testthat', 'dplyr',
  'purrr', 'tidyr', 'spelling', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'GANPA'
Package required but not available: 'GANPAdata'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'foreach', 'iterators'

Packages suggested but not available for checking:
  'doParallel', 'doRNG', 'knitr', 'lhs', 'caret', 'mlbench', 'e1071',
  'kernlab'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'fields', 'foreach', 'Rcpp', 'quantreg'

Packages suggested but not available for checking:
  'roxygen2', 'spam', 'testthat', 'abind'

Packages which this enhances but not available for checking:
  'raster', 'doParallel', 'doMPI'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'reshape2'

Packages suggested but not available for checking:
  'knitr', 'dendsort', 'RColorBrewer', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'tibble'

Packages suggested but not available for checking:
  'dplyr', 'ggplot2', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'BradleyTerry2', 'MCMCglmm', 'R2jags', 'bdsmatrix', 'calibrate',
  'circlize', 'coda', 'cowplot', 'coxme', 'dplyr', 'forestplot',
  'gap.datasets', 'genetics', 'ggplot2', 'haplo.stats', 'jsonlite',
  'kinship2', 'magic', 'matrixStats', 'meta', 'metafor', 'mets',
  'pedigree', 'pedigreemm', 'plotly', 'plotrix', 'reshape', 'rmeta',
  'rms'
Packages unavailable to check Rd xrefs: 'haplo.stats', 'genetics'
Errors in running code in vignettes:
when running code in 'gap.Rnw'
  ...
> library(gap)
gap version 1.2.3-1

> data(lukas)

> library(kinship2)

  When sourcing 'gap.R':
Error: there is no package called 'kinship2'
Execution halted

  'gap.Rnw'... failed
  'jss.Rnw'... OK
Error(s) in re-building vignettes:
  ...
--- re-building 'gap.Rnw' using Sweave
gap version 1.2.3-1

Error: processing vignette 'gap.Rnw' failed with diagnostics:
 chunk 1 
Error in library(kinship2) : there is no package called 'kinship2'

--- failed re-building 'gap.Rnw'

--- re-building 'jss.Rnw' using Sweave
--- finished re-building 'jss.Rnw'

SUMMARY: processing the following file failed:
  'gap.Rnw'

Error: Vignette re-building failed.
Execution halted
Packages required but not available:
  'foreach', 'iterators', 'cli', 'crayon', 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'doParallel', 'doRNG', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rsolnp'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'parsnip', 'rugarch', 'rmgarch', 'rlang', 'magrittr', 'purrr',
  'dplyr', 'stringr', 'tibble', 'tidyr', 'dials'

Packages suggested but not available for checking:
  'tidymodels', 'tidyverse', 'modeltime', 'timetk', 'lubridate',
  'knitr', 'rmarkdown', 'roxygen2', 'testthat', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'zoo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'data.table', 'vcfR'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'cli', 'fs', 'glue', 'httr', 'jsonlite', 'rappdirs', 'rlang',
  'rstudioapi', 'withr'

Packages suggested but not available for checking:
  'covr', 'httpuv', 'knitr', 'mockr', 'rmarkdown', 'sodium',
  'spelling', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'shiny', 'attempt'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'forecast', 'ggplot2', 'Rsolnp', 'pracma', 'signal', 'zoo',
  'lubridate', 'crayon', 'nloptr', 'BB', 'GA', 'dfoptim', 'pso', 'FKF',
  'tswge'

Packages suggested but not available for checking:
  'longmemo', 'yardstick', 'tidyverse', 'testthat', 'knitr',
  'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

Package suggested but not available for checking: 'chemometrics'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'sfsmisc', 'data.table', 'AICcmodavg'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder packages required for checking but not installed:
  'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'ggplot2', 'RSpectra', 'RcppArmadillo'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'Rsolnp', 'xts', 'numDeriv', 'zoo', 'cubature',
  'RcppArmadillo'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'dplyr', 'tibble', 'ggplot2', 'rstan', 'assertthat',
  'stringr', 'shiny', 'utf8', 'StanHeaders', 'BH', 'RcppEigen',
  'RcppParallel'

Packages suggested but not available for checking:
  'rmarkdown', 'knitr', 'covr', 'testthat', 'vdiffr', 'rstantools'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppParallel', 'RcppEigen'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/gaston-faq.Rnw'
   'inst/doc/gaston.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'spatstat.geom', 'spatstat.core', 'spatstat.linnet', 'spatstat',
  'fields', 'lifecycle', 'raster', 'sparr', 'SpatialPack', 'tibble'

Packages suggested but not available for checking:
  'R.rsp', 'spelling', 'testthat'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'R6', 'lbfgs', 'RcppArmadillo'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'microbenchmark', 'numDeriv'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'deSolve'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages unavailable to check Rd xrefs: 'fortunes', 'rmsfact'
Packages required but not available: 'foreach', 'doParallel'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'metR', 'rgl', 'viridisLite'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'polynom', 'orthopolynom'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'FD', 'GA'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'sp', 'jpeg', 'zoo', 'scales', 'shiny'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'GB2', 'minpack.lm', 'ineq', 'numDeriv'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'cubature', 'hypergeo', 'laeken', 'numDeriv', 'survey'

Package suggested but not available for checking: 'simFrame'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'curl', 'functional', 'httr', 'magrittr', 'readxl', 'rvest', 'xml2',
  'xts'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'gsl', 'Runuran', 'RcppNumerical', 'RcppEigen'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'readr', 'stringr', 'jsonlite', 'lubridate', 'httr',
  'purrr', 'curl'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'mvtnorm', 'SKAT', 'BH'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'bindata', 'rje', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'gbm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'gbm', 'dismo', 'beepr', 'mapplots', 'maptools', 'rgdal', 'rgeos',
  'raster', 'sf', 'shapefiles'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'covr', 'gridExtra', 'knitr', 'pdp', 'RUnit', 'tinytest', 'vip',
  'viridis'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/gbm.Rnw'
(Is a VignetteBuilder field missing?)
Packages unavailable to check Rd xrefs: 'viridis', 'pdp'
Files named as vignettes but with no recognized vignette engine:
   'vignettes/gbm.Rnw'
(Is a VignetteBuilder field missing?)
Packages required but not available:
  'magrittr', 'data.table', 'rgl', 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package in Depends field not imported from: 'tools'
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
Unexported objects imported by ':::' calls:
  'tools:::.Rd_get_argument_names' 'tools:::RdTags' 'tools:::fetchRdDB'
  See the note in ?`:::` about the use of this operator.
Package required but not available: 'rjags'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'doParallel', 'doRNG', 'foreach', 'gbm', 'earth'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rdpack'

Packages suggested but not available for checking:
  'classGraph', 'graph', 'Rgraphviz'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
coeplot: no visible global function definition for 'axis'
coeplot: no visible global function definition for 'lines'
coeplot: no visible global function definition for 'title'
coeplot: no visible global function definition for 'legend'
corplot: no visible global function definition for 'par'
corplot: no visible global function definition for 'pairs'
corplot: no visible global function definition for 'strwidth'
lm.estimate: no visible global function definition for 'as.formula'
lm.estimate: no visible global function definition for 'glm'
panel.cor: no visible global function definition for 'par'
panel.cor: no visible global function definition for 'cor'
panel.cor: no visible global function definition for 'strwidth'
panel.cor: no visible global function definition for 'text'
panel.smooth.r: no visible global function definition for 'par'
panel.smooth.r: no visible global function definition for 'points'
panel.smooth.r: no visible global function definition for 'lines'
posplot: no visible global function definition for 'par'
posplot: no visible global function definition for 'barplot'
posplot: no visible global function definition for 'points'
Undefined global functions or variables:
  as.formula axis barplot cor glm legend lines pairs par points
  strwidth text title
Consider adding
  importFrom("graphics", "axis", "barplot", "legend", "lines", "pairs",
             "par", "points", "strwidth", "text", "title")
  importFrom("stats", "as.formula", "cor", "glm")
to your NAMESPACE file.
Packages required but not available: 'caTools', 'dplyr'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'readr', 'reshape2', 'stringr', 'pbapply', 'tibble'

Packages suggested but not available for checking:
  'knitr', 'pander', 'rmarkdown', 'testthat', 'vegan'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
gcat.test: no visible global function definition for 'pnorm'
generate_sub: no visible global function definition for 'runif'
pfcn: no visible global function definition for 'pnorm'
Undefined global functions or variables:
  pnorm runif
Consider adding
  importFrom("stats", "pnorm", "runif")
to your NAMESPACE file.
Package required but not available: 'raster'

Package suggested but not available for checking: 'paleofire'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'cmprsk', 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'xml2', 'httr', 'rvest', 'pbapply', 'data.table', 'wordcloud', 'tm'

Packages suggested but not available for checking:
  'covr', 'testthat', 'spelling'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'EQL', 'FNN', 'latticeExtra', 'numDeriv', 'scatterplot3d',
  'snowfall', 'sp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library("testthat")
  Error in library("testthat") : there is no package called 'testthat'
  Execution halted
Skipping vignette re-building
Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages required but not available:
  'betareg', 'car', 'Formula', 'lmtest', 'sandwich', 'sp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rjags', 'coda'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppProgress'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'ggplot2'
Running examples in 'GDAdata-Ex.R' failed
The error most likely occurred in:

> ### Name: Decathlon
> ### Title: Top performances in the Decathlon from 1985 to 2006.
> ### Aliases: Decathlon
> ### Keywords: datasets
> 
> ### ** Examples
> 
> data(Decathlon, package="GDAdata")
> summary(Decathlon[, grep("P.*", names(Decathlon))])
   Polevault         P100m             Plj              Psp       
 Min.   :2.850   Min.   : 597.0   Min.   : 569.0   Min.   :418.0  
 1st Qu.:4.200   1st Qu.: 765.0   1st Qu.: 757.0   1st Qu.:622.0  
 Median :4.400   Median : 806.0   Median : 804.0   Median :672.0  
 Mean   :4.405   Mean   : 806.6   Mean   : 807.4   Mean   :674.6  
 3rd Qu.:4.650   3rd Qu.: 847.0   3rd Qu.: 857.0   3rd Qu.:726.0  
 Max.   :5.760   Max.   :1042.0   Max.   :1089.0   Max.   :941.0  
      Phj           P400m         P110h             Ppv              Pdt       
 Min.   : 396   Min.   :532   Min.   : 526.0   Min.   : 321.0   Min.   :231.0  
 1st Qu.: 696   1st Qu.:746   1st Qu.: 777.0   1st Qu.: 673.0   1st Qu.:600.0  
 Median : 749   Median :789   Median : 824.0   Median : 731.0   Median :655.0  
 Mean   : 749   Mean   :788   Mean   : 821.6   Mean   : 734.4   Mean   :657.8  
 3rd Qu.: 803   3rd Qu.:832   3rd Qu.: 868.0   3rd Qu.: 804.0   3rd Qu.:713.0  
 Max.   :1061   Max.   :998   Max.   :1044.0   Max.   :1152.0   Max.   :970.0  
      Pjt             P1500      
 Min.   : 330.0   Min.   :121.0  
 1st Qu.: 588.0   1st Qu.:607.0  
 Median : 644.0   Median :669.0  
 Mean   : 648.1   Mean   :661.7  
 3rd Qu.: 707.0   3rd Qu.:725.0  
 Max.   :1040.0   Max.   :946.0  
> library(ggplot2)
Error in library(ggplot2) : there is no package called 'ggplot2'
Execution halted
Packages required but not available:
  'Rcpp', 'RcppProgress', 'jsonlite', 'ncdf4'

Packages suggested but not available for checking:
  'knitr', 'magrittr', 'rmarkdown', 'stars', 'magick', 'sf'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'raster', 'sf'

Packages suggested but not available for checking:
  'rasterVis', 'RColorBrewer', 'testthat', 'gdalUtils'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'sp', 'foreach', 'R.utils', 'raster', 'rgdal'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'gtools'

Package suggested but not available for checking: 'RUnit'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'wdm', 'FactoMineR', 'nleqslv', 'ggplot2', 'ggrepel', 'RColorBrewer',
  'rlang'

Packages suggested but not available for checking:
  'WeightedCluster', 'moreparty'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'sp', 'maptools', 'rgeos', 'rgdal', 'igraph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'plyr', 'TimeWarp'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'DBI', 'leaflet', 'shiny', 'ggplot2', 'odbc', 'dplyr', 'stringr',
  'DT', 'XML', 'data.table', 'R.utils', 'readr', 'jsonlite',
  'progress', 'rgbif', 'httr', 'shinyWidgets', 'shinycssloaders'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'magick', 'pdftools'

Packages suggested but not available for checking:
  'gridBezier', 'grImport', 'metapost', 'ssh', 'stevedore'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'alabama', 'ggplot2', 'nloptr', 'numDeriv', 'Rcpp', 'Rsolnp',
  'shiny', 'shinydashboard', 'RcppArmadillo'

Packages suggested but not available for checking:
  'CDM', 'testthat', 'pkgdown', 'poLCA', 'stringr', 'knitr',
  'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'raster', 'igraph', 'sp'

Packages suggested but not available for checking:
  'knitr', 'markdown', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'raster', 'foreach', 'doParallel', 'Rcpp', 'reshape2', 'vegan'

Package suggested but not available for checking: 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'httr', 'jsonlite', 'stringi', 'magrittr', 'tinytest'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'xts', 'zoo', 'Rcpp', 'doParallel', 'foreach', 'RcppArmadillo'

Packages suggested but not available for checking: 'testthat', 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'badger'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available: 'Rcpp', 'systemfonts'

Packages suggested but not available for checking:
  'htmltools', 'testthat', 'fontquiver', 'curl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'data.table'

Packages suggested but not available for checking: 'gdxrrw', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'autoimage', 'optimx', 'Rcpp'

Packages suggested but not available for checking:
  'sp', 'sf', 'testthat', 'geoR', 'gstat', 'spam', 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'Rmpfr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'gee', 'Rcpp', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rootSolve', 'mvtnorm'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'geepack'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'gee'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'geepack', 'testthat', 'MuMIn'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'broom', 'magrittr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'gee', 'matrixcalc'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rootSolve', 'numDeriv', 'lme4'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'dplyr', 'moments', 'sandwich', 'inferference',
  'xtable', 'AER', 'ICSNP', 'gee', 'ivpack', 'saws', 'rmarkdown',
  'geepack', 'covr', 'mvtnorm'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ape', 'mvtnorm', 'subplex', 'deSolve', 'digest', 'Rcpp', 'coda',
  'ncbit', 'colorspace', 'phytools'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'survAUC', 'pcaPP', 'Hmisc', 'quantreg', 'reshape2', 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'mvtnorm', 'bindata', 'nleqslv', 'pracma', 'speedglm', 'rje',
  'geepack'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Package required but not available: 'signal'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'covr', 'testthat', 'knitr', 'rmarkdown', 'readr'

VignetteBuilder package required for checking but not installed: 'knitr'
Namespace in Imports field not imported from: 'methods'
  All declared Imports should be used.
'LazyData' is specified without a 'data' directory
Running examples in 'gemma2-Ex.R' failed
The error most likely occurred in:

> ### Name: calc_XHiY
> ### Title: Calculate XHiY
> ### Aliases: calc_XHiY
> 
> ### ** Examples
> 
> readr::read_tsv(system.file("extdata",
+ "mouse100.pheno.txt",
+ package = "gemma2"),
+ col_names = FALSE) -> pheno
Error in loadNamespace(x) : there is no package called 'readr'
Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'msm', 'plyr', 'data.table'

Package suggested but not available for checking: 'muhaz'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'coda', 'igraph', 'meta', 'plyr', 'rjags', 'truncnorm', 'Rglpk',
  'forcats'

Packages suggested but not available for checking: 'testthat', 'XML'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'clinfun'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'raster', 'gdistance', 'sp', 'stringr', 'BH'

Packages suggested but not available for checking:
  'knitr', 'testthat', 'rmarkdown', 'formatR'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'minpack.lm', 'plyr', 'pracma', 'tidyr',
  'naturalsort', 'rlang'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'oompaBase', 'ClassDiscovery'

Packages suggested but not available for checking: 'Biobase', 'xtable'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
plot.rbga: no visible global function definition for 'par'
plot.rbga: no visible global function definition for 'hist'
plot.rbga: no visible global function definition for 'lines'
rbga: no visible global function definition for 'runif'
rbga: no visible global function definition for 'dnorm'
rbga.bin: no visible global function definition for 'dnorm'
rbga.bin: no visible global function definition for 'runif'
Undefined global functions or variables:
  dnorm hist lines par runif
Consider adding
  importFrom("graphics", "hist", "lines", "par")
  importFrom("stats", "dnorm", "runif")
to your NAMESPACE file.
Packages required but not available: 'Kendall', 'fitdistrplus'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'RColorBrewer', 'ape', 'ggnetwork', 'ggplot2', 'ggraph', 'igraph',
  'network', 'phangorn', 'stringdist', 'visNetwork', 'reshape2',
  'S4Vectors', 'shiny', 'ggseqlogo', 'ggtree', 'dplyr', 'VennDiagram',
  'futile.logger', 'future', 'future.apply', 'ShortRead', 'Biostrings'

Packages suggested but not available for checking:
  'BiocManager', 'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package unavailable to check Rd xrefs: 'poibin'
Packages required but not available:
  'lars', 'glmnet', 'plus', 'C50', 'randomForest', 'e1071'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
genmvnorm: no visible global function definition for 'rnorm'
Undefined global functions or variables:
  rnorm
Consider adding
  importFrom("stats", "rnorm")
to your NAMESPACE file.
Packages required but not available: 'dplyr', 'httr', 'jsonlite'

Packages suggested but not available for checking:
  'genderdata', 'ggplot2', 'knitr', 'testthat', 'rmarkdown', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'GENEAread', 'changepoint', 'signal'

Packages suggested but not available for checking:
  'waveslim', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'bitops', 'mmap'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'rgl', 'misc3d', 'GENEAread'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'stringr', 'svDialogs', 'repmis'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'G1DBN', 'igraph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'longitudinal', 'fdrtool'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'xml2', 'Biobase', 'annotate', 'GEOquery'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
t1p1: no visible global function definition for 'var'
t1p1: no visible global function definition for 'pt'
t1p2: no visible global function definition for 'pt'
Undefined global functions or variables:
  pt var
Consider adding
  importFrom("stats", "pt", "var")
to your NAMESPACE file.
Packages required but not available:
  'rentrez', 'stringr', 'dplyr', 'httr', 'curl'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'plotrix'
load.genelist: no visible global function definition for 'read.delim'
Undefined global functions or variables:
  read.delim
Consider adding
  importFrom("utils", "read.delim")
to your NAMESPACE file.
Package required but not available: 'stringr'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rgraphviz', 'graph', 'bnlearn', 'gRain', 'igraph', 'scales', 'ggm'

Package suggested but not available for checking: 'RHugin'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'corpcor', 'longitudinal', 'fdrtool'

Packages suggested but not available for checking: 'graph', 'Rgraphviz'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
Packages required but not available: 'Rcpp', 'stringr', 'RcppProgress'

Packages suggested but not available for checking: 'testthat', 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'np', 'xtable', 'meboot', 'psych'

Package suggested but not available for checking: 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'reshape'

Packages suggested but not available for checking: 'mlogit', 'ordinal'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'CVST', 'kernlab', 'xgboost'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'DistributionUtils'

Packages suggested but not available for checking:
  'VarianceGamma', 'actuar', 'SkewHyperbolic', 'RUnit'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'ggplot2', 'RcppArmadillo'

Packages suggested but not available for checking:
  'DataVisualizations', 'rgl', 'png', 'reshape2', 'fields',
  'ABCanalysis', 'plotly', 'deldir', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages suggested but not available for checking:
  'covr', 'pkgload', 'testthat', 'tibble'
Package unavailable to check Rd xrefs: 'tibble'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Skipping vignette re-building
Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package in Depends field not imported from: 'parallel'
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
Packages required but not available:
  'corpus', 'DT', 'gsl', 'gtools', 'hellno', 'htmltools',
  'htmlwidgets', 'lubridate', 'matrixStats', 'mvtnorm', 'Rcpp',
  'shiny', 'shinyjs'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'shinytest', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'httr', 'jsonlite', 'dplyr'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'tidyverse'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'combinat', 'gdata', 'gtools', 'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages required but not available:
  'exactextractr', 'sp', 'spdep', 'raster', 'rgeos', 'sf'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'mvtnorm', 'sn'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'doParallel', 'foreach', 'actuar', 'EnvStats', 'extraDistr',
  'ggplot2', 'matrixcalc', 'reshape2', 'rmutil', 'ssdtools', 'VaRES',
  'VGAM'

Packages suggested but not available for checking:
  'gamlss.dist', 'GeneralizedHyperbolic', 'gld', 'GLDEX', 'sgt',
  'skewt', 'sn', 'stabledist'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Package suggested but not available for checking: 'mlpack'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'genieclust', 'Rcpp'

Packages suggested but not available for checking: 'testthat', 'stringi'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'readr', 'tibble', 'Rcpp'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'lfa', 'BEDMatrix', 'snpStats',
  'pryr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'rvest', 'stringr', 'tidyr', 'purrr', 'readr', 'tibble',
  'tidytext', 'reshape2', 'rlang'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'curl', 'dplyr', 'httr', 'purrr', 'rvest', 'stringr', 'tibble',
  'xml2'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
Package in Depends field not imported from: 'KernSmooth'
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
KernSec: no visible global function definition for 'na.omit'
KernSur: no visible global function definition for 'na.fail'
KernSur: no visible global function definition for 'na.omit'
bandwidthselect: no visible global function definition for 'na.omit'
bandwidthselect: no visible global function definition for 'dpik'
correlationselect: no visible global function definition for 'cor'
nearest: no visible global function definition for 'na.fail'
nearest: no visible global function definition for 'na.omit'
per: no visible global function definition for 'na.fail'
Undefined global functions or variables:
  cor dpik na.fail na.omit
Consider adding
  importFrom("stats", "cor", "na.fail", "na.omit")
to your NAMESPACE file.
Package required but not available: 'igraph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'kinship2', 'bootstrap', 'quadprog', 'foreach', 'doParallel'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'foreach', 'distr', 'manipulate', 'doParallel'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'magic'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'S4Vectors', 'BiocGenerics', 'GenomicRanges', 'IRanges', 'R.utils',
  'RUnit'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'leaflet', 'shiny', 'shinyjs', 'knitr', 'DT', 'shinycssloaders',
  'purrr', 'dplyr', 'magrittr', 'tidyr', 'ggplot2', 'tibble',
  'forcats', 'readr', 'rmarkdown', 'rio', 'maps', 'shinyWidgets',
  'rlang'

Package suggested but not available for checking: 'tidyverse'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'ggridges', 'hierfstat', 'Rcpp', 'RcppParallel', 'rlang',
  'stringr', 'tibble', 'vcfR', 'RcppArmadillo'

Packages suggested but not available for checking:
  'covr', 'dplyr', 'junctions', 'knitr', 'magrittr', 'rmarkdown',
  'testit', 'testthat', 'pbapply'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'data.table', 'magrittr', 'reshape'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'emoa', 'scatterplot3d', 'qtl', 'SOMbrero', 'kohonen',
  'plotly', 'dplyr', 'magrittr', 'LowRankQP', 'RcppArmadillo'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'data.table', 'snpStats'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'gMWT', 'Rcpp', 'data.table', 'GenomicTools.fileHandler', 'circlize',
  'stringr', 'snpStats', 'RcppArmadillo'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'ade4'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'SKAT', 'seqminer', 'data.table'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'reshape2', 'plyr', 'doBy', 'zoo', 'colorspace'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'qtl'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'diagram', 'quantreg'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'nleqslv'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'car'

Packages suggested but not available for checking: 'rgl', 'bestglm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rdpack', 'mvtnorm', 'tmvtnorm', 'stringr'

Packages suggested but not available for checking:
  'igraph', 'zoo', 'knitr', 'rmarkdown', 'cubature'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'mvmesh', 'geometry', 'SphericalCubature', 'rgl',
  'SimplicialCubature'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Package required but not available: 'shiny'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'pspline'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'coda', 'sp', 'optimr'

Package suggested but not available for checking: 'geoR'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'curl', 'data.table', 'httr', 'readr', 'sf'

Packages suggested but not available for checking:
  'covr', 'crul', 'dplyr', 'ggplot2', 'knitr', 'magrittr', 'mapview',
  'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'stringr', 'magrittr', 'tibble', 'threewords'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'spdep', 'reldist', 'dplyr', 'fclust', 'fmsb', 'broom',
  'future.apply', 'progressr', 'reshape2', 'sp'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'markdown', 'maptools', 'rgeos', 'future',
  'ppclust', 'ClustGeo', 'car', 'rgl', 'ggpubr', 'RColorBrewer',
  'kableExtra', 'viridis', 'testthat', 'sf'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'sf'
PAEA : <anonymous>: no visible global function definition for
  'integrate'
PAEAAnalysis: no visible global function definition for
  'txtProgressBar'
PAEAAnalysis : <anonymous>: no visible global function definition for
  'setTxtProgressBar'
PAEAAnalysis: no visible global function definition for 'par'
PAEAAnalysis: no visible global function definition for 'barplot'
chdirSig: no visible global function definition for 'prcomp'
chdirSig: no visible global function definition for 'rchisq'
chdirSig: no visible global function definition for 'txtProgressBar'
chdirSig : <anonymous> : <anonymous>: no visible global function
  definition for 'setTxtProgressBar'
chdirplots : <anonymous>: no visible global function definition for
  'par'
chdirplots : <anonymous>: no visible global function definition for
  'arrows'
chdirplots : <anonymous>: no visible global function definition for
  'barplot'
multigmtPAEAAnalysis: no visible global function definition for
  'txtProgressBar'
multigmtPAEAAnalysis : <anonymous>: no visible global function
  definition for 'setTxtProgressBar'
multigmtPAEAAnalysis : <anonymous>: no visible global function
  definition for 'data'
multigmtPAEAAnalysis : <anonymous>: no visible global function
  definition for 'write.table'
Undefined global functions or variables:
  arrows barplot data integrate par prcomp rchisq setTxtProgressBar
  txtProgressBar write.table
Consider adding
  importFrom("graphics", "arrows", "barplot", "par")
  importFrom("stats", "integrate", "prcomp", "rchisq")
  importFrom("utils", "data", "setTxtProgressBar", "txtProgressBar",
             "write.table")
to your NAMESPACE file.
Packages required but not available: 'sp', 'rgeos', 'rgdal', 'maptools'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'readr', 'tibble', 'tidyr', 'tidyselect', 'generics', 'sf',
  'magrittr', 'rlang', 'pander'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'dplyr', 'phonTools', 'pracma', 'raster', 'rgdal', 'tibble', 'e1071',
  'sp', 'rgeos', 'sf', 'zoo', 'Rcpp', 'landscapemetrics',
  'RcppArmadillo'

Packages suggested but not available for checking:
  'testthat', 'ggplot2', 'rmarkdown', 'rasterVis', 'mapdata',
  'maptools', 'maps', 'tidyverse', 'tidyr', 'ggmap', 'corrplot',
  'cowplot', 'gridExtra', 'factoextra', 'knitr', 'rfigshare', 'snow'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'sf', 'leaflet', 'shiny', 'shinydashboard'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'zipfR'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rgl', 'fields'

Packages suggested but not available for checking: 'covr', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'gtable', 'rnaturalearth', 'sp', 'sf', 'ggrepel', 'imguR',
  'gridExtra', 'geogrid'

Packages suggested but not available for checking:
  'testthat', 'covr', 'lintr', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'fda'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'curl', 'dplyr', 'httpcache', 'httr', 'purrr', 'rlang', 'sf', 'xml2',
  'yaml'

Packages suggested but not available for checking:
  'covr', 'geofacet', 'ggplot2', 'ggtern', 'httptest', 'janitor',
  'knitr', 'leaflet', 'pxweb', 'rmarkdown', 'sotkanet', 'testthat',
  'tidyr', 'tmap', 'tricolore', 'patchwork', 'ggrepel', 'htmltools',
  'readr', 'useful'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'numDeriv', 'Rcpp', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'mboost', 'grpreg'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'readr', 'tibble', 'tidyr', 'tidyselect', 'starschemar',
  'generics', 'purrr', 'sf', 'magrittr', 'rlang', 'pander', 'stringr',
  'snakecase', 'data.table', 'tm', 'httr', 'geomultistar'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'sp', 'sf', 'rgeos', 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'testthat', 'lintr', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'rgdal', 'sf', 'sp', 'testthat'
Packages unavailable to check Rd xrefs: 'sp', 'sf'
Running examples in 'geohashTools-Ex.R' failed
The error most likely occurred in:

> ### Name: gis_tools
> ### Title: Helpers for interfacing geohashes with sp/sf objects
> ### Aliases: gh_to_sp gh_to_spdf gh_to_spdf.default gh_to_spdf.data.frame
> ###   gh_to_sf gh_covering
> 
> ### ** Examples
> 
>   # get the neighborhood of this geohash in downtown Apia as an sp object
>   downtown = '2jtc5x'
>   apia_nbhd = unlist(gh_neighbors(downtown))
>   apia_sp = gh_to_sp(apia_nbhd)
Error in check_suggested("sp") : 
  This function requires an installation of sp; install.packages('sp') to proceed.
Calls: gh_to_sp -> check_suggested
Execution halted
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'sp', 'sf', 'geojsonsf', 'rgeos', 'crul', 'maptools', 'jsonlite',
  'magrittr', 'readr', 'V8', 'geojson', 'jqr'

Packages suggested but not available for checking:
  'gistr', 'testthat', 'leaflet', 'maps', 'DBI', 'RPostgres'

Package which this enhances but not available for checking: 'RColorBrewer'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'crul', 'jsonlite', 'jsonvalidate', 'V8'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'sp', 'jsonlite', 'protolite', 'jqr', 'magrittr', 'lazyeval'

Packages suggested but not available for checking:
  'geojsonlint', 'tibble', 'testthat', 'knitr', 'rmarkdown', 'sf',
  'stringi'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'R6', 'RcppArmadillo'

Packages suggested but not available for checking:
  'testthat', 'covr', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'geometries', 'jsonify', 'rapidjsonr', 'sfheaders'

Packages suggested but not available for checking:
  'covr', 'jsonify', 'knitr', 'rmarkdown', 'tinytest'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'whisker', 'xml2', 'httr', 'curl', 'sp', 'progress'

Packages suggested but not available for checking:
  'testthat', 'xtable', 'knitr', 'rmarkdown', 'ggmap', 'dplyr',
  'rasterVis', 'ggplot2', 'rgdal', 'maps'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'maps', 'changepoint', 'fields'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'GEOmap'
Malformed Description field: should contain one or more complete sentences.
Packages required but not available: 'RPMG', 'splancs', 'fields', 'MBA'

Packages suggested but not available for checking:
  'geomapdata', 'maps', 'RFOC'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'forecast', 'ForecastCombinations', 'ggplot2', 'mtsdi', 'psych'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ape', 'httr', 'jsonlite'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'inlmisc', 'raster', 'spdep', 'sp', 'geosphere', 'lubridate',
  'ggplot2', 'gridExtra', 'scales'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'R6', 'XML', 'httr', 'jsonlite'

Packages suggested but not available for checking:
  'sf', 'ncdf4', 'EML', 'emld', 'units', 'udunits2', 'testthat',
  'roxygen2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Packages suggested but not available for checking:
  'covr', 'knitr', 'rmarkdown', 'tinytest'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'checkmate', 'crayon', 'deldir', 'dplyr', 'raster', 'readr', 'rgdal',
  'rlang', 'sf', 'sp', 'spatstat', 'tibble', 'Rcpp'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'bookdown', 'magrittr', 'covr', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'magic', 'Rcpp', 'lpSolve', 'linprog', 'RcppProgress'

Packages suggested but not available for checking:
  'spelling', 'testthat', 'rgl', 'R.matlab', 'tripack'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'sna', 'network', 'dplyr', 'tidyr', 'readr', 'plotly'

Packages suggested but not available for checking:
  'ggrepel', 'knitr', 'igraph', 'ggmap', 'spelling', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'reticulate', 'R6', 'geojsonR', 'data.table'

Packages suggested but not available for checking:
  'testthat', 'covr', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'RRPP', 'rgl', 'jpeg', 'ape', 'ggplot2'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'dplyr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'tibble', 'tidyselect', 'starschemar', 'sf', 'magrittr',
  'rlang', 'stringr', 'snakecase', 'RSQLite', 'rgdal', 'tidyr',
  'pander'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'rjson'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'geometa', 'keyring', 'R6', 'openssl', 'httr', 'XML'

Packages suggested but not available for checking: 'testthat', 'roxygen2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'geosphere', 'igraph', 'rgdal', 'sp', 'sf'

Packages suggested but not available for checking:
  'devtools', 'ggmap', 'knitr', 'maps', 'mapview', 'rmarkdown',
  'roxygen2', 'spData', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'RPMG', 'RSEIS', 'RFOC', 'GEOmap'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'sp', 'proj4', 'raster', 'moments', 'velociraptr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'snowfall', 'sp', 'abind', 'constrainedKriging', 'fields', 'lmtest',
  'nleqslv', 'quantreg', 'RandomFields', 'robustbase'

Packages suggested but not available for checking: 'gstat', 'multcomp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'sp', 'splancs', 'RandomFields'

Package suggested but not available for checking: 'scatterplot3d'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'R6', 'openssl', 'httr', 'XML', 'keyring'

Packages suggested but not available for checking: 'testthat', 'roxygen2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
geoscaleBox: no visible global function definition for 'boxplot'
geoscaleBox: no visible global function definition for 'par'
geoscaleBox: no visible global function definition for 'text'
geoscaleBox: no visible global function definition for 'segments'
geoscaleBox: no visible global function definition for 'rect'
geoscaleBox: no visible global function definition for 'rgb'
geoscaleBox: no visible global function definition for 'polygon'
geoscaleBox: no visible global function definition for 'points'
geoscaleBox: no visible global function definition for 'axis'
geoscalePlot: no visible global function definition for 'par'
geoscalePlot: no visible global function definition for 'text'
geoscalePlot: no visible global function definition for 'segments'
geoscalePlot: no visible global function definition for 'rect'
geoscalePlot: no visible global function definition for 'rgb'
geoscalePlot: no visible global function definition for 'points'
geoscalePlot: no visible global function definition for 'axis'
Undefined global functions or variables:
  axis boxplot par points polygon rect rgb segments text
Consider adding
  importFrom("grDevices", "rgb")
  importFrom("graphics", "axis", "boxplot", "par", "points", "polygon",
             "rect", "segments", "text")
to your NAMESPACE file.
Packages suggested but not available for checking: 'sp', 'mapview'
'LazyData' is specified without a 'data' directory
Running examples in 'geosed-Ex.R' failed
The error most likely occurred in:

> ### Name: geo_midpoint
> ### Title: Point of Equidistance to Up to Three Longitude, Latitude Points
> ### Aliases: geo_midpoint
> ### Keywords: circle disk enclosing geo latitude longitude sed smallest
> 
> ### ** Examples
> 
> 
> # Load required packages
> require(mapview)
Loading required package: mapview
Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE,  :
  there is no package called 'mapview'
> require(sp)
Loading required package: sp
Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE,  :
  there is no package called 'sp'
> 
> # Create sample geo dataset
> sample_coord <-
+    matrix(
+         c(
+             sample(327131680:419648450, 3) / 10000000,
+             sample(-1147301410:-1241938690, 3) / 10000000
+         ),
+         ncol = 2
+     )
> 
> # Generate circumcenter and radius
> gmp <- geo_midpoint(sample_coord)
> 
> # Find distance to circumcenter
> radius <- geo_point_dist(rbind(sample_coord[1, ], gmp))
> 
> # Create 80 sided polygon based on gmp's center and radius
> gmp_poly <- geo_surround_poly(gmp, radius, 80)
> 
> # Join all the points into a single matrix
> bound_poly <- rbind(sample_coord, as.vector(gmp), gmp_poly)
> 
> # Create SpacialPoints object and pass to mapview for visualization
> mapview(
+     SpatialPoints(
+         bound_poly[,c(2, 1)],
+         proj4string = CRS("+proj=longlat +datum=WGS84")
+     )
+ )
Error in mapview(SpatialPoints(bound_poly[, c(2, 1)], proj4string = CRS("+proj=longlat +datum=WGS84"))) : 
  could not find function "mapview"
Execution halted
Packages required but not available: 'sparklyr', 'dplyr', 'dbplyr'

Packages suggested but not available for checking: 'testthat', 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'spacetime', 'xts', 'maps', 'rgdal', 'leaflet', 'rbokeh',
  'plotly', 'sp'

Packages suggested but not available for checking:
  'testthat', 'xlsx', 'geoSpectral'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'sp'

Package suggested but not available for checking: 'raster'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'FD', 'StatMatch', 'fields', 'sp', 'minqa', 'limSolve', 'gsl',
  'geospt'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'gstat', 'genalg', 'sp', 'minqa', 'limSolve', 'fields', 'gsl',
  'plyr', 'TeachingDemos', 'sgeostat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'libgeos'

Packages suggested but not available for checking:
  'testthat', 'wk', 'vctrs', 'sf', 'wkutils'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'raster', 'sp', 'abind', 'numDeriv'

Packages suggested but not available for checking:
  'RandomFields', 'rgdal', 'mapmisc', 'ellipse', 'pracma', 'knitr'

Packages which this enhances but not available for checking:
  'INLA', 'diseasemapping', 'geoR', 'rgeos', 'mvtnorm'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/glgm.Rnw'
   'inst/doc/lgcp.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'data.table'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'DESeq2', 'S4Vectors'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
Packages required but not available: 'geoR', 'tidyr', 'dplyr', 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'raster', 'stringr', 'zoo', 'rgdal'

Package suggested but not available for checking: 'soilwater'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ff', 'raster', 'foreach', 'sp', 'doParallel', 'iterators'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'rlang', 'RCurl', 'dplyr', 'glue', 'stringr', 'ggplot2', 'ggthemes',
  'ggspatial', 'magrittr', 'fs', 'sf', 'assertthat', 'testthat',
  'viridis'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'magrittr', 'tidyr', 'readr', 'tibble', 'purrr', 'stringr',
  'raster', 'chron', 'sp', 'sf', 'rgeos', 'glue', 'png', 'abind',
  'rgl', 'slippymath', 'curl', 'progress', 'rlang', 'ggplot2', 'rgdal'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'bitops'

Packages suggested but not available for checking:
  'tourr', 'roxygen2', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'bitops'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'DescTools', 'mvtnorm', 'openxlsx', 'pbapply', 'truncnorm'

Packages suggested but not available for checking:
  'dplyr', 'knitr', 'mice', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'CGE', 'data.tree', 'DiagrammeR'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'shiny', 'agricolae', 'ggplot2', 'dplyr', 'tidyr', 'tibble', 'purrr',
  'DT'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'inti'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'broom', 'data.table', 'ggplot2', 'ggrepel', 'mathjaxr',
  'minpack.lm', 'plyr', 'Rdpack'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'reshape2', 'pander', 'XML', 'httr', 'RCurl'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'askpass', 'credentials', 'openssl', 'rstudioapi', 'sys', 'zip'

Packages suggested but not available for checking:
  'spelling', 'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'kinship2'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'magrittr', 'rio', 'RSelenium', 'stringr', 'dplyr'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'rlang'

Packages suggested but not available for checking:
  'magrittr', 'dplyr', 'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'foreach', 'doParallel', 'shiny', 'shinythemes'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'mclust', 'gtools'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'DataCombine', 'tidyr', 'tibble', 'tidyselect', 'geeM', 'rsample',
  'magrittr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'knitr'

Packages suggested but not available for checking: 'jsonlite', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'stringr', 'RCurl', 'lubridate', 'readr', 'curl', 'dplyr', 'future',
  'furrr', 'jsonlite', 'memoise', 'purrr'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'ggplot2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'curl', 'data.table', 'hoardr', 'raster', 'tibble'

Packages suggested but not available for checking:
  'covr', 'ggplot2', 'knitr', 'markdown', 'rmarkdown', 'rappdirs',
  'roxygen2', 'testthat', 'viridis'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'stringr', 'xml2', 'dplyr', 'readr', 'curl', 'lubridate', 'magrittr',
  'purrr', 'memoise', 'rvest', 'tidyr', 'RCurl', 'shiny', 'writexl'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'ggplot2', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'stringr', 'XML', 'dplyr', 'readr', 'reshape2', 'tibble', 'xlsx',
  'curl', 'lubridate', 'crayon'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'ggplot2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'data.table', 'microbenchmark'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'dplyr', 'testthat', 'covr', 'formulaic',
  'devtools'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'stringr', 'xml2', 'dplyr', 'readr', 'curl', 'lubridate', 'magrittr',
  'purrr', 'memoise', 'rvest', 'tidyr', 'XML'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'ggplot2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'jsonlite', 'httr'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'readr', 'crul', 'xml2', 'data.table', 'tibble', 'rappdirs'

Packages suggested but not available for checking:
  'roxygen2', 'testthat', 'knitr', 'raster'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'stringr', 'XML', 'dplyr', 'readr', 'stringdist', 'curl'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'ggplot2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'EcoHydRology', 'jsonlite'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'gridExtra', 'gtable', 'metafor', 'psych', 'stargazer'

Packages suggested but not available for checking:
  'knitr', 'testthat', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rjson', 'GlobalOptions', 'crayon'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'markdown', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'covr', 'testthat'
Running 'run-all.R'
Running the tests in 'tests/run-all.R' failed.
Complete output:
  > library("testthat")
  Error in library("testthat") : there is no package called 'testthat'
  Execution halted
Package required but not available: 'rstudioapi'

Package suggested but not available for checking: 'argon2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'data.table', 'httr', 'RCurl', 'bitops', 'jsonlite', 'dplyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'jsonlite', 'memoise', 'dplyr', 'purrr', 'readr', 'scales', 'stringr'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'ggplot2', 'tidyverse'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'gridExtra', 'viridisLite'

Packages suggested but not available for checking:
  'gstat', 'sp', 'fda', 'fda.usc', 'mvtnorm', 'patchwork',
  'spatstat.geom', 'spatstat.core', 'spatstat.linnet', 'spatstat',
  'testthat', 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'party'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'metafor', 'dplyr', 'plotrix', 'colorspace', 'RColorBrewer',
  'colorRamps'

Packages suggested but not available for checking:
  'knitr', 'testthat', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'zoo'

Packages suggested but not available for checking:
  'lgarch', 'xtable', 'microbenchmark'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'stringr', 'stringi', 'readxl', 'curl', 'RCurl', 'XML', 'bizdays',
  'tidyr', 'rvest', 'xml2'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'ggplot2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'RLRsim'

Packages suggested but not available for checking: 'rmarkdown', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Biobase', 'multtest'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'mvtnorm', 'jpeg', 'png'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'mvtnorm', 'pcaPP', 'mboost'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'raster', 'rgdal', 'geosphere', 'RCurl', 'rgeos', 'plyr', 'ggplot2',
  'sp', 'stringr', 'animation', 'rasterVis'

Package suggested but not available for checking: 'sf'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'plyr', 'magic', 'plotrix'

Packages suggested but not available for checking:
  'RGtk2', 'knitr', 'rmarkdown'

VignetteBuilder packages required for checking but not installed:
  'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'gridExtra', 'shiny', 'shinyWidgets', 'shinyjs', 'shinythemes',
  'survminer', 'tippy', 'magic', 'plyr'

Package suggested but not available for checking: 'condSURV'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'data.table', 'TeachingSampling'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'rvest', 'xml2', 'jsonlite', 'httr', 'stringi', 'V8', 'data.table',
  'tidyr', 'scatterpie', 'ggplot2', 'ggrepel', 'circlize',
  'googlesheets', 'gsheet'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'cmprsk', 'compound.Cox', 'joint.Cox'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'coda', 'Rcpp', 'doParallel', 'foreach', 'BH', 'RcppArmadillo'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'lazyeval', 'spatstat.geom', 'spatstat', 'EigenR',
  'data.table', 'memuse', 'RcppEigen', 'BH'

Packages suggested but not available for checking:
  'heavy', 'kde1d', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'lazyeval', 'spatstat', 'spatstat.geom', 'forcats', 'rgr',
  'RcppEigen'

Packages suggested but not available for checking:
  'kde1d', 'knitr', 'rmarkdown', 'lmerTest', 'emmeans', 'testthat',
  'AOV1R', 'GGally', 'car'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'rcdd', 'lazyeval', 'spatstat', 'spatstat.geom', 'EigenR', 'Rcpp',
  'RcppArmadillo', 'roptim', 'BH'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'SIS', 'lazyeval', 'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'faraway'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'htmltools', 'shiny', 'crul', 'jsonlite', 'glue', 'usethis'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'vcr', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'data.table', 'ggplot2', 'ggpubr', 'progress', 'stringr',
  'truncnorm', 'truncreg'

Package suggested but not available for checking: 'Hmisc'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'scales'

Packages suggested but not available for checking: 'knitr', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'dplyr', 'tidyr', 'lazyeval', 'rlang', 'tidyselect'

Packages suggested but not available for checking:
  'alluvial', 'testthat', 'knitr', 'rmarkdown', 'babynames',
  'sessioninfo', 'ggrepel', 'shiny', 'htmltools', 'sp', 'ggfittext',
  'vdiffr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'dplyr', 'forcats', 'gtable', 'lifecycle', 'plyr',
  'progress', 'RColorBrewer', 'reshape', 'rlang', 'scales', 'tidyr'

Packages suggested but not available for checking:
  'broom', 'broom.helpers', 'chemometrics', 'geosphere', 'ggforce',
  'Hmisc', 'igraph', 'intergraph', 'labelled', 'maps', 'mapproj',
  'network', 'scagnostics', 'sna', 'rmarkdown', 'roxygen2', 'testthat',
  'crosstalk', 'knitr', 'spelling', 'emmeans'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'dplyr', 'RColorBrewer', 'proj4', 'scales', 'gtable',
  'ash', 'maps', 'extrafont', 'tibble', 'plotly'

Packages suggested but not available for checking:
  'testthat', 'gridExtra', 'knitr', 'rmarkdown', 'ggthemes', 'reshape2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'testthat', 'flexsurv'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'ggplot2', 'stringi', 'tweenr', 'rlang', 'glue', 'progress', 'plyr',
  'scales'

Packages suggested but not available for checking:
  'magick', 'svglite', 'knitr', 'rmarkdown', 'testthat', 'base64enc',
  'htmltools', 'covr', 'transformr', 'av', 'gifski', 'ragg'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'magrittr', 'purrr', 'rlang', 'scales',
  'stringr', 'tibble', 'tidyr'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'spelling', 'covr', 'broom',
  'corrr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'beeswarm', 'vipor'

Package suggested but not available for checking: 'gridExtra'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'dplyr', 'ggplot2'

Packages suggested but not available for checking:
  'BiocStyle', 'knitr', 'rmarkdown', 'tibble'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'purrr', 'readr'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'dplyr', 'purrr', 'tidyr'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'colorspace', 'dplyr', 'lifecycle', 'magrittr',
  'patchwork', 'rlang'

Packages suggested but not available for checking:
  'gapminder', 'knitr', 'lintr', 'rmarkdown', 'scales', 'spelling',
  'tibble', 'tidyr', 'testthat', 'vdiffr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'scales'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppEigen'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'rly'

Packages suggested but not available for checking:
  'knitr', 'testthat', 'futile.logger', 'dplyr', 'tibble'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'reshape2'

Packages suggested but not available for checking: 'knitr', 'spelling'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'dagitty', 'dplyr', 'forcats', 'ggraph', 'ggrepel',
  'igraph', 'magrittr', 'pillar', 'purrr', 'stringr', 'tibble',
  'tidygraph'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'spelling', 'testthat', 'covr', 'vdiffr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'ggplot2'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'do', 'set', 'rms', 'base.rms'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'RJDemetra', 'ggrepel', 'gridExtra'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'ggplot2'

Packages suggested but not available for checking:
  'tree', 'testthat', 'knitr', 'scales', 'spelling', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'tidyselect', 'dplyr', 'tidyr', 'ggplot2', 'purrr', 'rlang',
  'scales', 'forcats', 'HDInterval', 'tibble', 'vctrs', 'fda',
  'distributional'

Packages suggested but not available for checking:
  'knitr', 'testthat', 'vdiffr', 'svglite', 'broom', 'modelr',
  'cowplot', 'covr', 'gdtools', 'rmarkdown', 'png', 'pkgdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'coda', 'ggplot2', 'matrixStats', 'data.table',
  'RcppArmadillo'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'rlang'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'clipr', 'labelled', 'patchwork',
  'vdiffr', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rgl', 'tkrplot'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'ggforce', 'scales', 'GGEBiplotGUI', 'gge'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'dplyr', 'plyr', 'tidyr', 'purrr', 'rlang', 'scales',
  'rstudioapi', 'shiny', 'miniUI', 'shinyBS', 'colourpicker',
  'shinyAce', 'magrittr'

Packages suggested but not available for checking: 'testthat', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'insight', 'sjlabelled'

Packages suggested but not available for checking:
  'AER', 'aod', 'betareg', 'brms', 'clubSandwich', 'effects',
  'emmeans', 'gam', 'gamm4', 'gee', 'geepack', 'ggplot2',
  'GLMMadaptive', 'glmmTMB', 'httr', 'knitr', 'lme4', 'logistf',
  'magrittr', 'mice', 'MCMCglmm', 'ordinal', 'prediction', 'pscl',
  'quantreg', 'rmarkdown', 'rms', 'robustbase', 'rstanarm',
  'rstantools', 'sandwich', 'see', 'sjstats', 'sjmisc', 'survey',
  'testthat', 'VGAM'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'igraph', 'plyr', 'reshape2', 'plotly', 'tibble'

Packages suggested but not available for checking:
  'stringr', 'knitr', 'roxygen2', 'dplyr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'nipals', 'reshape2'

Packages suggested but not available for checking:
  'agridat', 'knitr', 'rgl', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'behavr', 'data.table', 'stringr', 'scales', 'labeling',
  'rlang'

Packages suggested but not available for checking:
  'testthat', 'covr', 'knitr', 'zeitgebr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'colourpicker', 'ggplot2', 'gtable', 'miniUI', 'scales', 'shiny',
  'shinyjs', 'R6'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'rstudioapi', 'testthat', 'vdiffr',
  'fontquiver', 'svglite', 'withr', 'devtools'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'colorspace', 'dplyr', 'rstan'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'tidyr', 'magrittr', 'tibble'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'stringi', 'ggplot2', 'shades'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'vdiffr', 'spelling'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'magrittr', 'dplyr', 'rlang', 'RColorBrewer'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'maps', 'ggrepel'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'Rcpp', 'scales', 'tweenr', 'gtable', 'rlang', 'polyclip',
  'tidyselect', 'withr', 'RcppEigen'

Packages suggested but not available for checking:
  'sessioninfo', 'concaveman', 'deldir', 'reshape2', 'units', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'ggstance', 'scales', 'ggridges', 'mosaicCore', 'rlang',
  'magrittr', 'tibble', 'stringr', 'ggforce', 'labelled'

Packages suggested but not available for checking:
  'tidyr', 'mosaicData', 'dplyr', 'mosaic', 'palmerpenguins',
  'testthat', 'vdiffr', 'knitr', 'rmarkdown', 'lubridate', 'broom',
  'maps', 'maptools', 'rgeos', 'sf', 'purrr', 'ggthemes', 'covr',
  'ggplot2movies'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'dplyr', 'tidyr', 'gridExtra', 'scales', 'stringr',
  'tibble'

Packages suggested but not available for checking:
  'testthat', 'changepoint', 'dlm', 'fGarch', 'forecast', 'ggrepel',
  'glmnet', 'KFAS', 'knitr', 'lintr', 'mapdata', 'markdown', 'MSwM',
  'raster', 'ROCR', 'sp', 'strucchange', 'timeSeries', 'tseries',
  'vars', 'xts', 'zoo', 'lfda'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'magick', 'ragg', 'ggplot2', 'gtable', 'rlang'

Packages suggested but not available for checking:
  'covr', 'knitr', 'rmarkdown', 'farver'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'cowplot'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'cowplot'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'ggfittext', 'rlang'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'vdiffr', 'spelling'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'animation'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'scales'

Packages suggested but not available for checking:
  'knitr', 'mapproj', 'maps', 'rmarkdown', 'testthat', 'vdiffr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'gridExtra', 'lazyeval', 'readr', 'tibble'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'gtable', 'scales', 'vctrs', 'rlang'

Packages suggested but not available for checking:
  'covr', 'digest', 'fitdistrplus', 'ggdendro', 'knitr', 'rmarkdown',
  'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'ggrepel'

Packages suggested but not available for checking: 'covr', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'gtable'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'dplyr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'dplyr', 'ggrepel', 'lifecycle', 'purrr', 'rlang',
  'tibble'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'sf', 'testthat', 'vdiffr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'dplyr', 'magrittr', 'tibble', 'lifecycle', 'Rcpp',
  'rlang'

Packages suggested but not available for checking:
  'testthat', 'covr', 'spelling', 'profvis'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'ggplotify', 'jsonlite', 'magick', 'rvcheck', 'scales',
  'tibble'

Packages suggested but not available for checking:
  'ape', 'ggtree', 'gridGraphics', 'httr', 'rsvg'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'jpeg', 'png', 'abind'

Packages suggested but not available for checking:
  'knitr', 'dplyr', 'testthat', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'rlang'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'rlang', 'stringr', 'magrittr', 'tibble'

Packages suggested but not available for checking:
  'sf', 'dplyr', 'knitr', 'rmarkdown', 'pryr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'ipaddress', 'dplyr', 'glue', 'Rcpp', 'rlang', 'tidyr',
  'vctrs'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'ggiraph', 'scales', 'reshape2', 'plyr', 'mycor', 'ppcor',
  'sjlabelled', 'sjmisc', 'stringr', 'tidyr', 'purrr', 'dplyr',
  'magrittr', 'RColorBrewer'

Packages suggested but not available for checking:
  'TH.data', 'ggforce', 'webshot', 'ztable', 'moonBook', 'maps',
  'gcookbook', 'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'htmlwidgets', 'htmltools', 'Rcpp', 'gdtools', 'purrr',
  'rlang', 'uuid'

Packages suggested but not available for checking:
  'knitr', 'testthat', 'rmarkdown', 'maps', 'shiny', 'sf', 'quantreg',
  'xml2', 'dplyr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'data.table', 'Rcpp', 'foreach', 'doParallel', 'signal', 'zoo',
  'bitops', 'matlab', 'GENEAread', 'tuneR', 'unisensR'

Packages suggested but not available for checking:
  'testthat', 'covr', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggridges', 'ggplot2'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'ggplot2', 'patchwork', 'rlang'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'jpeg', 'plyr', 'dplyr', 'tidyr', 'magrittr', 'purrr',
  'reshape2', 'knitr', 'rlang'

Package suggested but not available for checking: 'RColorBrewer'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'plyr', 'ggplot2', 'magrittr', 'lazyeval', 'assertthat'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'ineq'

Package suggested but not available for checking: 'spelling'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'RgoogleMaps', 'png', 'plyr', 'rjson', 'jpeg', 'digest',
  'scales', 'dplyr', 'bitops', 'glue', 'httr', 'stringr', 'purrr',
  'magrittr', 'tibble', 'tidyr'

Packages suggested but not available for checking: 'hexbin', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'dplyr', 'tidyr', 'ggplot2', 'GGally'

Packages suggested but not available for checking:
  'coda', 'knitr', 'rmarkdown', 'ggthemes', 'gridExtra', 'Cairo',
  'extrafont'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/v70i09.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'glmnet'

Packages suggested but not available for checking:
  'RSpectra', 'popkin', 'bnpsd', 'testthat', 'covr', 'knitr',
  'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'Rdpack', 'reshape', 'ggplot2', 'glassoFast', 'numDeriv',
  'mathjaxr', 'RcppArmadillo'

Package suggested but not available for checking: 'qgraph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rdpack', 'bestglm', 'GGally', 'network', 'sna', 'poibin',
  'doParallel', 'foreach', 'corpcor', 'psych', 'ggplot2', 'GGMncv'

Package suggested but not available for checking: 'qgraph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'productplots', 'dplyr', 'plotly', 'purrr', 'rlang',
  'tidyr', 'ggrepel', 'scales'

Packages suggested but not available for checking:
  'gridExtra', 'knitr', 'NHANES', 'rmarkdown', 'patchwork'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'igraph', 'graph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package unavailable to check Rd xrefs: 'dwlm'
Packages required but not available:
  'Biostrings', 'ggplot2', 'magrittr', 'tidyr', 'stringr', 'aplot',
  'RColorBrewer'

Packages suggested but not available for checking:
  'ape', 'cowplot', 'ggtree', 'knitr', 'prettydoc', 'rmarkdown',
  'seqmagick'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'mvtnorm', 'lars', 'gtools'

Packages suggested but not available for checking: 'network', 'glasso'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'dplyr', 'ggplot2', 'ape'

Packages suggested but not available for checking:
  'RColorBrewer', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'dplyr', 'tidyr'

Packages suggested but not available for checking:
  'png', 'stringr', 'magrittr', 'gridExtra', 'tibble', 'testthat',
  'knitr', 'rmarkdown', 'tidyverse', 'gtable', 'covr', 'maps',
  'nycflights13', 'ggplot2movies'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'ggrepel', 'network', 'igraph', 'sna'

Packages suggested but not available for checking: 'knitr', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'ggplot2'

Packages suggested but not available for checking:
  'testthat', 'vdiffr', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'magrittr', 'scales'

Package suggested but not available for checking: 'spelling'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'ggspatial', 'sp', 'raster', 'rgdal', 'rgeos', 'sf',
  'stars', 'smoothr', 'units', 'dplyr'

Packages suggested but not available for checking:
  'ggOceanMapsData', 'cowplot', 'knitr', 'rmarkdown', 'scales'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'rlang', 'magrittr', 'dplyr', 'tidyr', 'purrr', 'ggplot2', 'ggforce',
  'gganimate'

Package suggested but not available for checking: 'roxygen2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'magrittr', 'purrr', 'rlang', 'stringr',
  'tidytext'

Packages suggested but not available for checking:
  'covr', 'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'reshape2', 'plyr'

Package suggested but not available for checking: 'RColorBrewer'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'dplyr', 'rlang'

Packages suggested but not available for checking:
  'tidyr', 'magrittr', 'knitr', 'testthat', 'rmarkdown', 'purrr',
  'ggrepel', 'scales'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'partykit', 'gtable', 'checkmate', 'rlang'

Packages suggested but not available for checking:
  'testthat', 'mlbench', 'AER', 'coin', 'vdiffr', 'knitr', 'rmarkdown',
  'pander', 'TH.data'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'sticky', 'tidyselect', 'data.table'

Packages suggested but not available for checking:
  'covr', 'knitr', 'maps', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'digest', 'glue', 'gtable', 'isoband', 'rlang', 'scales', 'tibble',
  'withr'

Packages suggested but not available for checking:
  'covr', 'dplyr', 'ggplot2movies', 'hexbin', 'Hmisc', 'knitr',
  'mapproj', 'maps', 'maptools', 'multcomp', 'munsell', 'profvis',
  'quantreg', 'RColorBrewer', 'rgeos', 'rmarkdown', 'sf', 'svglite',
  'testthat', 'vdiffr'

Package which this enhances but not available for checking: 'sp'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'shiny', 'miniUI', 'rstudioapi', 'shinyWidgets', 'shinyAce',
  'stringr', 'tidyverse', 'ggplot2', 'dplyr', 'magrittr', 'tibble',
  'scales', 'ggthemes', 'gcookbook', 'moonBook', 'editData'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'markdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'plotly', 'shiny', 'ggplot2', 'stringr', 'readr', 'haven', 'readxl',
  'RColorBrewer'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'gridGraphics', 'rvcheck'

Packages suggested but not available for checking:
  'aplot', 'colorspace', 'cowplot', 'ggimage', 'knitr', 'rmarkdown',
  'prettydoc', 'vcd'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'plotly', 'rlang'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rlang', 'scales', 'hexbin', 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'rlang', 'magrittr', 'generics', 'glue', 'gridExtra',
  'scales', 'polynom', 'splus2R', 'tibble', 'plyr', 'dplyr', 'xts',
  'zoo', 'lubridate', 'stringr'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'broom', 'broom.mixed', 'gginnards', 'ggrepel',
  'magick', 'quantreg'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'data.table', 'yaml', 'R6', 'gtable', 'ggplot2', 'magrittr',
  'stringr', 'assertthat', 'GGally', 'zoo', 'knitr', 'rmarkdown'

Packages suggested but not available for checking:
  'testthat', 'xtable', 'nlmixr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'ggplot2'

Packages suggested but not available for checking: 'viridis', 'dplyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'gtable', 'plyr', 'rlang', 'dplyr', 'tibble', 'glue'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'ggplot2'

Packages suggested but not available for checking: 'rmarkdown', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'digest', 'ggplot2', 'glue', 'gtable', 'rlang', 'scales', 'tibble'

Packages suggested but not available for checking:
  'covr', 'dplyr', 'ggbeeswarm', 'ggnewscale', 'knitr', 'magrittr',
  'patchwork', 'rmarkdown', 'rstatix', 'tidyr', 'tinytest'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'ggrepel', 'ggsci', 'tidyr', 'purrr', 'dplyr', 'cowplot',
  'ggsignif', 'scales', 'gridExtra', 'glue', 'polynom', 'rlang',
  'rstatix', 'tibble', 'magrittr'

Packages suggested but not available for checking:
  'knitr', 'RColorBrewer', 'gtable'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'data.table'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'markdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'dplyr', 'tidyr'

Packages suggested but not available for checking:
  'testthat', 'gridExtra', 'knitr', 'rmarkdown', 'reshape2', 'plyr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'scales', 'ggplot2', 'dplyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'colourpicker', 'dplyr', 'DT', 'Formula', 'GGally', 'ggbeeswarm',
  'ggplot2', 'ggpmisc', 'ggrepel', 'ggstance', 'ggpubr', 'gridExtra',
  'Hmisc', 'markdown', 'plotly', 'quantreg', 'rlang', 'scales',
  'shiny', 'shinyjs', 'shinyjqui', 'stringr', 'survminer', 'tidyr',
  'table1', 'zoo', 'shinyFiles', 'RPostgres'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'dplyr', 'ggplot2'

Packages suggested but not available for checking:
  'ggmap', 'maps', 'pkgdown', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'randomForestSRC', 'randomForest', 'ggplot2', 'tidyr'

Packages suggested but not available for checking:
  'testthat', 'rmdformats', 'RColorBrewer', 'dplyr', 'knitr',
  'rmarkdown', 'plot3D'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'Rcpp', 'dplyr', 'ggforce', 'igraph', 'scales', 'digest',
  'gtable', 'ggrepel', 'viridis', 'rlang', 'tidygraph', 'graphlayouts',
  'withr'

Packages suggested but not available for checking:
  'network', 'knitr', 'rmarkdown', 'purrr', 'tibble', 'seriation',
  'deldir', 'gganimate', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'pacman', 'purrr', 'shiny'

Packages suggested but not available for checking: 'knitr', 'markdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'mixtools', 'ape', 'bgmm', 'colorspace'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'Cairo', 'ggbeeswarm', 'png', 'ragg'

Packages suggested but not available for checking:
  'knitr', 'maps', 'rmarkdown', 'sf'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'Rcpp', 'rlang', 'scales'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'gridExtra', 'devtools',
  'prettydoc', 'ggbeeswarm', 'dplyr', 'magrittr', 'readr', 'stringr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'cowplot', 'ggplot2', 'plotly', 'qqplotr', 'stringr'

Packages suggested but not available for checking:
  'dplyr', 'forcats', 'knitr', 'lme4', 'lmerTest', 'randomForest',
  'rmarkdown', 'testthat', 'vdiffr', 'wesanderson'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'gRbase', 'CVglasso', 'graph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'plyr', 'scales', 'withr'

Packages suggested but not available for checking:
  'covr', 'dplyr', 'patchwork', 'ggplot2movies', 'forcats', 'knitr',
  'rmarkdown', 'testthat', 'vdiffr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'egg', 'do', 'set', 'cutoff', 'fastStat', 'rms',
  'nomogramFormula'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'ggplot2'

Package suggested but not available for checking: 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'doParallel', 'foreach'
'LazyData' is specified without a 'data' directory
Packages required but not available: 'scales', 'ggplot2'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'gridExtra', 'reshape2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'seasonal', 'rlang', 'zoo'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'ggplot2'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'scales', 'rlang', 'glue'

Packages suggested but not available for checking: 'rmarkdown', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'gtable', 'rlang', 'scales', 'glue'

Packages suggested but not available for checking:
  'tidyr', 'dplyr', 'testthat', 'knitr', 'rmarkdown', 'vdiffr',
  'ggdendro', 'viridis'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'ggplot2'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'spelling', 'testthat', 'vdiffr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'sf', 'png', 'maptools', 'ggmap'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'ggplot2'

Packages suggested but not available for checking: 'testthat', 'pkgdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'magrittr', 'tidyr'

Packages suggested but not available for checking:
  'covr', 'ggmap', 'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'magrittr', 'tidyr', 'ggplot2', 'kohonen', 'assertthat',
  'data.table', 'entropy', 'tibble'

Packages suggested but not available for checking:
  'devtools', 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'sf', 'ggplot2', 'rosm', 'abind', 'tibble', 'scales', 'tidyr',
  'rlang', 'glue'

Packages suggested but not available for checking:
  'prettymapr', 'knitr', 'rmarkdown', 'sp', 'rgdal', 'raster',
  'testthat', 'dplyr', 'withr', 'ggrepel', 'stars', 'covr', 'vdiffr',
  'lwgeom'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'photobiology', 'ggplot2', 'photobiologyWavebands', 'scales',
  'ggrepel', 'dplyr', 'lubridate', 'tidyr', 'tibble'

Packages suggested but not available for checking:
  'rlang', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'plyr', 'rlang', 'withr'

Packages suggested but not available for checking:
  'covr', 'Hmisc', 'testthat', 'vdiffr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'scales', 'gridExtra'

Packages suggested but not available for checking:
  'knitr', 'markdown', 'rmarkdown', 'prettydoc'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'ggcorrplot', 'ggplot2', 'ggrepel', 'ggsignif', 'insight',
  'ipmisc', 'pairwiseComparisons', 'paletteer', 'parameters',
  'patchwork', 'performance', 'purrr', 'rlang', 'statsExpressions',
  'tidyr'

Packages suggested but not available for checking:
  'afex', 'forcats', 'ggExtra', 'knitr', 'metaBMA', 'metafor',
  'rmarkdown', 'spelling', 'testthat', 'tibble', 'vdiffr', 'WRS2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'dplyr', 'ggplot2'

Package suggested but not available for checking: 'scales'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'ggplot2'

Packages suggested but not available for checking:
  'dplyr', 'plyr', 'reshape2', 'testthat', 'data.table', 'knitr',
  'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'compositions', 'gridExtra', 'gtable', 'latex2exp',
  'plyr', 'scales', 'proto', 'hexbin'

Package which this enhances but not available for checking: 'sp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'gridtext', 'rlang', 'scales'

Packages suggested but not available for checking:
  'cowplot', 'dplyr', 'glue', 'knitr', 'rmarkdown', 'testthat',
  'vdiffr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'shiny', 'miniUI', 'rstudioapi', 'ggplot2', 'formatR'

Package suggested but not available for checking: 'extrafont'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'purrr', 'scales', 'stringr', 'tibble'

Packages suggested but not available for checking:
  'dplyr', 'covr', 'extrafont', 'glue', 'knitr', 'lintr', 'maps',
  'mapproj', 'pander', 'rlang', 'rmarkdown', 'spelling', 'testthat',
  'tidyr', 'vdiffr', 'withr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'psych', 'abind', 'viridis', 'Rdpack', 'xlsx'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'gtable', 'tibble', 'rlang', 'scales'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'VennDiagram', 'sf', 'ggplot2', 'dplyr', 'stringr'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'dplyr', 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'assertthat', 'jsonlite', 'shiny', 'magrittr', 'dplyr', 'rlang',
  'htmltools'

Packages suggested but not available for checking:
  'lubridate', 'testthat', 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'deldir', 'sp', 'rgeos', 'raster'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'ggmap', 'dplyr', 'scales', 'testthat',
  'vdiffr', 'mapproj'

VignetteBuilder packages required for checking but not installed:
  'knitr', 'ggmap', 'mapproj'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'Rcpp', 'scales', 'colorspace', 'png'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'ggrepel', 'wordcloud',
  'wordcloud2', 'covr', 'dplyr', 'tidyr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'sets', 'ggplot2'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'markdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'lme4', 'e1071', 'data.table'

Package suggested but not available for checking: 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'rrBLUP'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'refund'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'bookdown',
  'GeneralisedCovarianceMeasure', 'ggplot2', 'reshape2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'gh', 'jsonlite'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'prismatic'

Packages suggested but not available for checking:
  'ggplot2', 'dplyr', 'knitr', 'rmarkdown', 'testthat', 'crayon',
  'cowplot', 'codemetar'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'R6'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'crul', 'jsonlite', 'R6', 'graphql'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'cli', 'gitcreds', 'httr', 'ini', 'jsonlite'

Packages suggested but not available for checking:
  'covr', 'knitr', 'rmarkdown', 'rprojroot', 'spelling', 'testthat',
  'withr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'pbmcapply', 'plyr', 'numbers', 'purrr', 'extraDistr', 'dplyr',
  'rlang', 'reshape2', 'rootSolve', 'texreg'

Packages suggested but not available for checking:
  'BiasedUrn', 'igraph', 'knitr', 'rmarkdown', 'ggplot2', 'ggraph'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'numDeriv'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'dplyr', 'tibble', 'rlang'

Packages suggested but not available for checking:
  'covr', 'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
acovamcmc: no visible global function definition for 'rnorm'
acovamcmc: no visible global function definition for 'rgamma'
acovamcmc: no visible binding for global variable 'quantile'
acovamcmc: no visible global function definition for 'quantile'
acovamcmc: no visible global function definition for 'var'
plot.acovamcmc: no visible global function definition for 'dev.new'
plot.acovamcmc: no visible global function definition for 'par'
plot.acovamcmc: no visible global function definition for 'density'
plot.acovamcmc: no visible global function definition for 'acf'
plot.acovamcmc: no visible global function definition for 'contour'
plot.acovamcmc: no visible global function definition for 'image'
plot.acovamcmc: no visible global function definition for 'persp'
Undefined global functions or variables:
  acf contour density dev.new image par persp quantile rgamma rnorm var
Consider adding
  importFrom("grDevices", "dev.new")
  importFrom("graphics", "contour", "image", "par", "persp")
  importFrom("stats", "acf", "density", "quantile", "rgamma", "rnorm",
             "var")
to your NAMESPACE file.
NB: .First.lib is obsolete and will not be used in R >= 3.0.0
File 'gibbs.met/R/firstlib.R':
  .First.lib calls:
    cat("Naive Gibbs Sampling with Metropolis steps(gibbs.met) loaded\n",     "COPYRIGHT 2008 (c) Longhai Li (http://math.usask.ca/~longhai)\n",     "Type ?begin.gibbs.met for help to this package\n", sep = "")

Package startup functions should use 'packageStartupMessage' to
  generate messages.
See section 'Good practice' in '?.onAttach'.

met_gaussian : one_transition: no visible global function definition
  for 'rnorm'
met_gaussian : one_transition: no visible global function definition
  for 'runif'
Undefined global functions or variables:
  rnorm runif
Consider adding
  importFrom("stats", "rnorm", "runif")
to your NAMESPACE file.
Package required but not available: 'colorspace'

Packages suggested but not available for checking:
  'knitr', 'psych', 'psychTools'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppEigen'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'ggplot2', 'gapminder'
Installation failed.
See 'C:/msys64/home/tomas/ucrt3/svn/ucrt3/r_packages/pkgcheck/CRAN/gifski/gifski.Rcheck/00install.out' for details.
Packages required but not available: 'xml2', 'base64enc', 'R.utils'

Packages suggested but not available for checking:
  'rgl', 'testthat', 'knitr', 'rmarkdown', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'stringr', 'glue'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'kableExtra'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'namespace', 'processx', 'readr', 'tibble'

Packages suggested but not available for checking: 'testthat', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo', 'BH'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages unavailable to check Rd xrefs: 'Runuran', 'ghyp'
Packages required but not available:
  'assertthat', 'dplyr', 'dynutils', 'purrr', 'Rcpp', 'RcppXPtrUtils',
  'readr', 'rlang', 'stringr', 'tidyr'

Packages suggested but not available for checking:
  'ggplot2', 'GillespieSSA', 'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'lavaan', 'igraph', 'qgraph', 'data.tree', 'MIIVsem', 'imputeTS',
  'nloptr'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'shiny', 'shinyjs', 'rintrojs', 'easycsv', 'miniUI', 'shinyWidgets',
  'rstudioapi', 'rhandsontable', 'magrittr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'raster', 'curl', 'Kendall', 'ncdf4', 'zyp'

Package suggested but not available for checking: 'tinytest'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'numDeriv'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'EBImage', 'png', 'doParallel', 'foreach'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'energy', 'readxl', 'randomForest', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages unavailable to check Rd xrefs: 'ineq', 'IC2'
Packages required but not available:
  'raster', 'circular', 'rgdal', 'rgeos', 'sp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'httr', 'shiny', 'miniUI', 'tibble', 'rstudioapi', 'dplyr', 'purrr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo', 'BH'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/GiRaF_introduction.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'sf', 'lwgeom', 'countrycode', 'geojsonsf'

Packages suggested but not available for checking:
  'tmap', 'tinytest', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'maptools', 'sp', 'RColorBrewer', 'rgeos'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'jsonlite', 'crul', 'httr', 'magrittr', 'assertthat', 'knitr',
  'rmarkdown', 'dplyr'

Packages suggested but not available for checking: 'git2r', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'assertthat', 'git2r', 'yaml'

Packages suggested but not available for checking:
  'ggplot2', 'knitr', 'microbenchmark', 'rmarkdown', 'spelling',
  'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'getPass'
'LazyData' is specified without a 'data' directory
Skipping vignette re-building
Packages suggested but not available for checking:
  'testthat', 'knitr', 'mockery', 'oskeyring', 'rmarkdown', 'withr'

VignetteBuilder package required for checking but not installed: 'knitr'
Package unavailable to check Rd xrefs: 'oskeyring'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'magrittr', 'httr', 'jsonlite', 'dplyr', 'tidyr', 'tibble',
  'stringr', 'mockery', 'Rcpp'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'shiny', 'miniUI', 'rstudioapi', 'curl', 'jsonlite', 'dplyr',
  'shinyFiles', 'callr', 'usethis', 'markdown'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'curl', 'data.table', 'devtools', 'httr', 'jsonlite', 'mockery'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'clipr', 'clisymbols', 'crayon', 'curl', 'glue', 'here', 'jsonlite',
  'purrr', 'xfun'

Packages suggested but not available for checking:
  'covr', 'knitr', 'rmarkdown', 'spelling', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'magrittr', 'dplyr', 'stringr', 'base64enc', 'httr', 'purrr',
  'tibble', 'yaml', 'arpr'

Packages suggested but not available for checking:
  'devtools', 'roxygen2', 'testthat', 'R.rsp', 'knitr', 'shiny'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'htmltools', 'rlang'

Packages suggested but not available for checking:
  'covr', 'spelling', 'testthat', 'rmarkdown', 'fs', 'rprojroot',
  'shiny'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'alabama', 'rootSolve'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RANN', 'RcppArmadillo'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'magic', 'matrixcalc', 'VGAM', 'survey', 'trust', 'VineCopula',
  'ggplot2', 'matrixStats', 'mnormt', 'gamlss.dist', 'Rmpfr', 'scam',
  'psych', 'copula', 'distrEx', 'numDeriv', 'trustOptim', 'evd',
  'ismev'

Package which this enhances but not available for checking: 'sp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library("testthat")
  Error in library("testthat") : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'jsonlite', 'httr', 'ISOcodes'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'qpdf'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'kernlab', 'seqinr', 'ROCR', 'Rcpp'

Packages suggested but not available for checking:
  'rtracklayer', 'GenomicRanges', 'BSgenome',
  'BSgenome.Hsapiens.UCSC.hg18.masked',
  'BSgenome.Hsapiens.UCSC.hg19.masked', 'BiocGenerics', 'Biostrings',
  'GenomeInfoDb', 'IRanges', 'S4Vectors'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Ecdat', 'lubridate', 'progress'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'raster', 'sp', 'udunits2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'GGally', 'dplyr', 'forcats', 'ggplot2', 'openxlsx', 'purrr',
  'tibble', 'tidyr', 'gridExtra'

Packages suggested but not available for checking:
  'testthat', 'covr', 'spelling', 'knitr', 'rmarkdown', 'skimr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking: 'RUnit', 'knitr', 'zoo'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/glarma.Rnw'
(Is a VignetteBuilder field missing?)
Files named as vignettes but with no recognized vignette engine:
   'vignettes/glarma.Rnw'
(Is a VignetteBuilder field missing?)
Running 'doRUnit.R'
  Running 'forecastTests.R'
Running the tests in 'tests/forecastTests.R' failed.
Last 13 lines of output:
  +                     residuals = "Pearson", maxit = 100, grad = 1e-6)
  +     XT1 <- matrix(allX[i + 1, ], nrow = 1)
  +     offsetT1 <- 0
  +     mu <- forecast(glarmamod, 1, XT1, offsetT1 = 0)$mu
  +     if (i == 146){
  +         forecasts[1:146] <- fitted(glarmamod)
  +     }
  +     forecasts[i+1] <- mu
  + }
  > 
  > par(mfrow = c(1,1))
  > forecasts <- zoo(forecasts, order.by = OxBoatRace$Year)
  Error in zoo(forecasts, order.by = OxBoatRace$Year) : 
    could not find function "zoo"
  Execution halted
Package required but not available: 'httr'

Packages suggested but not available for checking:
  'covr', 'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'glasso', 'rbenchmark'
fptcdf: no visible global function definition for 'dnorm'
fptcdf: no visible global function definition for 'pnorm'
fptpdf: no visible global function definition for 'pnorm'
fptpdf: no visible global function definition for 'dnorm'
lba: no visible global function definition for 'as.formula'
lba: no visible global function definition for 'model.frame'
lba : logl: no visible global function definition for 'head'
lba: no visible global function definition for 'optim'
pmod: no visible global function definition for 'model.frame'
pmod: no visible global function definition for 'model.matrix'
rlba: no visible global function definition for 'pnorm'
rlba: no visible global function definition for 'rnorm'
rlba: no visible global function definition for 'runif'
tablba: no visible global function definition for 'pnorm'
Undefined global functions or variables:
  as.formula dnorm head model.frame model.matrix optim pnorm rnorm
  runif
Consider adding
  importFrom("stats", "as.formula", "dnorm", "model.frame",
             "model.matrix", "optim", "pnorm", "rnorm", "runif")
  importFrom("utils", "head")
to your NAMESPACE file.
Package required but not available: 'Rcpp'

Packages suggested but not available for checking: 'covr', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'raster', 'Rcpp', 'RcppArmadillo'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'e1071', 'lmom'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'GLDEX', 'ddst'

Package suggested but not available for checking: 'quantreg'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
'LazyData' is specified without a 'data' directory
Packages required but not available: 'foreach', 'doParallel'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'TMB', 'mvabund', 'mvtnorm', 'statmod', 'fishMod', 'RcppEigen'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'gclus', 'corrplot'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'mvtnorm', 'mnormt', 'Rcpp', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'digest'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'BH', 'RcppEigen'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'dplyr', 'ggplot2', 'gridExtra',
  'gtools', 'tidyr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'emplik'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'caret', 'dplyr', 'magrittr', 'gam', 'RcppNumerical', 'Rcpp',
  'RcppEigen'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'reshape', 'dplyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'lme4', 'partykit', 'Formula'

Package suggested but not available for checking: 'vcd'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'parameters'

Packages suggested but not available for checking:
  'testthat', 'lme4', 'lmerTest', 'gam', 'multcomp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'mvtnorm'
Running examples in 'glmlep-Ex.R' failed
The error most likely occurred in:

> ### Name: cv.glmlep
> ### Title: Cross-validation for 'glmlep'.
> ### Aliases: cv.glmlep
> ### Keywords: LEP GLM Cross-validation
> 
> ### ** Examples
> 
> 
> ## generate data from multivariate normal distribution
> require(mvtnorm)
Loading required package: mvtnorm
Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE,  :
  there is no package called 'mvtnorm'
> n = 100;
> beta <- c(3,1.5,0,0,2,0,0,0)
> 
> set.seed(100)
> p=length(beta);
> corr_data=diag(rep(1,p));
> x=as.matrix(rmvnorm(n,rep(0,p),corr_data))
Error in rmvnorm(n, rep(0, p), corr_data) : 
  could not find function "rmvnorm"
Calls: as.matrix
Execution halted
Package required but not available: 'matrixStats'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'pkgdown', 'multcomp', 'emmeans',
  'estimability', 'effects', 'DHARMa', 'optimParallel'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'glmmTMB', 'testthat', 'future.apply', 'knitr', 'rmarkdown', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'lme4', 'matrixcalc'

Package suggested but not available for checking: 'mlmRev'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'assertthat', 'broom', 'broom.mixed', 'dplyr', 'forcats',
  'ggplot2', 'loo', 'mvtnorm', 'reshape2', 'rstan', 'rstantools',
  'tibble', 'BH', 'RcppEigen', 'StanHeaders'

Packages suggested but not available for checking:
  'bayesplot', 'coda', 'knitr', 'rmarkdown', 'testthat', 'viridis'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'minqa'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Package unavailable to check Rd xrefs: 'lme4'
Errors in running code in vignettes:
when running code in 'glmmML.Rnw'
  ...
Error in loadVignetteBuilder(pkgdir) : vignette builder 'knitr' not found
Calls: <Anonymous> -> loadVignetteBuilder
Execution halted

... incomplete output.  Crash?

  'glmmML.Rnw' using 'UTF-8'... failed to complete the test
Packages required but not available:
  'trust', 'mvtnorm', 'doParallel', 'foreach', 'itertools'

Package suggested but not available for checking: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'lme4', 'RColorBrewer'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'car', 'gghalves', 'ggplot2', 'ggpubr', 'lme4', 'plotly', 'qvalue',
  'pbapply', 'pbmcapply'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'kableExtra', 'edgeR'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'lme4', 'R6', 'Rcpp', 'numDeriv', 'RcppEigen', 'BH'

Packages suggested but not available for checking:
  'BradleyTerry2', 'knitr', 'mdhglm', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'TMB', 'lme4', 'RcppEigen'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'ggplot2', 'mlmRev', 'bbmle',
  'pscl', 'coda', 'reshape2', 'car', 'emmeans', 'estimability',
  'DHARMa', 'multcomp', 'MuMIn', 'effects', 'dotwhisker', 'broom',
  'broom.mixed', 'plyr', 'png', 'texreg', 'xtable', 'huxtable',
  'numDeriv'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/glmmTMB.Rnw'
   'inst/doc/model_evaluation.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'glmnet'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'foreach', 'shape'

Packages suggested but not available for checking:
  'knitr', 'lars', 'testthat', 'xfun', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'glmnet'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'doParallel', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'pBrackets', 'effects', 'AER', 'pscl', 'lme4', 'lmtest', 'sandwich',
  'censReg', 'plm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'glmpath'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'covr', 'ggplot2', 'knitr', 'logisticPCA', 'markdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'
Package unavailable to check Rd xrefs: 'logisticPCA'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package required but not available: 'AER'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'schlegel', 'ggplot2', 'devtools'

VignetteBuilder packages required for checking but not installed:
  'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'assertthat', 'purrr', 'stringr', 'dplyr', 'statmod', 'magrittr',
  'tweedie', 'ggplot2', 'cplm'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'glmnet'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'numDeriv', 'Rfast'

Packages suggested but not available for checking: 'aplore3', 'ISLR'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'partykit', 'magrittr', 'dplyr', 'caret'

Packages suggested but not available for checking:
  'FactoMineR', 'knitr', 'testthat', 'covr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rJava', 'leaps'

Packages suggested but not available for checking: 'aod', 'lme4', 'pscl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'glmnet', 'ncvreg', 'brglm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Formula', 'lmtest', 'sandwich'

Packages suggested but not available for checking:
  'AER', 'gld', 'numDeriv', 'pscl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'snowfall'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'sybil'

Package suggested but not available for checking: 'cplexAPI'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Title field: should not end in a period.
CreateFormula: no visible global function definition for 'as.formula'
GeneratePvalues: no visible binding for global variable 'binomial'
globalARTP: no visible binding for global variable 'binomial'
globalFisher: no visible binding for global variable 'binomial'
globalFisher: no visible global function definition for 'pchisq'
globalSimes: no visible binding for global variable 'binomial'
pvalFmla: no visible binding for global variable 'binomial'
pvalFmla: no visible global function definition for 'glm'
pvalFmla: no visible global function definition for 'anova'
runPermut: no visible binding for global variable 'binomial'
runPvalues: no visible binding for global variable 'binomial'
Undefined global functions or variables:
  anova as.formula binomial glm pchisq
Consider adding
  importFrom("stats", "anova", "as.formula", "binomial", "glm", "pchisq")
to your NAMESPACE file.
Packages required but not available:
  'spatstat', 'spatstat.core', 'spatstat.geom'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'testthat', 'knitr', 'markdown', 'GetoptLong'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'test-all.R'
Running the tests in 'tests/test-all.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Malformed Description field: should contain one or more complete sentences.
Packages required but not available: 'zoo', 'sandwich'

Packages suggested but not available for checking:
  'strucchange', 'fxregime'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'Rcpp', 'RcppParallel', 'scales', 'R6', 'RcppEigen'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'viridisLite', 'magick', 'qs'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'knitr', 'rmarkdown'
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
ScoreTest: no visible global function definition for 'pchisq'
Var1: no visible global function definition for 'runif'
gLRT1: no visible global function definition for 'pchisq'
gLRT2: no visible global function definition for 'pchisq'
gLRT3: no visible global function definition for 'pchisq'
gLRT4: no visible global function definition for 'pf'
Undefined global functions or variables:
  pchisq pf runif
Consider adding
  importFrom("stats", "pchisq", "pf", "runif")
to your NAMESPACE file.
Packages required but not available: 'mvtnorm', 'corpcor'

Packages suggested but not available for checking: 'ape', 'mvSLOUCH'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'glue', 'magrittr'

Packages suggested but not available for checking:
  'covr', 'dplyr', 'httr', 'knitr', 'markdown', 'mockr', 'rmarkdown',
  'rvest', 'spelling', 'stringr', 'testthat', 'xml2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'testthat', 'covr', 'magrittr', 'crayon', 'knitr', 'rmarkdown',
  'DBI', 'RSQLite', 'R.utils', 'forcats', 'microbenchmark', 'rprintf',
  'stringr', 'ggplot2', 'dplyr', 'withr', 'vctrs'

VignetteBuilder package required for checking but not installed: 'knitr'
Package unavailable to check Rd xrefs: 'crayon'
'LazyData' is specified without a 'data' directory
Running examples in 'glue-Ex.R' failed
The error most likely occurred in:

> ### Name: glue
> ### Title: Format and interpolate a string
> ### Aliases: glue glue_data
> 
> ### ** Examples
> 
> name <- "Fred"
> age <- 50
> anniversary <- as.Date("1991-10-12")
> glue('My name is {name},',
+   'my age next year is {age + 1},',
+   'my anniversary is {format(anniversary, "%A, %B %d, %Y")}.')
My name is Fred,my age next year is 51,my anniversary is Saturday, October 12, 1991.
> 
> # single braces can be inserted by doubling them
> glue("My name is {name}, not {{name}}.")
My name is Fred, not {name}.
> 
> # Named arguments can be used to assign temporary variables.
> glue('My name is {name},',
+   ' my age next year is {age + 1},',
+   ' my anniversary is {format(anniversary, "%A, %B %d, %Y")}.',
+   name = "Joe",
+   age = 40,
+   anniversary = as.Date("2001-10-12"))
My name is Joe, my age next year is 41, my anniversary is Friday, October 12, 2001.
> 
> # `glue()` can also be used in user defined functions
> intro <- function(name, profession, country){
+   glue("My name is {name}, a {profession}, from {country}")
+ }
> intro("Shelmith", "Senior Data Analyst", "Kenya")
My name is Shelmith, a Senior Data Analyst, from Kenya
> intro("Cate", "Data Scientist", "Kenya")
My name is Cate, a Data Scientist, from Kenya
> 
> # `glue_data()` is useful in magrittr pipes
> library(magrittr)
Error in library(magrittr) : there is no package called 'magrittr'
Execution halted
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'ggplot2', 'gridExtra', 'pracma', 'scales', 'tidyr', 'zoo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'tidyr', 'dplyr', 'coin'

Packages suggested but not available for checking:
  'knitr', 'markdown', 'preprocessCore', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'base64enc', 'crayon', 'gargle', 'httr', 'jsonlite', 'lifecycle',
  'magrittr', 'mime', 'rematch2'

Packages suggested but not available for checking:
  'covr', 'knitr', 'sodium', 'rmarkdown', 'testthat', 'xml2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'maptools', 'caTools', 'classInt', 'coin', 'corrplot', 'DescTools',
  'dismo', 'ggplot2', 'ggrepel', 'gridExtra', 'Hmisc', 'InPosition',
  'kimisc', 'lsr', 'plyr', 'pROC', 'raster', 'RcmdrMisc', 'rgdal',
  'rgeos', 'sp', 'spatstat.geom', 'spatstat.core', 'spatstat.linnet',
  'spatstat'

Packages suggested but not available for checking:
  'archdata', 'gdistance', 'resample'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'RCurl', 'XML'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'car'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'gRbase', 'igraph'

Packages suggested but not available for checking: 'testthat', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'ellipse', 'RcppArmadillo'

Packages suggested but not available for checking:
  'idr', 'Hmisc', 'RColorBrewer', 'foreach', 'jpeg', 'testthat',
  'knitr', 'rmarkdown', 'shiny', 'shinydashboard', 'shinyBS',
  'rhandsontable', 'DT'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/GMCM-JStatSoft.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'PolynomF', 'multcomp', 'mvtnorm', 'CommonJavaJars', 'rJava',
  'JavaGD', 'xlsxjars'

Packages suggested but not available for checking:
  'RUnit', 'Deducer', 'knitr', 'graph', 'mutoss', 'coin'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/AQuickStart.Rnw'
   'inst/doc/gMCP.Rnw'
   'inst/doc/parametric.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'DBI', 'RMySQL', 'foreach', 'digest', 'shiny'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'e1071', 'randomForest', 'glmnet', 'plotly', 'magrittr', 'xtable'

Package suggested but not available for checking: 'mlbench'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'Rcpp', 'RSpectra', 'robustbase', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'BiasedUrn', 'binom'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'gstat', 'compositions', 'sp', 'foreach', 'RColorBrewer'

Packages suggested but not available for checking:
  'FNN', 'JADE', 'jointDiag', 'DescTools', 'knitr', 'rmarkdown',
  'magrittr', 'readxl'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'purrr', 'rlang', 'stringr', 'tidyr',
  'visNetwork'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'htmlTable', 'abind', 'checkmate', 'forestplot', 'Hmisc',
  'glue', 'knitr', 'lubridate', 'magrittr', 'rmarkdown', 'stringr',
  'yaml', 'XML'

Package suggested but not available for checking: 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'RcppParallel', 'RcppArmadillo'

Package suggested but not available for checking: 'plot3D'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'SeqArray', 'SeqVarTools', 'CompQuadForm', 'foreach',
  'RcppArmadillo'

Packages suggested but not available for checking: 'doMC', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'minqa', 'magic'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'sandwich'

Packages suggested but not available for checking:
  'knitr', 'mvtnorm', 'car', 'stabledist', 'timeDate', 'timeSeries'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/gmm_with_R.rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'maxLik', 'Formula', 'plotrix', 'msm', 'mlogit', 'truncnorm'

Packages suggested but not available for checking:
  'AER', 'lmtest', 'car', 'memisc', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'gdata'

Packages suggested but not available for checking:
  'gplots', 'gtools', 'lme4'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggrepel', 'geometry', 'ggplot2', 'rgl', 'Rfast', 'plyr',
  'tidyselect', 'tidyr', 'tibble', 'purrr', 'dplyr', 'rlang', 'png',
  'sp'

Packages suggested but not available for checking:
  'tikzDevice', 'gridExtra', 'knitr', 'rmarkdown', 'roxygen2', 'ggsci',
  'tidyverse', 'magrittr', 'scales', 'pdftools', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'Rmpfr', 'round'
Packages unavailable to check Rd xrefs: 'Rmpfr', 'sfsmisc', 'round'
Packages required but not available: 'combinat', 'transport', 'igraph'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'base64enc', 'glue', 'htmltools', 'knitr', 'magick', 'magrittr',
  'rlang', 'rstudioapi', 'stringr'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'shiny', 'shinydashboard', 'shinyjs'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'glmnet', 'ggplot2', 'reshape2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'dplyr', 'rlang', 'stringr', 'yaml'

Packages suggested but not available for checking:
  'curl', 'magclass', 'qgraph', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Brobdingnag', 'mvnfast', 'pbapply'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'clinfun', 'Rcpp', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'DCCA', 'PerformanceAnalytics', 'nonlinearTseries', 'fitdistrplus',
  'fgpt', 'tseries'

Packages suggested but not available for checking:
  'xts', 'zoo', 'quantmod', 'fracdiff'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'igraph', 'wordcloud'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'alabama', 'nleqslv', 'BB', 'SQUAREM'

Package suggested but not available for checking: 'sensitivity'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ismev', 'rmutil'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'rmutil'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'qvcalc', 'relimp'

Packages suggested but not available for checking: 'testthat', 'vcdExtra'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'keras', 'tensorflow', 'qrng'

Packages suggested but not available for checking:
  'copula', 'qrmtools', 'qrmdata', 'latticeExtra', 'RnavGraphImageData'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'minqa', 'triangle', 'kableExtra'

Packages suggested but not available for checking: 'rmarkdown', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
Packages required but not available: 'RCurl', 'jsonlite'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'devtools'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'robustbase', 'capushe'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'XML'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'data.table', 'quanteda', 'slam', 'SnowballC', 'tm'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'copula', 'foreach', 'doSNOW', 'R.utils', 'SparseGrid', 'numDeriv',
  'VineCopula', 'yarrr', 'progress', 'crayon'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'fda.usc', 'glmnet', 'ks', 'RcppArmadillo'

Packages suggested but not available for checking:
  'microbenchmark', 'knitr', 'viridisLite', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'Rcpp', 'ggplot2', 'Rsolnp', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'shiny', 'rmarkdown', 'rhandsontable'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'fitdistrplus', 'sn'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'GANPA', 'WGCNA'

Packages suggested but not available for checking:
  'GANPA', 'WGCNA', 'GANPAdata'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'fGarch', 'fastICA'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'Rcpp', 'tm', 'SnowballC', 'magrittr', 'futile.logger',
  'RcppArmadillo'

Packages suggested but not available for checking:
  'testthat', 'covr', 'rmarkdown', 'knitr', 'pdftools', 'RISmed'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'attempt', 'cli', 'config', 'crayon', 'desc', 'dockerfiler', 'fs',
  'here', 'htmltools', 'jsonlite', 'pkgload', 'remotes', 'rlang',
  'roxygen2', 'rstudioapi', 'shiny', 'testthat', 'usethis', 'yaml'

Packages suggested but not available for checking:
  'covr', 'devtools', 'glue', 'knitr', 'pkgdown', 'purrr', 'rcmdcheck',
  'rmarkdown', 'spelling', 'stringr', 'withr', 'pkgbuild', 'processx',
  'rsconnect'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'htmltools', 'glue'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'classInt', 'corrplot'

Packages suggested but not available for checking:
  'knitr', 'testthat', 'car', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'clisymbols', 'covr', 'crayon', 'cyclocomp', 'desc', 'jsonlite',
  'lintr', 'praise', 'rcmdcheck', 'rstudioapi', 'whoami', 'withr',
  'xml2', 'xmlparsedata'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'assertthat', 'cli', 'dplyr', 'googleAuthR', 'httr', 'jsonlite',
  'magrittr', 'measurementProtocol', 'memoise', 'purrr', 'rlang',
  'tibble', 'tidyr', 'usethis', 'whisker'

Packages suggested but not available for checking:
  'bigQueryR', 'covr', 'formatR', 'ganalytics', 'googleCloudStorageR',
  'htmlwidgets', 'knitr', 'lifecycle', 'miniUI', 'rmarkdown', 'shiny',
  'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'assertthat', 'cli', 'digest', 'gargle', 'httr', 'jsonlite',
  'memoise', 'rlang'

Packages suggested but not available for checking:
  'bigQueryR', 'covr', 'devtools', 'formatR', 'googleAnalyticsR',
  'knitr', 'miniUI', 'rmarkdown', 'roxygen2', 'rstudioapi', 'shiny',
  'testthat', 'usethis'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'assertthat', 'cli', 'curl', 'googleAuthR', 'googleCloudStorageR',
  'httr', 'jose', 'jsonlite', 'openssl', 'plumber', 'progress',
  'usethis', 'yaml'

Packages suggested but not available for checking:
  'knitr', 'miniUI', 'rmarkdown', 'rstudioapi', 'shiny', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'assertthat', 'curl', 'googleAuthR', 'httr', 'jsonlite', 'openssl',
  'yaml', 'zip'

Packages suggested but not available for checking:
  'cli', 'fs', 'googleComputeEngineR', 'knitr', 'readr', 'rmarkdown',
  'sodium', 'testthat', 'usethis'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'googleAuthR', 'jsonlite', 'purrr', 'data.table', 'glue'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'mockery', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'assertthat', 'future', 'googleAuthR', 'httr', 'jsonlite'

Packages suggested but not available for checking:
  'covr', 'googleCloudStorageR', 'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'curl', 'gargle', 'glue', 'httr', 'jsonlite', 'magrittr', 'purrr',
  'rlang', 'tibble', 'uuid'

Packages suggested but not available for checking:
  'covr', 'dplyr', 'knitr', 'rmarkdown', 'roxygen2', 'sodium',
  'spelling', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'httr', 'rvest', 'xml2'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'jsonlite', 'curl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'assertthat', 'base64enc', 'googleAuthR', 'jsonlite', 'magrittr',
  'purrr', 'tibble'

Packages suggested but not available for checking:
  'cld2', 'testthat', 'knitr', 'rmarkdown', 'rvest', 'shiny',
  'shinyjs', 'stringdist', 'tidyr', 'tuneR', 'xml2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'httr', 'jsonlite', 'purrr', 'readr', 'rlang'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'BH'

Packages suggested but not available for checking:
  'covr', 'knitr', 'rmarkdown', 'sf', 'sfheaders', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'googleAuthR', 'jsonlite', 'httr'

Package suggested but not available for checking: 'drat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'XML', 'readxl'

Packages suggested but not available for checking:
  'testthat', 'covr', 'googleVis'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'jsonlite', 'tibble'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'cellranger', 'curl', 'gargle', 'glue', 'googledrive', 'httr', 'ids',
  'lifecycle', 'magrittr', 'purrr', 'rematch2', 'rlang', 'tibble',
  'vctrs'

Packages suggested but not available for checking:
  'covr', 'readr', 'rmarkdown', 'sodium', 'spelling', 'testthat',
  'withr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'cellranger', 'dplyr', 'httr', 'jsonlite', 'purrr', 'readr',
  'stringr', 'tibble', 'tidyr', 'xml2'

Packages suggested but not available for checking:
  'covr', 'ggplot2', 'knitr', 'rmarkdown', 'rprojroot', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'assertthat', 'future', 'googleAuthR', 'httr', 'jsonlite', 'dplyr',
  'purrr'

Packages suggested but not available for checking:
  'covr', 'knitr', 'rmarkdown', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'jsonlite'

Packages suggested but not available for checking:
  'shiny', 'httpuv', 'knitr', 'rmarkdown', 'markdown', 'data.table'

VignetteBuilder packages required for checking but not installed:
  'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'jsonlite', 'curl', 'htmlwidgets', 'htmltools', 'magrittr', 'shiny',
  'jpeg', 'jqr', 'viridisLite', 'scales', 'googlePolylines'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'ggdendro', 'gridExtra', 'RColorBrewer'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ICsurv', 'pracma'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'bain', 'mvtnorm', 'quadprog', 'lme4', 'lavaan'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'quadprog', 'mvtnorm'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'jsonlite', 'htmltools'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'rmarkdown'

Packages suggested but not available for checking:
  'reticulate', 'testthat', 'crosstalk'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
Package suggested but not available for checking: 'tinytest'
Packages required but not available:
  'ggplot2', 'gontr', 'GO.db', 'igraph', 'network', 'ggnetwork',
  'dplyr', 'biomaRt', 'annotate'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'pander', 'stringi', 'gms', 'citation', 'yaml'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'barcode', 'vcd', 'colorspace'

Package which this enhances but not available for checking: 'YaleToolkit'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'DiceKriging', 'emoa', 'Rcpp', 'rgenoud', 'pbivnorm', 'pso',
  'randtoolbox', 'KrigInv', 'DiceDesign', 'ks', 'rgl'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/GPareto_vignette.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Random.Start: no visible global function definition for 'rnorm'
Undefined global functions or variables:
  rnorm
Consider adding
  importFrom("stats", "rnorm")
to your NAMESPACE file.
Packages required but not available: 'R6', 'data.table', 'RJSONIO'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'reshape2'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'ltm', 'Rcpp', 'TeachingDemos', 'cubature', 'caret', 'statmod',
  'mvtnorm', 'mirt', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
.r1: no visible global function definition for 'cor'
.r2: no visible global function definition for 'cor'
rgp: no visible global function definition for 'runif'
rgp: no visible global function definition for 'rexp'
Undefined global functions or variables:
  cor rexp runif
Consider adding
  importFrom("stats", "cor", "rexp", "runif")
to your NAMESPACE file.
Packages required but not available:
  'Rcpp', 'fields', 'interp', 'fda', 'fda.usc', 'RcppArmadillo'

Packages suggested but not available for checking:
  'mvtnorm', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'lhs'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'FNN', 'RcppArmadillo', 'BH'

Packages suggested but not available for checking:
  'fields', 'knitr', 'rmarkdown', 'testthat', 'maps', 'maptools'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'curl', 'askpass'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'dplyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'ggplot2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'AER'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'gtools', 'caTools'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'isotone', 'plyr', 'ggplot2', 'foreach'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'lhs', 'randtoolbox', 'pracma', 'foreach', 'doParallel',
  'iterators', 'RcppArmadillo'

Package suggested but not available for checking: 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'GPoM', 'deSolve'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'rgl', 'shiny'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'deSolve', 'rgl', 'float'

Packages suggested but not available for checking:
  'signal', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'rstan', 'ggplot2', 'ggthemes', 'mvtnorm'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'roxygen2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'rstan'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'gptk', 'matrixStats', 'tigreBrowserWriter', 'RColorBrewer'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'rstan'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'jsonlite', 'RCurl', 'ggplot2', 'plotly', 'tidyr', 'crosstalk',
  'gridExtra', 'viridisLite', 'dplyr'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'prettydoc'

VignetteBuilder packages required for checking but not installed:
  'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'RCurl', 'plyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'dplyr', 'nbpMatching'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'geosphere', 'leaflet', 'leaflet.extras', 'plotKML', 'plyr', 'purrr',
  'rgdal', 'sp', 'spacetime', 'suncalc'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'fields'

Package suggested but not available for checking: 'spam'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'numDeriv', 'Rcpp', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'sparseinv', 'fields', 'GpGp', 'FNN', 'RcppArmadillo', 'BH'

Packages suggested but not available for checking:
  'mvtnorm', 'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'graphql', 'magrittr', 'pryr', 'R6', 'jsonlite'

Packages suggested but not available for checking:
  'plumber', 'roxygen2', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ape', 'seqinr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'extraDistr', 'ggplot2', 'ggthemes', 'plyr', 'reshape2'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'glmnet', 'scalreg'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Title field: should not end in a period.
Packages required but not available: 'testthat', 'callr', 'jsonlite'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'htmlwidgets', 'jsonlite', 'shiny'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'raster', 'sf', 'furrr', 'checkmate', 'usethis'

Packages suggested but not available for checking:
  'dplyr', 'testthat', 'knitr', 'rmarkdown', 'covr', 'ggplot2',
  'landscapetools', 'rgdal'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'gRbase', 'graph', 'Rgraphviz', 'igraph', 'magrittr', 'Rcpp',
  'RcppArmadillo', 'RcppEigen'

Packages suggested but not available for checking:
  'microbenchmark', 'knitr', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/grain-intro.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'igraph', 'sp', 'raster', 'Rcpp', 'rgdal'

Packages suggested but not available for checking:
  'covr', 'cowplot', 'ggthemes', 'knitr', 'rgeos', 'rmarkdown',
  'spelling', 'testthat'

VignetteBuilder packages required for checking but not installed:
  'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking: 'rex', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/ge-intro.Rnw'
(Is a VignetteBuilder field missing?)
Files named as vignettes but with no recognized vignette engine:
   'vignettes/ge-intro.Rnw'
(Is a VignetteBuilder field missing?)
Packages required but not available:
  'GRANCore', 'switchr', 'htmlTable', 'dplyr', 'sendmailR', 'covr',
  'RCurl', 'jsonlite', 'stringi', 'markdown', 'desc'

Packages suggested but not available for checking:
  'rmarkdown', 'hexSticker', 'knitr', 'DT'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'switchr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'vars', 'tseries'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'gridExtra', 'plyr', 'RColorBrewer', 'reshape2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'car'

Package suggested but not available for checking: 'rgl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Package required but not available: 'magrittr'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'igraph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'htmlwidgets', 'lazyeval'

Packages suggested but not available for checking: 'shiny', 'viridisLite'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'adegenet', 'ggplot2', 'stringr', 'igraph', 'knitr', 'rmarkdown',
  'spatstat.geom', 'spatstat.core', 'spatstat.linnet', 'vegan',
  'pegas', 'tidyr', 'sp', 'sf', 'diveRsity', 'rappdirs', 'gdistance',
  'raster', 'ecodist', 'Rdpack'

VignetteBuilder packages required for checking but not installed:
  'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'BBmisc', 'checkmate', 'reshape2', 'vegan', 'ggplot2', 'lhs',
  'deldir'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'gridExtra', 'magrittr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'sparklyr', 'tibble', 'forge'

Packages suggested but not available for checking:
  'testthat', 'covr', 'dplyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'magrittr', 'httr', 'googlePolylines', 'jsonlite', 'tibble', 'dplyr'

Packages suggested but not available for checking:
  'sf', 'geojsonsf', 'ggplot2', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'igraph', 'mvtnorm', 'matrixcalc', 'Rdpack'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'glasso', 'glmnet', 'mvtnorm', 'qgraph', 'dplyr', 'igraph',
  'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'igraph', 'Rcpp', 'RcppEigen'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'igraph', 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'oaqc', 'testthat', 'ggraph', 'ggplot2', 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ROptSpace', 'Rdpack'

Package suggested but not available for checking: 'igraph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'FactoMineR', 'scatterplot3d', 'ggplot2movies'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'jsonlite'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'snowfall', 'ape', 'sp', 'rgl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'gplots', 'igraph', 'mvtnorm', 'matrixcalc'

Packages suggested but not available for checking:
  'devtools', 'knitr', 'markdown', 'prettydoc', 'R.rsp', 'rmarkdown',
  'testthat', 'scales', 'vdiffr'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'igraph', 'purrr', 'rlang', 'magrittr', 'tidyr', 'zeallot',
  'combinat'

Packages suggested but not available for checking: 'rtweet', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
Package in Depends field not imported from: 'Matrix'
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
GrassmannOptim: no visible global function definition for 'rnorm'
GrassmannOptim: no visible global function definition for 'runif'
GrassmannOptim : <anonymous>: no visible global function definition for
  'expm'
GrassmannOptim : <anonymous>: no visible global function definition for
  'Matrix'
Undefined global functions or variables:
  Matrix expm rnorm runif
Consider adding
  importFrom("stats", "rnorm", "runif")
to your NAMESPACE file.
Skipping vignette re-building
Packages suggested but not available for checking:
  'testthat', 'covr', 'scales', 'ggplot2', 'knitr', 'rmarkdown',
  'outbreaks', 'dplyr'

VignetteBuilder package required for checking but not installed: 'knitr'
Package unavailable to check Rd xrefs: 'ggplot2'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'ggplot2', 'tibble', 'dplyr', 'tidyr', 'rlang', 'patchwork', 'vctrs',
  'mvnfast', 'purrr'

Packages suggested but not available for checking:
  'gamm4', 'testthat', 'vdiffr', 'scam'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'sp', 'raster'

Packages suggested but not available for checking:
  'devtools', 'knitr', 'maptools', 'oce', 'rgdal', 'rworldmap',
  'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'tsfeatures', 'doRNG', 'polynom', 'mvtnorm', 'forecast', 'dplyr',
  'tibble', 'purrr', 'magrittr', 'GA', 'foreach', 'shiny', 'tsibble'

Packages suggested but not available for checking:
  'fGarch', 'knitr', 'rmarkdown', 'rlang', 'shinydashboard'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'data.table', 'hutils', 'ineq', 'fastmatch', 'forecast', 'fy',
  'hutilscpp', 'assertthat', 'magrittr', 'Rcpp', 'zoo'

Packages suggested but not available for checking:
  'curl', 'dplyr', 'dtplyr', 'fst', 'future', 'future.apply',
  'ggplot2', 'ggrepel', 'knitr', 'rlang', 'rmarkdown', 'rsdmx',
  'scales', 'survey', 'taxstats', 'taxstats1516', 'testthat', 'tibble',
  'viridis', 'yaml', 'withr', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'lubridate', 'dplyr', 'tsibble', 'tibble', 'rlang', 'tidyr',
  'ggplot2', 'stringr', 'lvplot', 'ggridges', 'shiny', 'RColorBrewer',
  'ineq', 'magrittr'

Packages suggested but not available for checking:
  'knitr', 'tsibbledata', 'purrr', 'testthat', 'covr', 'rmarkdown',
  'readr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'lmtest', 'sandwich', 'glm2', 'censReg', 'multiwayvcov', 'tibble',
  'magrittr', 'dplyr', 'tidyr', 'purrr', 'rlang', 'Rdpack'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'broom'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'graph', 'Rgraphviz', 'RBGL', 'igraph', 'magrittr', 'Rcpp',
  'RcppEigen', 'RcppArmadillo'

Packages suggested but not available for checking:
  'testthat', 'microbenchmark', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/arrays.Rnw'
   'inst/doc/graphs.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'nloptr', 'cubature'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'gRbase', 'magrittr', 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'Rgraphviz', 'RBGL', 'microbenchmark', 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'imagine', 'raster'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'future', 'listenv', 'ggplot2', 'RSpectra', 'ggpubr', 'cba',
  'RcppArmadillo'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'igraph', 'dplyr', 'tibble',
  'tidyr', 'spelling'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'rJava'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'rJava', 'GreedyExperimentalDesignJARs', 'Rcpp', 'checkmate',
  'nbpMatching', 'survey', 'kernlab'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'stringr', 'assertthat'

Packages suggested but not available for checking:
  'clisymbols', 'swirlify', 'swirl', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'forestplot', 'Gmisc', 'Hmisc', 'stringr', 'rms', 'sandwich',
  'htmlTable', 'magrittr', 'knitr', 'Epi'

Packages suggested but not available for checking:
  'testthat', 'cmprsk', 'dplyr', 'ggplot2', 'rmarkdown', 'rmeta'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'R6', 'igraph', 'mclust', 'blockmodels', 'aricode', 'pbmcapply'

Packages suggested but not available for checking:
  'testthat', 'spelling', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'glmnet', 'Iso', 'pROC', 'RcppArmadillo'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Hmisc', 'rms', 'latticeExtra', 'ggplot2', 'Formula', 'data.table'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'R6', 'tensorflow', 'reticulate', 'progress', 'future', 'coda'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'DiagrammeR', 'bayesplot', 'testthat',
  'mvtnorm', 'MCMCpack', 'rmutil', 'extraDistr', 'truncdist',
  'tidyverse', 'fields', 'abind', 'spelling'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'ResistorArray'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages required but not available:
  'lamW', 'pracma', 'nloptr', 'statmod', 'zoo', 'texreg', 'forecast',
  'Rcpp'

Packages suggested but not available for checking:
  'smooth', 'doMC', 'doParallel', 'foreach', 'testthat', 'rmarkdown',
  'knitr'

Package which this enhances but not available for checking: 'vars'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Hmisc', 'survAUC'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'DiceKriging', 'lmtest', 'Rcpp', 'sandwich', 'RcppEigen'

Packages suggested but not available for checking: 'DiagrammeR', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
Packages required but not available: 'graph', 'gridGraphviz', 'gridSVG'

Package suggested but not available for checking: 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'gtable'

Packages suggested but not available for checking:
  'ggplot2', 'egg', 'knitr', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'polyclip'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'magick', 'pdftools'
Packages required but not available: 'graph', 'Rgraphviz'

Package suggested but not available for checking: 'gridSVG'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'fossil', 'dqrng', 'Rdpack', 'plotrix'

Packages suggested but not available for checking:
  'Ckmeans.1d.dp', 'FunChisq', 'knitr', 'testthat', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'shiny', 'ggplot2', 'reshape2', 'plyr', 'shinythemes', 'BiasedUrn',
  'shinyBS'

Packages suggested but not available for checking:
  'knitr', 'testthat', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'jsonlite', 'XML'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'markdown', 'rlang', 'Rcpp', 'RCurl', 'png', 'jpeg', 'stringr',
  'xml2'

Packages suggested but not available for checking:
  'covr', 'knitr', 'rmarkdown', 'testthat', 'vdiffr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'XML', 'png', 'jpeg', 'base64enc'

Packages suggested but not available for checking: 'gridSVG', 'rsvg'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'XML'

Package suggested but not available for checking: 'colorspace'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'gRbase', 'graph', 'Rgraphviz', 'igraph', 'gRain', 'magrittr',
  'Rcpp', 'RcppArmadillo', 'RcppEigen'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'car'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'usethis', 'GenSA', 'GA'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'purrr', 'dplyr', 'tidyr', 'magrittr', 'tibble', 'rlang'

Packages suggested but not available for checking:
  'spelling', 'knitr', 'testthat', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'msm', 'numDeriv', 'optimParallel'

Packages suggested but not available for checking:
  'bookdown', 'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'plyr', 'rrBLUP'

Packages suggested but not available for checking:
  'BGLR', 'e1071', 'ggplot2', 'knitr', 'randomForest'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'glue', 'gridExtra', 'magrittr', 'png', 'purrr',
  'RCurl', 'stringr', 'tibble'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'R6', 'scales', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rrcov', 'pls', 'robustbase'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'igraph', 'ape', 'glpkAPI', 'quadprog'

Package suggested but not available for checking: 'phangorn'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'bnlearn', 'ClustOfVar', 'PCAmixdata', 'arules', 'zoo', 'PRROC',
  'MLmetrics', 'rlist', 'magrittr', 'visNetwork', 'plyr', 'stringr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'car'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'checkmate', 'dplyr', 'numbers', 'lifecycle', 'plyr', 'purrr',
  'rlang', 'tibble', 'tidyr'

Packages suggested but not available for checking:
  'broom', 'covr', 'ggplot2', 'hydroGOF', 'knitr', 'lmerTest',
  'rmarkdown', 'testthat', 'xpectr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'broomExtra', 'dplyr', 'effectsize', 'glue', 'lme4', 'magrittr',
  'parameters', 'purrr', 'rlang', 'skimr', 'tibble', 'tidyr'

Packages suggested but not available for checking:
  'gapminder', 'ggplot2', 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'doParallel', 'foreach', 'qvalue', 'RcppEigen', 'BH'

Packages suggested but not available for checking:
  'knitr', 'snplist', 'BEDMatrix'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/groupedSurv.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'dplyr', 'rlang', 'vctrs', 'purrr', 'tidyr', 'tibble'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'Rsolnp', 'glm2', 'rjags'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'wavethresh', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'spam', 'mvtnorm', 'ggplot2', 'reshape2', 'RcppArmadillo'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'minpack.lm'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'dplyr', 'ggplot2', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
Packages required but not available:
  'dae', 'ggplot2', 'stringi', 'readxl', 'Hmisc', 'GGally',
  'RColorBrewer', 'reshape'

Packages suggested but not available for checking: 'testthat', 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'clime', 'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'deSolve', 'FME'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'rmutil'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'colorspace', 'Rcpp', 'RcppEigen'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'grplasso'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'tinytest'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages required but not available: 'ggplot2', 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'pander', 'isotone'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'plyr', 'Rcpp'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'glmnet', 'randomForest', 'RPtests', 'ranger'

Package suggested but not available for checking: 'xyz'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'bootstrap'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'rgl', 'misc3d'
Package required but not available: 'edgeR'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
.gsa.assignGATKTableToEnvironment: no visible global function
  definition for 'type.convert'
Undefined global functions or variables:
  type.convert
Consider adding
  importFrom("utils", "type.convert")
to your NAMESPACE file.
Package suggested but not available for checking: 'impute'
'library' or 'require' call to 'impute' in package code.
  Please use :: or requireNamespace() instead.
  See section 'Suggested packages' in the 'Writing R Extensions' manual.
GSA: no visible global function definition for 'impute.knn'
Undefined global functions or variables:
  impute.knn
Package required but not available: 'e1071'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'gsDesign'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'softImpute', 'RSpectra', 'doParallel', 'foreach'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'igraph', 'missSBM', 'RColorBrewer',
  'combinat', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'gridExtra', 'ggplot2', 'stringr', 'progress', 'psych',
  'fastDummies', 'fclust', 'devtools', 'foreach', 'doSNOW'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'dplyr', 'gsDesign', 'mvtnorm'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'msigdbr'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'magrittr', 'rlang', 'dplyr', 'tidyr', 'xtable'

Packages suggested but not available for checking:
  'knitr', 'scales', 'rmarkdown', 'gt', 'testthat', 'covr',
  'gridExtra', 'tibble', 'mvtnorm'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'ontologyIndex'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'memoise', 'rootSolve', 'R.utils'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'ade4'
Running examples in 'gSeg-Ex.R' failed
The error most likely occurred in:

> ### Name: gSeg
> ### Title: Graph-Based Change-Point Detection
> ### Aliases: gSeg
> 
> ### ** Examples
> 
> 
> data(Example)
> # Five examples, each example is a n-length sequence.
> # Ei (i=1,...,5): an edge matrix representing a similarity graph constructed on the
> # observations in the ith sequence.  
> # The following code shows how the Ei's were constructed.
> 
> require(ade4) 
Loading required package: ade4
Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE,  :
  there is no package called 'ade4'
> # For illustration, we use 'mstree' in this package to construct the similarity graph.
> # You can use other ways to construct the graph.
> 
> ## Sequence 1: change in mean in the middle of the sequence.
> d = 50
> mu = 2
> tau = 100
> n = 200
> set.seed(500)
> y = rbind(matrix(rnorm(d*tau),tau), matrix(rnorm(d*(n-tau),mu/sqrt(d)), n-tau))
> y.dist = dist(y)
> E1 = mstree(y.dist)
Error in mstree(y.dist) : could not find function "mstree"
Execution halted
Packages required but not available: 'SAM', 'penalized', 'gdata'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'knitr', 'htmlwidgets', 'DiagrammeR'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'rrcov', 'robustbase', 'cellWise', 'ggplot2', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Hmisc', 'mvtnorm', 'MCMCpack'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'httr', 'stringr'

Packages suggested but not available for checking: 'testthat', 'readr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Packages suggested but not available for checking: 'testthat', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'ggplot2'

VignetteBuilder package required for checking but not installed: 'knitr'
Malformed Description field: should contain one or more complete sentences.
Package required but not available: 'gtools'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'countrycode', 'curl', 'data.table', 'httr', 'R.utils'

Packages suggested but not available for checking:
  'dplyr', 'ggplot2', 'gridExtra', 'knitr', 'mapproj', 'maps',
  'remotes', 'rmarkdown', 'roxygen2', 'testthat', 'tidyr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ThreeWay', 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'mvtnorm', 'ldbounds', 'xtable'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Iso', 'zoo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'dplyr', 'xts', 'zoo', 'reshape2'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'sp', 'zoo', 'spacetime', 'FNN'

Packages suggested but not available for checking:
  'fields', 'maps', 'mapdata', 'maptools', 'rgdal', 'rgeos', 'sf',
  'stars', 'xts', 'raster', 'future', 'future.apply'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'proto'

Packages suggested but not available for checking:
  'chron', 'quantreg', 'svUnit', 'zoo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'testthat'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'truncnorm', 'Rsolnp', 'ROCR'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'ggplot2', 'GGally', 'doParallel', 'foreach', 'abind',
  'mvtnorm', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Skipping vignette re-building
Packages suggested but not available for checking:
  'covr', 'testthat', 'knitr', 'rmarkdown', 'ggplot2', 'profvis'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package suggested but not available for checking: 'interval'
gte: no visible global function definition for 'model.extract'
gte: no visible global function definition for 'model.matrix'
gte: no visible binding for global variable 'sd'
gte: no visible global function definition for 'dnorm'
plot.gte: no visible global function definition for 'par'
plot.gte: no visible global function definition for 'polygon'
plot.gte: no visible global function definition for 'gray'
plot.gte: no visible global function definition for 'lines'
plot.gte: no visible global function definition for 'legend'
Undefined global functions or variables:
  dnorm gray legend lines model.extract model.matrix par polygon sd
Consider adding
  importFrom("grDevices", "gray")
  importFrom("graphics", "legend", "lines", "par", "polygon")
  importFrom("stats", "dnorm", "model.extract", "model.matrix", "sd")
to your NAMESPACE file.
Package required but not available: 'ade4'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'data.table', 'furrr', 'future', 'magrittr', 'Rcpp', 'units', 'sf',
  'sp', 'rgdal', 'rgeos', 'sfheaders', 'lwgeom', 'raster', 'pbapply',
  'progressr', 'zip', 'readr'

Packages suggested but not available for checking:
  'rmarkdown', 'knitr', 'testthat', 'dplyr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'data.table', 'zip'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'tinytest'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'cli', 'data.table', 'Rcpp'

Packages suggested but not available for checking:
  'alphahull', 'digest', 'dodgr', 'geodist', 'here', 'hms', 'knitr',
  'leafem', 'lubridate', 'lwgeom', 'mapview', 'pbapply', 'rmarkdown',
  'sf', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'checkmate', 'data.table', 'sf', 'sfheaders', 'units', 'zip'

Packages suggested but not available for checking:
  'covr', 'knitr', 'lwgeom', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'lme4'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Found the following possibly unsafe calls:
File 'gtools/R/unByteCode.R':
  unlockBinding(name, env = env)
Packages unavailable to check Rd xrefs: 'taxize', 'SGP', 'car', 'gplots'
Packages required but not available: 'hts', 'quadprog', 'lassoshooting'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'checkmate', 'commonmark', 'dplyr', 'fs', 'ggplot2', 'glue',
  'htmltools', 'magrittr', 'rlang', 'sass', 'scales', 'stringr',
  'tibble', 'tidyselect'

Packages suggested but not available for checking:
  'covr', 'knitr', 'paletteer', 'testthat', 'RColorBrewer',
  'rmarkdown', 'rvest', 'shiny', 'tidyr', 'webshot', 'xml2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'jsonlite', 'anytime', 'curl'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'tinytest'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'broom', 'broom.helpers', 'cli', 'dplyr', 'forcats', 'glue', 'gt',
  'knitr', 'lifecycle', 'purrr', 'rlang', 'stringr', 'tibble', 'tidyr'

Packages suggested but not available for checking:
  'broom.mixed', 'car', 'covr', 'effectsize', 'flextable', 'geepack',
  'GGally', 'Hmisc', 'huxtable', 'kableExtra', 'lme4', 'mice',
  'officer', 'parameters', 'pkgdown', 'rmarkdown', 'scales',
  'spelling', 'survey', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'tibble'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'httr', 'jsonlite', 'tibble', 'rlang'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'lubridate', 'ggplot2', 'covr',
  'scales', 'readr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'sp'

Packages suggested but not available for checking:
  'spdep', 'ade4', 'maptools', 'RColorBrewer'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'reshape2', 'ggplot2', 'lubridate'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rsolnp'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available: 'rpanel', 'tkrplot'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'pracma'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'shiny', 'ggplot2', 'svglite', 'DT', 'rlang', 'magrittr', 'R6'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Nozzle.R1', 'proftools', 'Rgraphviz', 'graph', 'rstudioapi'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'vegan', 'ape', 'matrixStats'

Package suggested but not available for checking: 'ade4'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'magrittr', 'stringr', 'units', 'tibble'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'seasonal', 'ggplot2', 'data.table', 'zoo', 'x13binary'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'testthat', 'covr', 'sampling', 'magrittr', 'tibble', 'dplyr',
  'data.table'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'dplyr', 'readr', 'purrr', 'urltools', 'stringr', 'lazyeval'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'tidytext', 'ggplot2', 'tidyr',
  'curl'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'adaptMCMC', 'xlsx', 'drc'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'vars', 'xts', 'lmtest', 'lubridate', 'urca', 'sandwich',
  'strucchange', 'tsDyn'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'decompr', 'diagonals'

Packages suggested but not available for checking: 'testthat', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'eda4treeR', 'lme4', 'magrittr'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'RColorBrewer', 'ggplot2', 'ggrepel', 'dplyr', 'tidyr', 'data.table',
  'scales'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Biobase', 'snpStats', 'rootSolve', 'limma'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'colorspace', 'data.table', 'dplyr', 'ggplot2', 'ggrepel', 'glue'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'mombf', 'speedglm', 'horseshoe'

Package suggested but not available for checking: 'glmnet'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ini', 'futile.logger', 'data.table', 'hash', 'ggplot2', 'knitr',
  'rmarkdown', 'gridExtra', 'RSQLite', 'kableExtra', 'R.utils'

Package suggested but not available for checking: 'xlsx'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ergm', 'ggplot2', 'magrittr', 'shiny', 'shinydashboard', 'dplyr',
  'gtools', 'network', 'scales', 'sna', 'tidyr'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
calculate.threshold: no visible global function definition for 'pchisq'
gwerAM: no visible global function definition for 'rnorm'
gwerAM: no visible binding for global variable 'quantile'
Undefined global functions or variables:
  pchisq quantile rnorm
Consider adding
  importFrom("stats", "pchisq", "quantile", "rnorm")
to your NAMESPACE file.
Packages required but not available:
  'sp', 'maptools', 'spData', 'spdep', 'spgwr', 'assertthat', 'glogis'

Package suggested but not available for checking: 'rgdal'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'EnvStats', 'mvtnorm', 'nleqslv', 'fGarch', 'abind', 'foreach',
  'doParallel', 'Renext', 'lmomco'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'sp'

Packages suggested but not available for checking: 'rgdal', 'rgeos'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
normalweight: no visible binding for global variable 'NW_above'
normalweight: no visible binding for global variable 'NW_below'
obese: no visible global function definition for 'data'
obese: no visible binding for global variable 'OB_above'
obese: no visible binding for global variable 'OB_below'
overweight: no visible global function definition for 'data'
overweight: no visible binding for global variable 'OW_above'
overweight: no visible binding for global variable 'OW_below'
Undefined global functions or variables:
  NW_above NW_below OB_above OB_below OW_above OW_below data
Consider adding
  importFrom("utils", "data")
to your NAMESPACE file.
Package required but not available: 'digest'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'memoise', 'RGtk2', 'gWidgets2'

Packages suggested but not available for checking:
  'testthat', 'cairoDevice'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'digest', 'memoise', 'gWidgets2'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'doParallel', 'geosphere', 'sp', 'spgwr', 'glmnet', 'foreach'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'maptools', 'robustbase', 'sp', 'Rcpp', 'spatialreg', 'spacetime',
  'spdep', 'FNN', 'RcppArmadillo'

Packages suggested but not available for checking:
  'mvoutlier', 'RColorBrewer', 'gstat', 'spData'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'sp', 'sf', 'pracma', 'geodist', 'nsprcomp', 'spData'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'config', 'golem', 'shiny', 'processx', 'attempt', 'DT', 'glue',
  'htmltools', 'shinydashboard', 'sf', 'dplyr', 'geodist', 'plotly',
  'crosstalk', 'viridis', 'leaflet', 'shinyjs', 'Rcpp', 'corpcor',
  'pkgload'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'sp', 'sf', 'geodist', 'pracma', 'corpcor', 'foreach',
  'doParallel'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'broom', 'rlist', 'reshape2', 'plotROC', 'knitr',
  'kableExtra', 'future', 'future.apply', 'pscl', 'ggrepel', 'cowplot'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'foreach', 'doParallel'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'fields', 'lars'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'deldir', 'digest', 'geometry', 'Kendall', 'lubridate', 'officer',
  'raster', 'readxl', 'rhandsontable', 'sf', 'shiny',
  'shinycssloaders', 'shinydashboard', 'shinyjs', 'sm', 'sp',
  'splancs', 'zoo'

Packages suggested but not available for checking: 'DBI', 'RSQLite'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'OpenMx', 'data.table', 'qqman', 'Rcpp', 'lifecycle', 'BH'

Packages suggested but not available for checking:
  'testthat', 'covr', 'knitr', 'rmarkdown', 'digest', 'curl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'prodlim', 'RcppArmadillo'

Packages suggested but not available for checking:
  'BinaryDosage', 'testthat', 'covr', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'minqa'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'httr', 'jsonlite'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'magrittr', 'reticulate'

Packages suggested but not available for checking: 'testthat', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'RCurl', 'jsonlite'

Packages suggested but not available for checking:
  'ggplot2', 'mlbench', 'slam', 'bit64', 'data.table', 'rgl',
  'plot3Drgl', 'DT', 'IRdisplay', 'htmltools', 'plotly', 'repr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'knitr', 'rmarkdown'
Package required but not available: 'wavethresh'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'dplyr', 'purrr', 'lubridate'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'webshot', 'gapminder',
  'DiagrammeR', 'rstudioapi'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'httr', 'jsonlite', 'tibble', 'future.apply'

Packages suggested but not available for checking:
  'covr', 'testthat', 'httptest', 'knitr', 'rmarkdown', 'spelling'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'purrr', 'rlang', 'tidyselect', 'tibble', 'zeallot',
  'magrittr'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'tidyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'copula', 'numDeriv'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ape', 'pegas', 'Rcpp', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'numbers', 'openxlsx'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'data.table', 'dplyr', 'DT', 'ggplot2', 'gsubfn', 'latex2exp',
  'reshape2', 'readr', 'readxl', 'shiny', 'stringr', 'tidyr'

Packages suggested but not available for checking:
  'spelling', 'covr', 'digest', 'knitr', 'pander', 'renv', 'rmarkdown',
  'shinycssloaders', 'shinyhelper', 'shinyjs', 'testthat', 'vdiffr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'getopt'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'abind', 'dplyr', 'Rcpp', 'R6', 'stringr'

Packages suggested but not available for checking:
  'minpack.lm', 'rhdf5', 'knitr', 'testthat', 'tictoc', 'tikzDevice',
  'hash', 'numDeriv', 'staplr', 'markdown', 'rmarkdown', 'errors'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'data.table', 'ggplot2', 'pander'

Packages suggested but not available for checking:
  'ape', 'dplyr', 'knitr', 'rmarkdown', 'testthat', 'vegan', 'vdiffr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'Rcpp', 'assertthat', 'origami', 'glmnet', 'data.table', 'RcppEigen'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'microbenchmark', 'future',
  'ggplot2', 'dplyr', 'tidyr', 'stringr', 'SuperLearner'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'data.table', 'matrixStats', 'future.apply', 'assertthat',
  'hal9001', 'origami', 'Rdpack'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'future', 'dplyr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'scales'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'lme4', 'amap', 'nbpMatching', 'lmerTest', 'xtable', 'Cairo'
Errors in running code in vignettes:
when running code in 'introduction.Rnw'
  ...
Loading required package: xtable
Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE,  :
  there is no package called 'xtable'

> print(xtable(d, caption = "Euclidean distance matrix D for 18 animals", 
+     label = "tab:eucld"), scalebox = 0.7)

  When sourcing 'introduction.R':
Error: could not find function "xtable"
Execution halted

  'introduction.Rnw'... failed
Error(s) in re-building vignettes:
  ...
--- re-building 'introduction.Rnw' using Sweave
Loading required package: hamlet
Loading required package: xtable
Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE,  :
  there is no package called 'xtable'

Error: processing vignette 'introduction.Rnw' failed with diagnostics:
 chunk 5 
Error in xtable(d, caption = "Euclidean distance matrix D for 18 animals",  : 
  could not find function "xtable"

--- failed re-building 'introduction.Rnw'

SUMMARY: processing the following file failed:
  'introduction.Rnw'

Error: Vignette re-building failed.
Execution halted
Packages required but not available:
  'jsonlite', 'crul', 'xml2', 'urltools', 'mime', 'yaml'

Packages suggested but not available for checking:
  'testthat', 'jsonld', 'data.table', 'bibtex'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'caTools', 'devtools', 'knitr', 'mda', 'pkgload', 'rmarkdown',
  'ROCR', 'rprojroot', 'RUnit', 'testthat'
Packages unavailable to check Rd xrefs: 'ROCR', 'caTools'
Running 'runit.R'
Running the tests in 'tests/runit.R' failed.
Last 13 lines of output:
  +     } else {
  +         unit_dir <- system.file("runit_tests", package = "HandTill2001")
  +     }
  + }
  > if (! dir.exists(unit_dir)) {
  +     stop("Can not find RUnit test directory ", unit_dir,
  +          ". Try to (re)install the package first.")
  + }
  > package_suite <- RUnit::defineTestSuite("HandTill2001_unit_test",
  +                                         dirs = unit_dir,
  +                                         testFileRegexp = "^.*\\.[rR]",
  +                                         testFuncRegexp = "^test_+")
  Error in loadNamespace(x) : there is no package called 'RUnit'
  Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
  Execution halted
Errors in running code in vignettes:
when running code in 'consensus_auc.Rnw'
  ...
> library(nnet)

> fgl_multinom <- multinom(type ~ ., data = fgl[ind_train, 
+     TRUE], trace = FALSE)

> library(mda)

  When sourcing consensus_auc.R:
Error: there is no package called mda
Execution halted

  'consensus_auc.Rnw' using 'UTF-8'... failed
Error(s) in re-building vignettes:
  ...
--- re-building 'consensus_auc.Rnw' using Sweave

Error: processing vignette 'consensus_auc.Rnw' failed with diagnostics:
 chunk 5 
Error in library(mda) : there is no package called mda

--- failed re-building consensus_auc.Rnw

SUMMARY: processing the following file failed:
  consensus_auc.Rnw

Error: Vignette re-building failed.
Execution halted
Packages required but not available:
  'jsonlite', 'dplyr', 'tibble', 'lubridate', 'tidyr', 'snakecase'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
EMvar: no visible global function definition for 'model.matrix'
RecodeHaplos: no visible global function definition for 'na.omit'
RecodeHaplos: no visible global function definition for 'tail'
anova.hapassoc: no visible global function definition for 'pchisq'
handleMissings: no visible global function definition for 'na.omit'
hapassoc: no visible global function definition for 'binomial'
hapassoc: no visible global function definition for 'formula'
hapassoc: no visible global function definition for 'glm'
hapassoc : <anonymous>: no visible global function definition for 'glm'
hapassoc: no visible global function definition for 'model.frame'
hapassoc: no visible global function definition for 'model.matrix'
hapassoc: no visible binding for global variable 'contrasts'
hapassoc: no visible global function definition for 'glm.control'
hapassoc : <anonymous>: no visible global function definition for
  'glm.control'
probY: no visible global function definition for 'dbinom'
probY: no visible global function definition for 'dpois'
probY: no visible global function definition for 'dnorm'
probY: no visible global function definition for 'dgamma'
summary.hapassoc: no visible global function definition for 'pchisq'
Undefined global functions or variables:
  binomial contrasts dbinom dgamma dnorm dpois formula glm glm.control
  model.frame model.matrix na.omit pchisq tail
Consider adding
  importFrom("stats", "binomial", "contrasts", "dbinom", "dgamma",
             "dnorm", "dpois", "formula", "glm", "glm.control",
             "model.frame", "model.matrix", "na.omit", "pchisq")
  importFrom("utils", "tail")
to your NAMESPACE file.
allele.marq: no visible global function definition for 'na.omit'
depart.LDL: no visible global function definition for 'aov'
freq.all: no visible global function definition for 'na.omit'
hapim.LD.add: no visible global function definition for 'optim'
hapim.LDL.add: no visible global function definition for 'optim'
obj.haplomax.HS.add: no visible global function definition for 'aov'
obj.haplomax.add: no visible global function definition for 'aov'
vrais.LD.add: no visible global function definition for 'dnorm'
vrais.LDL.add.pere: no visible global function definition for 'dnorm'
Undefined global functions or variables:
  aov dnorm na.omit optim
Consider adding
  importFrom("stats", "aov", "dnorm", "na.omit", "optim")
to your NAMESPACE file.
Packages required but not available: 'HMM', 'ggplot2'

Packages suggested but not available for checking: 'knitr', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ff', 'rlang'

Packages suggested but not available for checking:
  'knitr', 'Rmpi', 'ggplot2', 'testthat', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'httr', 'XML', 'tibble', 'RUnit', 'plyr', 'DT', 'RCurl', 'RJSONIO'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'openxlsx'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'pedigree'
AssignQTL : <anonymous>: no visible global function definition for
  'rgamma'
AssignSingleQTL: no visible global function definition for 'rgamma'
ListQTL : <anonymous>: no visible global function definition for
  'rgamma'
SampleBaseHaplotype: no visible global function definition for 'runif'
SampleHaplotype: no visible global function definition for 'rpois'
SampleHaplotype: no visible global function definition for 'runif'
SampleHaplotype: no visible global function definition for 'rbinom'
Undefined global functions or variables:
  rbinom rgamma rpois runif
Consider adding
  importFrom("stats", "rbinom", "rgamma", "rpois", "runif")
to your NAMESPACE file.
Package unavailable to check Rd xrefs: 'pedigree'
Packages required but not available: 'arsenal', 'rms'

Packages suggested but not available for checking: 'R.rsp', 'testthat'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages required but not available:
  'network', 'sna', 'ape', 'phangorn', 'plotrix'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'data.table', 'dplyr', 'gh', 'lubridate', 'tidyr'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available: 'glue', 'rlang', 'tibble', 'vctrs'

Packages suggested but not available for checking:
  'covr', 'crayon', 'devtools', 'knitr', 'modeldata', 'recipes',
  'rmarkdown', 'roxygen2', 'testthat', 'usethis'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'mice', 'Rsolnp', 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'xts', 'zoo', 'sandwich', 'RcppArmadillo'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'FMStable'

Packages suggested but not available for checking:
  'knitr', 'ape', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/vignette.Rnw'
(Is a VignetteBuilder field missing?)
Files named as vignettes but with no recognized vignette engine:
   'vignettes/vignette.Rnw'
(Is a VignetteBuilder field missing?)
Packages required but not available:
  'ape', 'ggtree', 'magrittr', 'lazyeval', 'dplyr', 'tidyr', 'rlang'

Package suggested but not available for checking: 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'gridExtra'

Packages suggested but not available for checking: 'hexbin', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'assertthat', 'magrittr', 'jsonlite', 'htmlwidgets', 'htmltools'

Packages suggested but not available for checking:
  'testthat', 'covr', 'httr', 'shiny', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package suggested but not available for checking: 'testthat'
File
  LICENSE
is not mentioned in the DESCRIPTION file.
Running 'accessors.R'
Running the tests in 'tests/accessors.R' failed.
Complete output:
  > library(hash)
  hash-2.2.6.1 provided by Decision Patterns
  
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package suggested but not available for checking: 'tinytest'
Packages required but not available: 'Rgraphviz', 'graph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'forcats', 'hms', 'readr', 'rlang', 'tibble', 'tidyselect', 'vctrs',
  'cpp11'

Packages suggested but not available for checking:
  'cli', 'covr', 'crayon', 'fs', 'knitr', 'pillar', 'rmarkdown',
  'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'nloptr', 'RcppArmadillo', 'BH'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'jpeg', 'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
Running examples in 'hazer-Ex.R' failed
The error most likely occurred in:

> ### Name: getBrightness
> ### Title: The brighness map of an image (0 to 1).
> ### Aliases: getBrightness
> 
> ### ** Examples
> 
> library(jpeg)
Error in library(jpeg) : there is no package called 'jpeg'
Execution halted
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package required but not available: 'reshape2'

Packages suggested but not available for checking: 'ggplot2', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'rstan', 'loo', 'ggplot2', 'data.table', 'BH', 'RcppEigen',
  'StanHeaders'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'R2jags'

Packages suggested but not available for checking:
  'ggplot2', 'gridExtra', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Formula', 'bayesm', 'sns', 'MfUSampler'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'foreach', 'doParallel'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'arm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'fBasics', 'maps'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Note: found 104392 marked UTF-8 strings
PoincarePlot: no visible global function definition for 'lines'
PoincarePlot: no visible global function definition for 'lowess'
hctest: no visible global function definition for 'cor.test'
rdplot: no visible global function definition for 'lines'
rdplot: no visible global function definition for 'lowess'
rdplot: no visible global function definition for 'rgb'
simer: no visible global function definition for 'runif'
simer: no visible global function definition for 'rnorm'
Undefined global functions or variables:
  cor.test lines lowess rgb rnorm runif
Consider adding
  importFrom("grDevices", "rgb")
  importFrom("graphics", "lines")
  importFrom("stats", "cor.test", "lowess", "rnorm", "runif")
to your NAMESPACE file.
Packages required but not available:
  'randnet', 'RSpectra', 'irlba', 'data.tree', 'data.table', 'stringr',
  'dendextend'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'htmlwidgets'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'magrittr', 'dplyr', 'shiny', 'colourpicker'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'data.table'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'clinfun', 'GenBinomApps'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'glmnet', 'harmonicmeanp', 'ncvreg', 'Rdpack'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'e1071'

Packages suggested but not available for checking: 'mvtnorm', 'klaR'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'foreach', 'iterators', 'doParallel', 'RcppArmadillo'

Package suggested but not available for checking: 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'numDeriv', 'bigstatsr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'glmnet', 'slam', 'foreach', 'iterators', 'doParallel', 'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'rARPACK'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppProgress', 'Rtsne'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'multtest'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/QUICKhddplot.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'data.table', 'fst', 'readr'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'rgdal', 'zoo', 'sp', 'curl', 'XML', 'raster', 'readxl', 'tidyr'

Packages suggested but not available for checking:
  'testthat', 'leaflet', 'rmarkdown', 'knitr', 'dplyr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'R6', 'bit64'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'nycflights13', 'reshape2',
  'formatR'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'bit64', 'knitr', 'ggplot2', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: 'coda'
Packages required but not available: 'scalreg', 'glmnet', 'linprog'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'NPCirc', 'circular', 'rgl', 'Directional', 'movMF'

Packages suggested but not available for checking:
  'ggplot2', 'maps', 'mapproj'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'lpSolve', 'abind'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'glmnet', 'foreach', 'iterators'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'psych'

Package suggested but not available for checking: 'scatterplot3d'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'glmnet', 'ggplot2', 'Rdpack', 'Rcpp', 'Rglpk', 'RcppArmadillo'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'dplyr', 'tidyr', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'glmnet', 'ggplot2', 'checkmate', 'Formula'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'xtable', 'mvtnorm'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/hdm.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'fdrtool'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'glmnet', 'penalized', 'ncvreg', 'foreach', 'survAUC', 'ggplot2',
  'gridExtra'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'doParallel'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'FNN', 'FactoMineR', 'mclust'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'lpSolve'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rtkore', 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'coda', 'dplyr', 'Hmisc', 'isotone', 'questionr', 'LaplacesDemon',
  'magrittr', 'MCMCpack', 'mvtnorm', 'Rcpp', 'purrr', 'rprojroot',
  'tidyverse', 'tibble', 'data.table', 'ggjoy', 'ggplot2', 'stringr',
  'tidyr', 'ggridges', 'ggpubr', 'formula.tools', 'RcppArmadillo'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'locfit', 'ash', 'ks', 'ggplot2', 'RColorBrewer'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'tensor'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'checkmate', 'mvtnorm', 'foreach', 'doParallel', 'expm', 'fastclime',
  'clime'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
coef.HDtweedie: no visible global function definition for 'rbind2'
coef.cv.HDtweedie: no visible global function definition for 'coef'
cv.tweediegrppath: no visible global function definition for 'predict'
cv.tweediegrppath: no visible binding for global variable
  'weighted.mean'
cvcompute: no visible binding for global variable 'weighted.mean'
error.bars: no visible global function definition for 'segments'
lambda.interp: no visible global function definition for 'approx'
plot.HDtweedie: no visible global function definition for 'par'
plot.HDtweedie: no visible binding for global variable 'plot.default'
plot.HDtweedie: no visible global function definition for 'gray.colors'
plot.HDtweedie: no visible global function definition for 'abline'
plot.cv.HDtweedie: no visible global function definition for 'points'
plot.cv.HDtweedie: no visible global function definition for 'axis'
plot.cv.HDtweedie: no visible global function definition for 'abline'
predict.HDtweedie: no visible global function definition for 'rbind2'
predict.HDtweedie: no visible global function definition for 'cbind2'
predict.cv.HDtweedie: no visible global function definition for
  'predict'
Undefined global functions or variables:
  abline approx axis cbind2 coef gray.colors par plot.default points
  predict rbind2 segments weighted.mean
Consider adding
  importFrom("grDevices", "gray.colors")
  importFrom("graphics", "abline", "axis", "par", "plot.default",
             "points", "segments")
  importFrom("methods", "cbind2", "rbind2")
  importFrom("stats", "approx", "coef", "predict", "weighted.mean")
to your NAMESPACE file (and ensure that your DESCRIPTION Imports field
contains 'methods').
Packages required but not available:
  'caret', 'cowplot', 'data.table', 'dplyr', 'e1071', 'generics',
  'ggplot2', 'glmnet', 'lubridate', 'MLmetrics', 'purrr', 'ranger',
  'recipes', 'rlang', 'ROCR', 'stringr', 'tibble', 'tidyr', 'xgboost'

Packages suggested but not available for checking:
  'covr', 'DBI', 'dbplyr', 'lintr', 'odbc', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'lubridate', 'readr', 'scales', 'shiny', 'tibble'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'rvest', 'magrittr', 'xml2', 'purrr', 'tokenizers', 'stringr'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'magrittr', 'rlang', 'tibble', 'timetk', 'ggplot2', 'dplyr',
  'lubridate', 'purrr', 'stringr', 'writexl', 'cowplot', 'scales',
  'sqldf'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'roxygen2', 'pacman', 'healthyR.data'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'magrittr', 'rlang', 'tibble', 'timetk', 'modeltime',
  'modeltime.ensemble', 'modeltime.resample', 'dplyr', 'purrr',
  'ggplot2', 'tidyquant', 'healthyR.data', 'lubridate', 'stringr',
  'plotly'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'roxygen2', 'scales'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'healthyR', 'healthyR.data', 'healthyR.ts', 'dplyr', 'purrr',
  'tibble', 'magrittr', 'rlang', 'crayon', 'rstudioapi', 'cli'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'roxygen2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Title field: should not end in a period.
Package required but not available: 'fastcluster'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/vignette.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'plotly', 'viridis', 'ggplot2', 'dendextend', 'magrittr', 'reshape2',
  'scales', 'seriation', 'colorspace', 'RColorBrewer', 'htmlwidgets',
  'webshot', 'assertthat', 'egg'

Packages suggested but not available for checking:
  'knitr', 'covr', 'gplots', 'tidyselect', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'data.table', 'dplyr', 'ggplot2', 'lubridate', 'plyr', 'RcppRoll',
  'tibble', 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'covr', 'ggpubr', 'knitr', 'rerddap', 'rmarkdown', 'testthat',
  'tidync', 'tidyr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'mvtnorm', 'sampleSelection', 'MomTrunc', 'PerformanceAnalytics'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rlang', 'utf8', 'yaml'

Packages suggested but not available for checking:
  'covr', 'here', 'rmarkdown', 'roxygen2', 'testthat', 'dplyr',
  'tidyr', 'nycflights13', 'ggplot2', 'knitr', 'purrr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'testthat', 'rlang'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'lazyeval', 'memoise', 'mvnfast', 'plyr', 'pryr',
  'tibble', 'rlang', 'purrr'

Packages suggested but not available for checking:
  'BCEA', 'diagram', 'flexsurv', 'knitr', 'logitnorm', 'lpSolve',
  'optimx', 'readxl', 'rgho', 'rmarkdown', 'stringr', 'testthat',
  'triangle', 'magrittr', 'cli'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'data.table', 'hutils', 'magrittr', 'fastmatch', 'bit64', 'lubridate'

Packages suggested but not available for checking: 'testthat', 'fst'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'sqldf', 'stringr', 'rlang'

Packages suggested but not available for checking:
  'devtools', 'testthat', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'ggforce', 'rlang'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'covr', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'energy', 'FNN', 'orthopolynom'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package required but not available: 'rJava'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'xml2', 'rvest', 'httr', 'magrittr', 'plyr', 'knitr', 'taxize'

Packages suggested but not available for checking: 'testthat', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'lme4', 'coda'

Packages suggested but not available for checking:
  'RNetCDF', 'ncdf4', 'maps', 'XML', 'fields', 'shiny', 'ppcor',
  'pbmcapply', 'pbapply', 'visNetwork', 'igraph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'maptools', 'RCurl', 'rjson', 'sp'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'graph', 'RBGL', 'precrec', 'preprocessCore', 'plyr', 'foreach',
  'doParallel'

Packages suggested but not available for checking: 'Rgraphviz', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'car'

Packages suggested but not available for checking:
  'rgl', 'candisc', 'effects', 'reshape', 'gplots', 'reshape2',
  'corrgram', 'animation', 'mvinfluence'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'rprojroot'

Packages suggested but not available for checking:
  'conflicted', 'covr', 'fs', 'knitr', 'palmerpenguins', 'plyr',
  'readr', 'rlang', 'rmarkdown', 'testthat', 'uuid', 'withr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'crul', 'curl', 'data.table', 'flexpolyline', 'jsonlite', 'sf',
  'stringr'

Packages suggested but not available for checking:
  'covr', 'ggplot2', 'htmlwidgets', 'knitr', 'leafpop', 'lwgeom',
  'mapview', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ergm', 'latentnet', 'mcgibbsit', 'network', 'sna', 'mlergm', 'Rcpp',
  'igraph', 'intergraph', 'stringr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'synbreed'
Skipping vignette re-building
Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages required but not available:
  'cplm', 'DESeq2', 'lme4', 'pbapply', 'tweedie',
  'SummarizedExperiment'

Package suggested but not available for checking: 'glmmADMB'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'maxLik'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'BH'

Packages suggested but not available for checking:
  'testthat', 'magrittr', 'knitr', 'rmarkdown', 'dplyr', 'data.table',
  'ggplot2', 'DT', 'mvtnorm', 'patchwork'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'optimx', 'pbapply', 'rgeos', 'sp', 'fields'

Packages suggested but not available for checking:
  'autoimage', 'devtools', 'fda', 'igraph', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'data.table', 'flexsurv', 'ggplot2', 'msm', 'Rcpp', 'R6',
  'RcppArmadillo'

Packages suggested but not available for checking:
  'covr', 'kableExtra', 'knitr', 'magrittr', 'mstate', 'numDeriv',
  'pracma', 'rmarkdown', 'scales', 'testthat', 'truncnorm'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Package required but not available: 'igraph'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder packages required for checking but not installed:
  'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'DiceDesign'

Packages suggested but not available for checking:
  'knitr', 'monomvn', 'lhs', 'colorspace'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/hetGP_vignette.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'R2jags'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'quantreg', 'plyr', 'mvtnorm', 'foreach', 'doParallel', 'moments',
  'formula.tools', 'purrr', 'dplyr', 'tidyverse'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'Cairo', 'checkmate', 'lubridate', 'dplyr', 'knitr', 'testthat',
  'rmarkdown', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package required but not available: 'Hmisc'

Packages suggested but not available for checking:
  'devtools', 'ggplot2', 'glmnet', 'knitr', 'plyr', 'reshape',
  'reshape2', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'bupaR', 'processmapR', 'rlang', 'magrittr', 'dplyr', 'tidyr',
  'DiagrammeR', 'petrinetR', 'purrr', 'scales', 'Rcpp', 'ggplot2',
  'ggthemes', 'data.table', 'stringr', 'BH'

Packages suggested but not available for checking:
  'eventdataR', 'svgPanZoom', 'DiagrammeRsvg'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'marray', 'affy', 'Biobase', 'limma', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'
Package unavailable to check Rd xrefs: 'limma'
Errors in running code in vignettes:
when running code in 'hexagon_binning.Rnw'
  ...
Error in loadVignetteBuilder(pkgdir) : vignette builder 'knitr' not found
Calls: <Anonymous> -> loadVignetteBuilder
Execution halted

... incomplete output.  Crash?

  'hexagon_binning.Rnw'... failed to complete the test
Packages required but not available:
  'ggimage', 'ggplot2', 'hexbin', 'showtext', 'sysfonts'

Package suggested but not available for checking: 'magick'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'seqinr', 'doParallel', 'foreach'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'hexbin', 'FNN'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'glasso', 'mvtnorm', 'igraph', 'fields'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'sp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'hglm.data'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'genscore'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'deSolve'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'crayon', 'dplyr', 'limSolve', 'magrittr', 'stringr'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'surveillance'

Packages suggested but not available for checking:
  'gridExtra', 'scales', 'numDeriv'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'latticeExtra', 'multcomp', 'gridExtra', 'reshape2', 'leaps', 'vcd',
  'colorspace', 'RColorBrewer', 'shiny', 'Hmisc', 'abind', 'Rmpfr'

Packages suggested but not available for checking:
  'mvtnorm', 'car', 'Rcmdr', 'RcmdrPlugin.HH', 'TeachingDemos',
  'microplot'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'EMD', 'fields', 'spatstat.geom', 'spatstat.core', 'spatstat.linnet',
  'spatstat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'GenomicRanges', 'glmnet', 'rtracklayer', 'IRanges', 'GenomeInfoDb'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'ncdf4'

Packages suggested but not available for checking:
  'covr', 'devtools', 'knitr', 'rmarkdown', 'roxygen2', 'spelling',
  'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'truncnorm', 'mvtnorm', 'coda', 'xtable', 'mc2d', 'ggplot2', 'rgeos',
  'MCMCpack'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggdendro', 'ggplot2', 'Rcpp', 'scales', 'RColorBrewer', 'gtable'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'
banded: no visible global function definition for 'toeplitz'
gpband: no visible global function definition for 'toeplitz'
hierband.cv: no visible global function definition for 'cov'
hierband.cv: no visible binding for global variable 'sd'
subdiag.thresh: no visible global function definition for 'uniroot'
subdiag.thresh: no visible global function definition for 'toeplitz'
Undefined global functions or variables:
  cov sd toeplitz uniroot
Consider adding
  importFrom("stats", "cov", "sd", "toeplitz", "uniroot")
to your NAMESPACE file.
'LazyData' is specified without a 'data' directory
Packages required but not available: 'magrittr', 'irlba'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
booties: no visible binding for global variable 'sd'
booties: no visible binding for global variable 'quantile'
hierDiversity: no visible global function definition for
  'txtProgressBar'
hierDiversity: no visible global function definition for
  'setTxtProgressBar'
Undefined global functions or variables:
  quantile sd setTxtProgressBar txtProgressBar
Consider adding
  importFrom("stats", "quantile", "sd")
  importFrom("utils", "setTxtProgressBar", "txtProgressBar")
to your NAMESPACE file.
Unknown package 'vegetarian' in Rd xrefs
Packages required but not available:
  'GGally', 'adegenet', 'diveRsity', 'entropart', 'mmod', 'ggplot2',
  'hierfstat', 'reshape2', 'tibble', 'ade4', 'vegan', 'ape', 'pegas',
  'permute'

Packages suggested but not available for checking:
  'knitr', 'testthat', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ade4', 'adegenet', 'gaston', 'gtools'

Packages suggested but not available for checking:
  'ape', 'pegas', 'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'rneos', 'RCurl', 'bitops', 'XML', 'tcltk2'

Package suggested but not available for checking: 'XMLRPC'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'gtools', 'betareg'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
compute.contrasts: no visible binding for global variable 'sd'
compute.contrasts: no visible global function definition for 'cor'
compute.contrasts: no visible global function definition for 'sd'
plot.hiertest: no visible global function definition for 'legend'
Undefined global functions or variables:
  cor legend sd
Consider adding
  importFrom("graphics", "legend")
  importFrom("stats", "cor", "sd")
to your NAMESPACE file.
'LazyData' is specified without a 'data' directory
'library' or 'require' calls to packages already attached by Depends:
  'nnet' 'stats'
  Please remove these calls from your code.
Package in Depends field not imported from: 'nnet'
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
Packages required but not available:
  'htmlwidgets', 'magrittr', 'purrr', 'rlist', 'assertthat', 'zoo',
  'dplyr', 'tibble', 'stringr', 'broom', 'xts', 'quantmod', 'tidyr',
  'htmltools', 'jsonlite', 'igraph', 'lubridate', 'yaml', 'rlang',
  'rjson'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'ggplot2', 'httr', 'viridisLite', 'shiny',
  'gapminder', 'forecast', 'geojsonio', 'testthat', 'covr', 'spelling'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'fastclime'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'RMallow'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'xts', 'zoo', 'Rcpp', 'RcppArmadillo', 'robustbase', 'cubature',
  'mvtnorm', 'data.table', 'RcppRoll', 'quantmod', 'sandwich',
  'numDeriv', 'Rsolnp'

Packages suggested but not available for checking:
  'covr', 'FKF', 'BMS', 'rugarch', 'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'shiny', 'testthat', 'dplyr', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Running examples in 'highlightHTML-Ex.R' failed
The error most likely occurred in:

> ### Name: table_id_inject
> ### Title: Table hash addition for markup
> ### Aliases: table_id_inject
> 
> ### ** Examples
> 
> library(dplyr)
Error in library(dplyr) : there is no package called 'dplyr'
Execution halted
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'mvtnorm', 'mnormt'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'xfun'

Packages suggested but not available for checking:
  'knitr', 'markdown', 'testit'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'gplots'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/highSCREENmanual.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'colorfulVennPlot'
BenjaminiHochberg: no visible global function definition for 'p.adjust'
CaoKosorok : CKfunc: no visible global function definition for 'pnorm'
CaoKosorok : <anonymous>: no visible global function definition for
  'pnorm'
StoreyTibshirani: no visible global function definition for
  'smooth.spline'
plotI_Lines: no visible global function definition for 'par'
plotI_Lines: no visible global function definition for 'lines'
plotI_Lines: no visible global function definition for 'legend'
plotI_Points: no visible global function definition for 'points'
plotI_Points: no visible global function definition for 'legend'
tStatistic : <anonymous>: no visible global function definition for
  't.test'
venn2: no visible global function definition for 'plot.new'
venn3: no visible global function definition for 'plot.new'
Undefined global functions or variables:
  legend lines p.adjust par plot.new pnorm points smooth.spline t.test
Consider adding
  importFrom("graphics", "legend", "lines", "par", "plot.new", "points")
  importFrom("stats", "p.adjust", "pnorm", "smooth.spline", "t.test")
to your NAMESPACE file.
Packages required but not available:
  'gcdnet', 'gglasso', 'purrr', 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available: 'Rcpp', 'entropy'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'ggplot2', 'dplyr', 'tidyr', 'reshape2',
  'bodenmiller', 'abind'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'haven', 'dplyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'scales', 'ggpubr', 'RColorBrewer', 'data.table', 'ape',
  'vegan', 'geiger', 'qgraph', 'FSA'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'plyr'
Malformed Description field: should contain one or more complete sentences.
occupancy: no visible global function definition for 'quantile'
Undefined global functions or variables:
  quantile
Consider adding
  importFrom("stats", "quantile")
to your NAMESPACE file.
Running examples in 'hillmakeR-Ex.R' failed
The error most likely occurred in:

> ### Name: occupancy
> ### Title: occupancy
> ### Aliases: occupancy
> 
> ### ** Examples
> 
> library(plyr) # need ddply
Error in library(plyr) : there is no package called 'plyr'
Execution halted
Packages required but not available:
  'FD', 'plyr', 'ade4', 'ape', 'tibble', 'geiger'

Packages suggested but not available for checking:
  'testthat', 'covr', 'betapart'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
data_simu: no visible global function definition for 'runif'
data_simu: no visible global function definition for 'rbinom'
data_simu: no visible global function definition for 'rnorm'
Undefined global functions or variables:
  rbinom rnorm runif
Consider adding
  importFrom("stats", "rbinom", "rnorm", "runif")
to your NAMESPACE file.
Packages required but not available:
  'cppRouting', 'data.table', 'dplyr', 'ggplot2', 's2', 'sf', 'sp',
  'tidyr'

Packages suggested but not available for checking:
  'airportr', 'cowplot', 'geosphere', 'knitr', 'purrr', 'progress',
  'rmarkdown', 'rnaturalearthdata', 'scales', 'stringr', 'testthat',
  'units', 'viridis', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ncvreg', 'iterators', 'foreach', 'doParallel'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'foreach', 'ggplot2', 'purrr'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
overlay.sim: no visible global function definition for 'points'
plotDistr: no visible global function definition for 'dev.hold'
plotDistr: no visible global function definition for 'dev.flush'
plotDistr: no visible global function definition for 'segments'
Undefined global functions or variables:
  dev.flush dev.hold points segments
Consider adding
  importFrom("grDevices", "dev.flush", "dev.hold")
  importFrom("graphics", "points", "segments")
to your NAMESPACE file.
Skipping vignette re-building
Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Package required but not available: 'rgl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'R6', 'rlang', 'tibble', 'BH'

Packages suggested but not available for checking:
  'dplyr', 'readr', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
arms: no visible global function definition for 'rnorm'
rballunif: no visible global function definition for 'rnorm'
rballunif: no visible global function definition for 'runif'
Undefined global functions or variables:
  rnorm runif
Consider adding
  importFrom("stats", "rnorm", "runif")
to your NAMESPACE file.
Packages required but not available:
  'plyr', 'openxlsx', 'InterpretMSSpectrum', 'Rdisop', 'beeswarm',
  'Biobase'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'pryr', 'rms', 'ltm'

Packages suggested but not available for checking:
  'ggplot2', 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ape', 'deSolve', 'GenSA', 'subplex', 'nloptr', 'phytools',
  'data.table', 'diversitree', 'plotrix'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'gtools', 'maps', 'ggplot2', 'scales', 'proto', 'reshape', 'plyr',
  'jpeg', 'car', 'gplots', 'sp', 'heplots', 'knitr', 'rmarkdown',
  'effects', 'lubridate', 'gridExtra', 'vcd'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages unavailable to check Rd xrefs: 'Guerry', 'alr4', 'agridat', 'coin'
Running examples in 'HistData-Ex.R' failed
The error most likely occurred in:

> ### Name: CushnyPeebles
> ### Title: Cushny-Peebles Data: Soporific Effects of Scopolamine
> ###   Derivatives
> ### Aliases: CushnyPeebles CushnyPeeblesN
> ### Keywords: datasets
> 
> ### ** Examples
> 
> data(CushnyPeebles)
> # quick looks at the data
> plot(CushnyPeebles)
> boxplot(CushnyPeebles, ylab="Hours of Sleep", xlab="Treatment")
> 
> ##########################
> # Repeated measures MANOVA
> 
> CPmod <- lm(cbind(Control, L_hyoscyamine, L_hyoscine, DL_hyoscine) ~ 1, data=CushnyPeebles)
> 
> # Assign within-S factor and contrasts
> Treatment <- factor(colnames(CushnyPeebles), levels=colnames(CushnyPeebles))
> contrasts(Treatment) <- matrix(
+ 	c(-3, 1, 1, 1,
+ 	   0,-2, 1, 1,
+ 	   0, 0,-1, 1), ncol=3)
> colnames(contrasts(Treatment)) <- c("Control.Drug", "L.DL", "L_hy.DL_hy")
> 
> Treats <- data.frame(Treatment)
> if (require(car)) {
+ (CPaov <- Anova(CPmod, idata=Treats, idesign= ~Treatment))
+ }
Loading required package: car
Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE,  :
  there is no package called 'car'
> summary(CPaov, univariate=FALSE)
Error in summary(CPaov, univariate = FALSE) : object 'CPaov' not found
Execution halted
Skipping vignette re-building
Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'FactoMineR', 'ggplot2', 'ggridges', 'histogram', 'Rcpp',
  'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Hmisc', 'ash', 'stringr'

Packages suggested but not available for checking:
  'RUnit', 'emdist', 'gdata'

Package which this enhances but not available for checking: 'RProtoBuf'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'ggplot2'
Packages required but not available:
  'fastdigest', 'evaluate', 'roprov', 'CodeDepends'

Packages suggested but not available for checking:
  'rmarkdown', 'trackr', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/vignette2.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'rcdd'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'glmnet', 'speedglm'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rJava', 'XML'

Package which this enhances but not available for checking: 'HadoopStreaming'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'plyr', 'jpeg', 'png', 'RColorBrewer', 'rgl'

Packages suggested but not available for checking:
  'FuncMap', 'knitr', 'sna', 'xtable', 'bipartite', 'rmarkdown', 'tint'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
Packages required but not available:
  'ggplot2', 'ggpubr', 'dplyr', 'reshape2'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'dplyr', 'tidyr', 'here', 'showtext'
Note: found 5002 marked UTF-8 strings
Packages required but not available: 'Rcpp', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'XML', 'RCurl', 'httr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'MCMCpack', 'gtools'

Packages suggested but not available for checking: 'ltsa', 'FGN'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'devtools', 'usethis', 'tidyverse', 'dplyr', 'reshape2',
  'schoolmath', 'tibble', 'stringr', 'purrr', 'tidyr', 'readr', 'here',
  'readxlsb'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'httr', 'jsonlite', 'glue', 'purrr', 'stringr', 'curl', 'usethis',
  'urltools'

Packages suggested but not available for checking:
  'testthat', 'covr', 'knitr', 'rmarkdown', 'vcr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'plyr', 'reshape2', 'dplyr', 'magrittr', 'stringr',
  'purrr', 'tibble', 'tidyselect', 'janitor', 'Rcpp', 'rlang',
  'ggrepel', 'RcppArmadillo'

Packages suggested but not available for checking:
  'mlmRev', 'WWGbook', 'lme4', 'testthat', 'knitr', 'rmarkdown', 'car',
  'gridExtra', 'qqplotr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'coda', 'igraph', 'abind'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'bayesplot', 'mvtnorm'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'lme4', 'carData', 'mlbench', 'ggplot2',
  'mlmRev', 'testthat', 'MCMCpack'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'RCurl', 'XML', 'httr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
Packages required but not available:
  'rgl', 'glmnet', 'nat', 'binaryLogic', 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'broom.mixed', 'coda', 'linLIR', 'lme4', 'MCMCglmm', 'mice', 'msm',
  'mvtnorm', 'ordinal', 'pbivnorm', 'rlang', 'tmvtnorm'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Formula', 'ggplot2', 'latticeExtra', 'gtable', 'gridExtra',
  'data.table', 'htmlTable', 'viridis', 'htmltools', 'base64enc'

Packages suggested but not available for checking:
  'acepack', 'chron', 'rms', 'mice', 'tables', 'knitr', 'plotly',
  'rlang', 'plyr', 'VGAM'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RSpectra', 'BH'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'bnlearn', 'mhsmm', 'MCMCpack', 'Rgraphviz', 'graph'

Packages suggested but not available for checking:
  'knitr', 'testthat', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
baumwelchcont: no visible global function definition for 'dnorm'
hmmcontSimul: no visible global function definition for 'rnorm'
hmmcontSimul: no visible global function definition for 'rbinom'
plot.ContObservHMM: no visible global function definition for 'lines'
statesDistributionsPlot: no visible global function definition for
  'dnorm'
statesDistributionsPlot: no visible global function definition for 'sd'
statesDistributionsPlot: no visible global function definition for
  'lines'
statesDistributionsPlot: no visible global function definition for
  'legend'
summary.ContObservHMM: no visible global function definition for 'sd'
Undefined global functions or variables:
  dnorm legend lines rbinom rnorm sd
Consider adding
  importFrom("graphics", "legend", "lines")
  importFrom("stats", "dnorm", "rbinom", "rnorm", "sd")
to your NAMESPACE file.
Packages required but not available:
  'matrixcalc', 'mvtnorm', 'foreach', 'doParallel', 'copula'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package unavailable to check Rd xrefs: 'HMM'
Packages required but not available: 'Rcpp', 'Rdpack', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'mvtnorm', 'ellipse'

Package suggested but not available for checking: 'HiddenMarkov'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'HiddenMarkov', 'mclust', 'mvtnorm', 'MCMCpack', 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'quadprog', 'mvtnorm', 'nleqslv'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
dishonestCasino: no visible global function definition for 'axis'
dishonestCasino: no visible global function definition for 'text'
dishonestCasino: no visible global function definition for 'rect'
dishonestCasino: no visible global function definition for 'rgb'
dishonestCasino: no visible global function definition for 'points'
Undefined global functions or variables:
  axis points rect rgb text
Consider adding
  importFrom("grDevices", "rgb")
  importFrom("graphics", "axis", "points", "rect", "text")
to your NAMESPACE file.
Packages required but not available:
  'dirmult', 'ggplot2', 'foreach', 'doParallel', 'vegan', 'gplots',
  'rpart.plot'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ape', 'HMP', 'dirmult', 'doParallel', 'foreach'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'coda', 'abind', 'ape', 'BayesLogit', 'fields', 'FNN', 'ggplot2',
  'matrixStats', 'MCMCpack', 'rlang', 'pracma', 'pROC', 'sp',
  'statmod', 'truncnorm'

Packages suggested but not available for checking:
  'R.rsp', 'testthat', 'corrplot'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ellipsis', 'lifecycle', 'pkgconfig', 'rlang', 'vctrs'

Packages suggested but not available for checking:
  'crayon', 'lubridate', 'pillar', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'hms', 'lifecycle'

Packages suggested but not available for checking: 'covr', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'NMF', 'oro.nifti', 'nnls', 'rasterImage'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'lme4', 'gamlss', 'gamlss.dist', 'pscl', 'aods3', 'VGAM', 'glmmADMB',
  'latticeExtra'
Running examples in 'hnp-Ex.R' failed
The error most likely occurred in:

> ### Name: cbb
> ### Title: Coffee berry borer trapping data
> ### Aliases: cbb
> ### Keywords: datasets
> 
> ### ** Examples
> 
> data(cbb)
> # exploratory plot
> require(latticeExtra)
Loading required package: latticeExtra
Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE,  :
  there is no package called 'latticeExtra'
> trellis.par.set(strip.background=list(col="lightgrey"))
Error in trellis.par.set(strip.background = list(col = "lightgrey")) : 
  could not find function "trellis.par.set"
Execution halted
Package required but not available: 'statmod'

Package suggested but not available for checking: 'csampling'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'bamsignals', 'Biostrings', 'data.table', 'GenomicRanges',
  'GenomicTools.fileHandler', 'httr', 'IRanges', 'knitr', 'R.utils',
  'RCurl', 'rmarkdown', 'Rsamtools', 'S4Vectors', 'seqinr', 'stringr',
  'XML'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'R6', 'rappdirs', 'digest'

Packages suggested but not available for checking:
  'roxygen2', 'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'lubridate', 'rappdirs', 'readr', 'dplyr', 'tidyr',
  'patchwork', 'scales', 'rvest', 'tibble'

Packages suggested but not available for checking:
  'rmarkdown', 'knitr', 'spelling', 'viridisLite'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'TimeWarp'

Package suggested but not available for checking: 'scriptests'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'tibble', 'purrr', 'rlang', 'assertthat'

Packages suggested but not available for checking:
  'testthat', 'covr', 'knitr', 'rmarkdown', 'mice', 'ggplot2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ape', 'scatterplot3d'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'testthat', 'plyr'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package required but not available: 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'magrittr', 'purrr', 'readr', 'R.utils'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'R6', 'gmp', 'sodium'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'pastecs', 'ggplot2'

Packages suggested but not available for checking:
  'endtoend', 'Opportunistic'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'survey', 'Rcpp', 'Rdpack', 'RcppEigen'

Packages suggested but not available for checking:
  'testthat', 'R.rsp', 'usethis', 'knitr', 'rmarkdown', 'roxygen2'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'raster'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'orthopolynom', 'quantmod', 'rsm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
hornpa: no visible global function definition for 'rnorm'
hornpa: no visible global function definition for 'cor'
hornpa: no visible global function definition for 'quantile'
Undefined global functions or variables:
  cor quantile rnorm
Consider adding
  importFrom("stats", "cor", "quantile", "rnorm")
to your NAMESPACE file.
Packages required but not available:
  'mvnfast', 'randomForest', 'gbm', 'inTrees', 'ggplot2', 'Rdpack',
  'RColorBrewer'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'msm'

Packages suggested but not available for checking: 'pgdraw', 'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'Hmisc', 'ggplot2', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Running examples in 'horseshoe-Ex.R' failed
The error most likely occurred in:

> ### Name: HS.normal.means
> ### Title: The horseshoe prior for the sparse normal means problem
> ### Aliases: HS.normal.means
> 
> ### ** Examples
> 
> #Empirical Bayes example with 20 signals, rest is noise
> #Posterior mean for the signals is plotted
> #And variable selection is performed using the credible intervals
> #And the credible intervals are plotted
> truth <- c(rep(0, 80), rep(8, 20))
> data <-  truth + rnorm(100, 1)
> tau.hat <- HS.MMLE(data, Sigma2 = 1)
> res.HS1 <- HS.normal.means(data, method.tau = "fixed", tau = tau.hat,
+ method.sigma = "fixed", Sigma2 = 1)
[1] 1000
[1] 2000
[1] 3000
[1] 4000
[1] 5000
[1] 6000
> #Plot the posterior mean against the data (signals in blue)
> plot(data, res.HS1$BetaHat, col = c(rep("black", 80), rep("blue", 20)))
> #Find the selected betas (ideally, the last 20 are equal to 1)
> HS.var.select(res.HS1, data, method = "intervals")
  [1] 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
 [38] 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 1 0 0 0 0 0 0 0 0 1 0 0 0 0
 [75] 0 0 0 0 0 0 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1
> #Plot the credible intervals
> library(Hmisc)
Error in library(Hmisc) : there is no package called 'Hmisc'
Execution halted
Package required but not available: 'mice'

Packages suggested but not available for checking:
  'knitr', 'mitools', 'miceadds'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'corpcor'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'ineq'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'shiny', 'htmltools'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'htmlwidgets'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'shiny', 'colourpicker'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'RcppParallel', 'RcppArmadillo'

Packages suggested but not available for checking:
  'ggplot2', 'mvtnorm', 'titanic', 'sampleSelection', 'GA'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'mvtnorm', 'corpcor', 'numDeriv'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'multicool', 'partitions'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'magrittr', 'lubridate', 'robustbase', 'ggplot2',
  'imputeTS', 'purrr', 'forecast', 'gridExtra', 'rlang', 'plyr', 'zoo',
  'ranger', 'pdp'

Packages suggested but not available for checking:
  'markdown', 'testthat', 'covr', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'data.table'

Packages suggested but not available for checking:
  'testthat', 'fields', 'ranger', 'distrEx'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rgraphviz', 'functional', 'magrittr'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
bracket: no visible global function definition for 'segments'
Undefined global functions or variables:
  segments
Consider adding
  importFrom("graphics", "segments")
to your NAMESPACE file.
Packages required but not available:
  'ggplot2', 'scales', 'extrafont', 'knitr', 'rmarkdown', 'htmltools',
  'magrittr', 'gdtools'

Packages suggested but not available for checking:
  'testthat', 'dplyr', 'gridExtra', 'hunspell', 'stringi', 'gcookbook',
  'clipr', 'vdiffr', 'svglite'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package suggested but not available for checking: 'RISCA'
Packages required but not available:
  'matrixcalc', 'plyr', 'ggplot2', 'xtable', 'reshape2', 'data.table',
  'doBy', 'mvtnorm', 'Rcpp', 'pseudorank'

Packages suggested but not available for checking:
  'RGtk2', 'cairoDevice', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'data.table', 'shiny', 'rhandsontable', 'knitr'

Package suggested but not available for checking: 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'fields'
Packages required but not available:
  'spdep', 'spatialreg', 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'sf', 'tidyverse', 'sp', 'maptools', 'rgdal', 'rgeos',
  'RColorBrewer', 'classInt', 'markdown', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'scatterplot3d', 'ape', 'coin', 'flexmix', 'gee', 'lme4', 'mclust',
  'party', 'randomForest', 'rmeta', 'vcd', 'gamair', 'multcomp',
  'sandwich', 'mboost', 'mvtnorm', 'partykit', 'wordcloud', 'TH.data'
Running examples in 'HSAUR2-Ex.R' failed
The error most likely occurred in:

> ### Name: BCG
> ### Title: BCG Vaccine Data
> ### Aliases: BCG
> ### Keywords: datasets
> 
> ### ** Examples
> 
> 
>   data("BCG", package = "HSAUR2")
> 
>   ### sort studies w.r.t. sample size
>   BCG <- BCG[order(rowSums(BCG[,2:5])),]
> 
>   ### to long format
>   BCGlong <- with(BCG, data.frame(Freq = c(BCGTB, BCGVacc - BCGTB, 
+                                            NoVaccTB, NoVacc - NoVaccTB),
+                   infected = rep(rep(factor(c("yes", "no")), 
+                                  rep(nrow(BCG), 2)), 2),
+                   vaccined = rep(factor(c("yes", "no")), 
+                                  rep(nrow(BCG) * 2, 2)),
+                   study = rep(factor(Study, levels = as.character(Study)), 
+                               4)))
> 
>   ### doubledecker plot
>   library("vcd")
Error in library("vcd") : there is no package called 'vcd'
Execution halted
Packages suggested but not available for checking:
  'ape', 'coin', 'flexmix', 'Formula', 'gamair', 'gamlss.data', 'gee',
  'lme4', 'maps', 'maptools', 'mboost', 'mclust', 'mlbench', 'mice',
  'multcomp', 'mvtnorm', 'partykit', 'quantreg', 'randomForest',
  'rmeta', 'sandwich', 'scatterplot3d', 'sp', 'TH.data', 'vcd',
  'wordcloud', 'HSAUR2'
Running examples in 'HSAUR3-Ex.R' failed
The error most likely occurred in:

> ### Name: BCG
> ### Title: BCG Vaccine Data
> ### Aliases: BCG
> ### Keywords: datasets
> 
> ### ** Examples
> 
> 
>   data("BCG", package = "HSAUR3")
> 
>   ### sort studies w.r.t. sample size
>   BCG <- BCG[order(rowSums(BCG[,2:5])),]
> 
>   ### to long format
>   BCGlong <- with(BCG, data.frame(Freq = c(BCGTB, BCGVacc - BCGTB, 
+                                            NoVaccTB, NoVacc - NoVaccTB),
+                   infected = rep(rep(factor(c("yes", "no")), 
+                                  rep(nrow(BCG), 2)), 2),
+                   vaccined = rep(factor(c("yes", "no")), 
+                                  rep(nrow(BCG) * 2, 2)),
+                   study = rep(factor(Study, levels = as.character(Study)), 
+                               4)))
> 
>   ### doubledecker plot
>   library("vcd")
Error in library("vcd") : there is no package called 'vcd'
Execution halted
Packages suggested but not available for checking:
  'scatterplot3d', 'ape', 'coin', 'flexmix', 'gee', 'lme4', 'mclust',
  'party', 'randomForest', 'rmeta', 'vcd', 'mvtnorm', 'TH.data'
Running examples in 'HSAUR-Ex.R' failed
The error most likely occurred in:

> ### Name: planets
> ### Title: Exoplanets Data
> ### Aliases: planets
> ### Keywords: datasets
> 
> ### ** Examples
> 
> 
>   data("planets", package = "HSAUR")
>   require("scatterplot3d")
Loading required package: scatterplot3d
Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE,  :
  there is no package called 'scatterplot3d'
>   scatterplot3d(log(planets$mass), log(planets$period), log(planets$eccen), 
+                 type = "h", highlight.3d = TRUE,  angle = 55, 
+                 scale.y = 0.7, pch = 16)
Error in scatterplot3d(log(planets$mass), log(planets$period), log(planets$eccen),  : 
  could not find function "scatterplot3d"
Execution halted
Packages required but not available: 'foreach', 'rlist', 'pwr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'raster', 'rgdal', 'signal', 'caret', 'Boruta'

Packages suggested but not available for checking:
  'rgl', 'RCurl', 'foreach', 'asdreader'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ncvreg', 'glmnet', 'quadprog'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'coda'

Packages suggested but not available for checking:
  'knitr', 'raster', 'sp', 'rmarkdown', 'bookdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'hmm.discnp'
Running examples in 'hse-Ex.R' failed
The error most likely occurred in:

> ### Name: aHess
> ### Title: Analytic hessian.
> ### Aliases: aHess
> 
> ### ** Examples
> 
> X   <- hmm.discnp::SydColDisc
Error in loadNamespace(x) : there is no package called 'hmm.discnp'
Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
hsicCCA: no visible global function definition for 'median'
hsicCCA: no visible global function definition for 'dist'
hsicCCAfunc: no visible global function definition for 'rnorm'
hsicCCAfunc: no visible global function definition for 'runif'
hsicCCAfunc: no visible global function definition for 'optim'
ktaCCA: no visible global function definition for 'median'
ktaCCA: no visible global function definition for 'dist'
ktaCCAfunc: no visible global function definition for 'rnorm'
ktaCCAfunc: no visible global function definition for 'runif'
ktaCCAfunc: no visible global function definition for 'optim'
Undefined global functions or variables:
  dist median optim rnorm runif
Consider adding
  importFrom("stats", "dist", "median", "optim", "rnorm", "runif")
to your NAMESPACE file.
Package required but not available: 'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
Packages required but not available: 'snowfall', 'Rcpp', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'corpcor', 'npregfast'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'zoo', 'ggpubr', 'data.table', 'tidyr', 'reshape2', 'ggplot2',
  'partitions'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'hsphase', 'dplyr', 'data.table', 'rlist', 'quadprog', 'curl'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'formatR', 'AlphaSimR', 'doParallel', 'ggplot2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'loo', 'pROC', 'Rcpp', 'rstan', 'rstantools', 'BH',
  'RcppEigen', 'StanHeaders'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'bootstrap'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'BCBCSF', 'glmnet', 'magrittr', 'RcppArmadillo'

Packages suggested but not available for checking:
  'ggplot2', 'corrplot', 'testthat', 'bayesplot', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'glue', 'shiny', 'shinyAce', 'shinythemes', 'shinyjqui'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'cld3', 'dplyr', 'httr', 'lubridate', 'magrittr', 'progress',
  'R.utils', 'ranger', 'rvest', 'stringr', 'tibble', 'tidyr',
  'urltools', 'xml2'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'stringr', 'knitr', 'magrittr', 'checkmate', 'htmlwidgets',
  'htmltools', 'rstudioapi'

Packages suggested but not available for checking:
  'testthat', 'XML', 'xml2', 'Hmisc', 'reshape', 'rmarkdown', 'chron',
  'lubridate', 'tibble', 'purrr', 'tidyselect', 'glue', 'rlang',
  'tidyr', 'dplyr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'XML', 'httr'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'tidyr', 'rmarkdown', 'spelling'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'xml2', 'XML', 'htmlwidgets', 'htmltools'

Packages suggested but not available for checking:
  'testthat', 'httr', 'rvest'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'digest', 'base64enc', 'rlang'

Packages suggested but not available for checking:
  'markdown', 'testthat', 'withr', 'Cairo', 'ragg', 'shiny'

Package which this enhances but not available for checking: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'R2HTML'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'htmltools', 'jsonlite', 'yaml'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

Package which this enhances but not available for checking: 'shiny'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'edgeR', 'plotrix', 'capushe'

Packages suggested but not available for checking: 'HTSFilter', 'Biobase'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'forecast', 'SparseM', 'matrixcalc', 'Rcpp', 'RcppEigen'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/hts.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'tibble', 'ggplot2', 'readr', 'stringr', 'purrr',
  'lubridate', 'RSQLite', 'DBI', 'RODBC', 'zoo', 'WriteXLS', 'readxl',
  'RColorBrewer', 'directlabels', 'openair', 'raster', 'editData',
  'shiny'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'igraph', 'ape', 'magrittr', 'stringr', 'plyr', 'dplyr', 'tidyr',
  'ggplot2', 'vegan', 'DESeq2', 'phyloseq', 'coenocliner', 'lazyeval'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'doParallel'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'digest', 'httr'

Packages suggested but not available for checking:
  'httptest', 'knitr', 'rmarkdown', 'spelling'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'later', 'systemfonts', 'cpp11', 'BH'

Packages suggested but not available for checking:
  'testthat', 'xml2', 'fontquiver', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'httr', 'jsonlite', 'pryr', 'magrittr', 'httpcode'

Packages suggested but not available for checking: 'roxygen2', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
getToHost: no visible global function definition for 'make.socket'
getToHost: no visible global function definition for 'write.socket'
getToHost: no visible global function definition for 'read.socket'
getToHost: no visible global function definition for 'close.socket'
postToHost: no visible global function definition for 'runif'
simplePostToHost: no visible global function definition for
  'make.socket'
simplePostToHost: no visible global function definition for
  'write.socket'
simplePostToHost: no visible global function definition for
  'read.socket'
simplePostToHost: no visible global function definition for
  'close.socket'
Undefined global functions or variables:
  close.socket make.socket read.socket runif write.socket
Consider adding
  importFrom("stats", "runif")
  importFrom("utils", "close.socket", "make.socket", "read.socket",
             "write.socket")
to your NAMESPACE file.
Packages required but not available:
  'testthat', 'curl', 'digest', 'httr', 'jsonlite'

Packages suggested but not available for checking:
  'covr', 'knitr', 'pkgload', 'rmarkdown', 'spelling', 'xml2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'R6', 'promises', 'later'

Packages suggested but not available for checking:
  'testthat', 'callr', 'curl', 'websocket'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'curl', 'jsonlite', 'mime', 'openssl', 'R6'

Packages suggested but not available for checking:
  'covr', 'httpuv', 'jpeg', 'knitr', 'png', 'readr', 'rmarkdown',
  'testthat', 'xml2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'colorspace'

Package suggested but not available for checking: 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'igraph', 'Rcpp', 'RcppEigen'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Packages suggested but not available for checking: 'testthat', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'lubridate', 'assertthat', 'glue'

Packages suggested but not available for checking: 'testthat', 'purrr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking: 'dplyr', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages required but not available: 'gtools', 'Rcpp', 'rgl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'digest'

Packages suggested but not available for checking:
  'spelling', 'testthat', 'pdftools', 'janeaustenr', 'wordcloud2',
  'knitr', 'stopwords', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'purrr', 'readr', 'rlang', 'rvest', 'tidyr', 'xml2'

Packages suggested but not available for checking:
  'covr', 'devtools', 'knitr', 'testthat', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'data.table', 'dplyr', 'ggmap', 'ggplot2', 'lazyeval', 'lubridate',
  'mapproj', 'maps', 'purrr', 'RColorBrewer', 'rlang', 'stringr',
  'tidyr'

Packages suggested but not available for checking:
  'hurricaneexposuredata', 'knitr', 'pander', 'rmarkdown',
  'weathermetrics'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'data.table', 'glue', 'hutils', 'magrittr'

Packages suggested but not available for checking:
  'bench', 'testthat', 'TeXCheckR', 'withr', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'data.table', 'magrittr', 'fastmatch'

Packages suggested but not available for checking:
  'testthat', 'desc', 'dplyr', 'digest', 'Hmisc', 'hutilscpp',
  'microbenchmark', 'knitr', 'rmarkdown', 'nycflights13', 'geosphere',
  'ggplot2', 'readr', 'rcheology', 'rstudioapi', 'survey', 'tibble',
  'tidyr', 'withr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'assertthat', 'commonmark', 'generics', 'glue', 'memoise', 'R6',
  'rlang', 'stringr', 'tidyselect', 'xml2'

Packages suggested but not available for checking:
  'AER', 'bookdown', 'broom', 'broom.mixed', 'covr', 'crayon',
  'devtools', 'dplyr', 'fansi', 'flextable', 'ftExtra', 'ggplot2',
  'httr', 'knitr', 'lme4', 'lmtest', 'officer', 'openxlsx', 'psych',
  'rmarkdown', 'sandwich', 'scales', 'testthat', 'tibble', 'tinytex'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'MCMCpack', 'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'htmlwidgets', 'wordcloud2', 'shiny', 'colourpicker'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
HW.plain: no visible global function definition for 'runif'
Undefined global functions or variables:
  runif
Consider adding
  importFrom("stats", "runif")
to your NAMESPACE file.
Malformed Description field: should contain one or more complete sentences.
getHwriterVersion: no visible global function definition for
  'sessionInfo'
hmapRowCol: no visible global function definition for 'na.omit'
hwriteImage: no visible global function definition for 'dev.print'
hwriteImage: no visible binding for global variable 'png'
showExample: no visible global function definition for 'browseURL'
Undefined global functions or variables:
  browseURL dev.print na.omit png sessionInfo
Consider adding
  importFrom("grDevices", "dev.print", "png")
  importFrom("stats", "na.omit")
  importFrom("utils", "browseURL", "sessionInfo")
to your NAMESPACE file.
Packages required but not available: 'polynom', 'wavethresh'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'randomForest', 'kernelFactory', 'ada', 'ROCR', 'e1071', 'NMOF',
  'GenSA', 'Rmalschains', 'pso', 'AUC', 'soma', 'genalg', 'reportr',
  'nnls', 'quadprog', 'tabuSearch', 'rotationForest', 'FNN', 'glmnet'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'coda'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'doParallel', 'doRNG', 'foreach', 'ggplot2', 'GillespieSSA',
  'reshape2', 'stringr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'checkmate', 'DiagrammeR', 'plyr', 'dplyr', 'graph', 'magrittr',
  'pixiedust', 'rjags', 'stringr'

Packages suggested but not available for checking:
  'knitr', 'RCurl', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'igraph', 'igraphdata', 'RSpectra'
Package unavailable to check Rd xrefs: 'RSpectra'
Packages required but not available: 'ggplot2', 'reshape2', 'units'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'nsRFA'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'sp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'zoo', 'hydroTSM', 'xts'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'minpack.lm'
Running examples in 'HydroMe-Ex.R' failed
The error most likely occurred in:

> ### Name: Brook
> ### Title: Brook-Corey water retention model
> ### Aliases: Brook
> ### Keywords: Models manip
> 
> ### ** Examples
> 
> ## Attach sample data (isric data) from the package
> data(isric)
> pf <- subset(isric, Sample=="Benin2")
> require("minpack.lm")
Loading required package: minpack.lm
Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE,  :
  there is no package called 'minpack.lm'
> brook.ns <- nlsLM(y ~ Brook(x,thr,ths,alp,nscal), data=pf,
+                   control = nls.lm.control(maxiter=200),
+                   start = c(thr= Dstart(pf)[1], ths = Dstart(pf)[2],
+                             alp= Dstart(pf)[3], nscal=Dstart(pf)[4]-1))
Error in nlsLM(y ~ Brook(x, thr, ths, alp, nscal), data = pf, control = nls.lm.control(maxiter = 200),  : 
  could not find function "nlsLM"
Execution halted
Packages required but not available:
  'Hmisc', 'sp', 'zoo', 'lhs', 'hydroTSM', 'hydroGOF', 'vioplot',
  'scatterplot3d', 'data.table'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'stringi', 'stringr', 'tibble', 'pingr', 'readr', 'jsonlite'

Packages suggested but not available for checking:
  'ggplot2', 'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'dplyr', 'plyr'
Packages required but not available:
  'ggplot2', 'plotly', 'lubridate', 'readxl', 'reshape2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'zoo', 'xts', 'e1071', 'gstat', 'automap', 'sp', 'maptools'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'reshape2', 'zoo', 'rgdal', 'plyr', 'moments', 'lmom',
  'maps', 'maptools', 'rgeos', 'ncdf4', 'data.table'

Packages suggested but not available for checking:
  'gridExtra', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'magrittr', 'cubature', 'Rcpp', 'partitions', 'EMC', 'mathjaxr'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'VarianceGamma', 'actuar'
Package unavailable to check Rd xrefs: 'VarianceGamma'
Running 'testbesselRatio.R'
  Running 'testghypMeanVarMode.R'
  Running 'testghypMom.R'
  Running 'testgigCheckPars.R'
  Running 'testgigMeanVarMode.R'
  Running 'testgigMom.R'
Running the tests in 'tests/testgigMom.R' failed.
Last 13 lines of output:
  [1] 0.2222222
  > m2 <- momIntegrated("gamma", order = 2, param = Theta, about = m1)
  > m2
  [1] 0.2222222
  > gigMom(1, c(shape, 0, 2*rate), about = m1)
  [1] 0
  > gigMom(3, c(shape, 0, 2*rate), about = m1)
  [1] 0.1481481
  > momIntegrated("gamma", order = 3, param = Theta, about = m1)
  [1] 0.1481481
  > 
  > ### Test gigRawMom for gamma case
  > library(actuar)
  Error in library(actuar) : there is no package called 'actuar'
  Execution halted
Packages required but not available: 'plotly', 'stringr', 'dplyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'magicaxis', 'rgl', 'LaplacesDemon'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'flowCore', 'sp', 'rgeos'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages required but not available: 'Rcpp', 'gsl', 'RcppArmadillo'

Packages suggested but not available for checking:
  'testthat', 'Bessel', 'jack', 'knitr', 'rmarkdown', 'complexplus'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'elliptic', 'contfrac', 'deSolve'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'igraph', 'mclust', 'proxy', 'RSpectra', 'gtools'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'e1071', 'matlib', 'ggplot2', 'rgl', 'misc3d'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'plotrix', 'rlang'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'unbalanced', 'randomForest'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'xml2', 'testthat', 'latticeExtra', 'lazyeval', 'dplyr'

Packages suggested but not available for checking:
  'R.matlab', 'tripack', 'deldir', 'rgl', 'plotrix', 'sp', 'baseline',
  'inline', 'Rcpp', 'fastcluster', 'pls', 'mvtnorm', 'digest',
  'reshape', 'devtools', 'R.rsp', 'tibble'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'rgl', 'raster', 'maps', 'geometry', 'ks', 'pdist',
  'fastcluster', 'e1071', 'hitandrun', 'progress', 'mvtnorm',
  'data.table', 'rgeos', 'sp', 'RcppArmadillo'

Packages suggested but not available for checking: 'magick', 'alphahull'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ape', 'R.utils'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
conint: no visible global function definition for 'sd'
findroot: no visible global function definition for 'integrate'
hypothesis: no visible global function definition for 'sd'
hypothesis: no visible global function definition for 'integrate'
Undefined global functions or variables:
  integrate sd
Consider adding
  importFrom("stats", "integrate", "sd")
to your NAMESPACE file.
Packages required but not available: 'dplyr', 'httr', 'jsonlite'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'pracma'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'compare', 'orthopolynom', 'grImport2', 'Rglpk', 'purrr'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'qpdf', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'sets', 'pbapply', 'reliaR', 'kerdiest', 'triangle', 'rgenoud'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'car', 'msm'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'httr', 'jsonlite', 'lubridate'

Packages suggested but not available for checking:
  'dplyr', 'ggplot2', 'htmltools', 'knitr', 'rmarkdown', 'scales'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'MCMCpack', 'foreach', 'coda'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'magrittr', 'knitr', 'flexdashboard', 'assertive.sets',
  'assertive.types', 'rmarkdown', 'stringr', 'stringi', 'glue',
  'ymlthis', 'xfun', 'htmltools'

Packages suggested but not available for checking:
  'switchr', 'plotly', 'BiocStyle', 'testthat', 'ComplexHeatmap',
  'digest', 'ggplot2', 'gt', 'kableExtra', 'forcats', 'leaflet'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'incidence2', 'trending', 'dplyr', 'tibble', 'rlang', 'tidyr',
  'vctrs', 'ellipsis', 'ggplot2', 'data.table', 'tidyselect'

Packages suggested but not available for checking:
  'testthat', 'outbreaks', 'knitr', 'rmarkdown', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'testthat', 'evaluate', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'test-all.R'
Running the tests in 'tests/test-all.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'FrF2', 'stringi', 'abind'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'shiny', 'shinydashboard'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'manipulate', 'tibble', 'dplyr', 'tidyr', 'dplR', 'rlang',
  'tidyselect'

Packages suggested but not available for checking:
  'lazyeval', 'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'JuliaCall', 'stringr', 'rlang', 'lifecycle', 'rappdirs'

Packages suggested but not available for checking:
  'testthat', 'covr', 'xml2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'dplyr', 'knitr', 'ggplot2', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages required but not available:
  'eRm', 'ggplot2', 'gridExtra', 'Hmisc', 'PP', 'psychotools',
  'vcdExtra'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'Rdpack'

Package suggested but not available for checking: 'arfima'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'dplyr', 'ggplot2', 'lazyeval'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'stringr', 'dplyr', 'reshape2', 'qgraph'

Package suggested but not available for checking: 'nparcomp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'msm', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dslabs', 'ggplot2', 'stringr', 'magrittr'

Packages suggested but not available for checking:
  'tidyverse', 'rmarkdown', 'caret', 'reshape2', 'lubridate',
  'ggrepel', 'writexl', 'cowplot', 'DT', 'gutenbergr', 'tidytext',
  'rvest', 'Lahman', 'pdftools', 'HistData', 'titanic', 'BiocManager',
  'usethis', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'httr', 'jsonlite', 'rlang', 'magrittr', 'tibble',
  'tidyselect'

Packages suggested but not available for checking:
  'testthat', 'covr', 'roxygen2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'lsa', 'tidyr', 'dplyr'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
ibdhap.barplot: no visible global function definition for 'rect'
ibdhap.compare.loci: no visible global function definition for 'hist'
ibdhap.compare.segs: no visible global function definition for 'tail'
ibdhap.make.calls: no visible global function definition for
  'count.fields'
ibdhap.make.calls: no visible global function definition for
  'read.table'
ibdhap.make.true: no visible global function definition for
  'read.table'
ibdhap.names: no visible global function definition for 'count.fields'
ibdhap.names: no visible global function definition for 'read.table'
ibdhap.reduce.states: no visible global function definition for
  'read.table'
ibdhap.reduce.states: no visible global function definition for
  'write.table'
Undefined global functions or variables:
  count.fields hist read.table rect tail write.table
Consider adding
  importFrom("graphics", "hist", "rect")
  importFrom("utils", "count.fields", "read.table", "tail",
             "write.table")
to your NAMESPACE file.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'lpSolve', 'car', 'emmeans', 'multcomp'

Package suggested but not available for checking: 'multcompView'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Package suggested but not available for checking: 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'
Errors in running code in vignettes:
when running code in 'ibdreg.Rnw'
  ...
Error in loadVignetteBuilder(pkgdir) : vignette builder 'R.rsp' not found
Calls: <Anonymous> -> loadVignetteBuilder
Execution halted

... incomplete output.  Crash?

  'ibdreg.Rnw'... failed to complete the test
Packages required but not available:
  'pedtools', 'Rcpp', 'ggplot2', 'glue', 'ribd'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'paramlink'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'fields', 'deldir', 'rgeos', 'sp', 'spdep'

Package suggested but not available for checking: 'rgdal'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'jsonlite', 'httr', 'XML'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'RODBC', 'arules', 'rpart.plot', 'ggplot2'

Package suggested but not available for checking: 'SparkR'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'checkmate', 'readr', 'rlang', 'tidyr', 'dplyr', 'reshape',
  'purrr', 'ggplot2'

Packages suggested but not available for checking:
  'RcppArmadillo', 'knitr', 'rmarkdown', 'bookdown', 'ggfortify',
  'magick', 'colorspace', 'gridExtra'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'jsonlite', 'htmlwidgets'

Packages suggested but not available for checking:
  'covr', 'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Title field: should not end in a period.
Iboot: no visible global function definition for 'quantile'
Undefined global functions or variables:
  quantile
Consider adding
  importFrom("stats", "quantile")
to your NAMESPACE file.
Package unavailable to check Rd xrefs: 'simpleboot'
Packages required but not available: 'lme4', 'Rdpack', 'VGAM'

Packages suggested but not available for checking:
  'knitr', 'nlraa', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'ggplot2'

Packages suggested but not available for checking:
  'DALEX', 'knitr', 'rmarkdown', 'randomForest', 'e1071', 'ranger',
  'testthat', 'r2d3', 'jsonlite', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'xts', 'zoo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'pamr', 'impute', 'iC10TrainingData'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
'library' or 'require' call to 'tcltk' which was already attached by Depends.
  Please remove these calls from your code.
Package in Depends field not imported from: 'tcltk'
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
ICA: no visible global function definition for 'runif'
Undefined global functions or variables:
  runif
Consider adding
  importFrom("stats", "runif")
to your NAMESPACE file.
Package required but not available: 'V8'

Packages suggested but not available for checking: 'testthat', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'vegan', 'permute', 'ape', 'bigmemory', 'nortest', 'minpack.lm',
  'Hmisc'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Biostrings', 'BSgenome', 'data.table', 'dplyr', 'GenomeInfoDb',
  'GenomicRanges', 'IRanges', 'RColorBrewer', 'stringi', 'zip'

Packages suggested but not available for checking:
  'BSgenome.Hsapiens.1000genomes.hs37d5',
  'BSgenome.Hsapiens.UCSC.hg38', 'BSgenome.Mmusculus.UCSC.mm10',
  'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'nloptr', 'cubature', 'sn', 'mnormt', 'mvQuad', 'RcppEigen'

Packages suggested but not available for checking: 'rgl', 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
Packages required but not available:
  'rstan', 'ggplot2', 'glue', 'RCurl', 'KEGGgraph', 'igraph',
  'reshape2', 'mc2d', 'abind'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'testthat', 'ggplot2', 'Rglpk', 'slam', 'xtable', 'magrittr'
Running examples in 'icarus-Ex.R' failed
The error most likely occurred in:

> ### Name: newMarginMatrix
> ### Title: Create empty margin matrix
> ### Aliases: newMarginMatrix
> 
> ### ** Examples
> 
> library(magrittr)
Error in library(magrittr) : there is no package called 'magrittr'
Execution halted
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'HI', 'coda'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'glmnet', 'dplyr', 'purrr', 'latex2exp', 'matrixStats', 'ggplot2',
  'gglasso', 'PRROC'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'fitdistrplus', 'icenReg', 'numDeriv', 'ICsurv', 'msm',
  'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'lme4', 'RcppArmadillo'

Packages suggested but not available for checking:
  'RLRsim', 'testthat', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'lme4'
'LazyData' is specified without a 'data' directory
Running examples in 'ICCbin-Ex.R' failed
The error most likely occurred in:

> ### Name: iccbin
> ### Title: Estimates Intracluster Correlation coefficients (ICC) and it's
> ###   confidence intervals (CI)
> ### Aliases: iccbin
> 
> ### ** Examples
> 
> bccdata <- rcbin(prop = .4, prvar = .2, noc = 30, csize = 20, csvar = .2, rho = .2)
> iccbin(cid = cid, y = y, data = bccdata)
Warning in iccbin(cid = cid, y = y, data = bccdata) :
  One or Both of 'Zou and Donner's Modified Wald' Confidence Limits Fell Outside of [0, 1]
Error: Package 'lme4' is needed for methods 'lin' and 'sim'. Please install it.
Execution halted
'LazyData' is specified without a 'data' directory
Packages required but not available: 'partykit', 'icenReg', 'ipred'

Packages suggested but not available for checking: 'LTRCtrees', 'inum'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
ICCbare: no visible global function definition for 'na.omit'
ICCbare: no visible global function definition for 'formula'
ICCbare: no visible global function definition for 'replications'
ICCbare: no visible global function definition for 'aggregate'
ICCbare: no visible global function definition for 'anova'
ICCbare: no visible global function definition for 'aov'
ICCbareF: no visible global function definition for 'aggregate'
ICCest: no visible global function definition for 'na.omit'
ICCest: no visible global function definition for 'anova'
ICCest: no visible global function definition for 'aov'
ICCest: no visible global function definition for 'aggregate'
ICCest: no visible global function definition for 'qf'
ICCest: no visible global function definition for 'qnorm'
Nest: no visible global function definition for 'qnorm'
effort : CIW: no visible global function definition for 'qf'
effort: no visible global function definition for 'axis'
effort: no visible global function definition for 'lines'
effort: no visible global function definition for 'legend'
Undefined global functions or variables:
  aggregate anova aov axis formula legend lines na.omit qf qnorm
  replications
Consider adding
  importFrom("graphics", "axis", "legend", "lines")
  importFrom("stats", "aggregate", "anova", "aov", "formula", "na.omit",
             "qf", "qnorm", "replications")
to your NAMESPACE file.
Packages required but not available:
  'magrittr', 'dplyr', 'purrr', 'tidyr', 'tidyselect', 'stringi',
  'rlang', 'tibble'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'rvest'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'testthat', 'icd'
Note: found 55 marked UTF-8 strings
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package required but not available: 'stringr'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'dplyr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'igraph', 'graphite', 'metap', 'org.Hs.eg.db'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'prettydoc'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'sfsmisc'

Package suggested but not available for checking: 'randomForest'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'rgeos', 'maptools', 'sp', 'ncdf4', 'raster', 'Rcpp', 'coda',
  'RcppArmadillo'

Packages suggested but not available for checking:
  'geosphere', 'fields', 'knitr', 'rmarkdown', 'viridis'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'plotly', 'Rtsne', 'gridExtra', 'ggrepel', 'ggpubr',
  'scatterplot3d', 'RColorBrewer', 'knitr', 'NbClust', 'shiny',
  'pheatmap', 'ape', 'ggdendro', 'plyr', 'reshape', 'Hmisc',
  'htmlwidgets', 'uwot', 'hdf5r', 'progress', 'igraph', 'data.table',
  'Rcpp', 'RANN', 'jsonlite', 'png'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'coda', 'foreach', 'MLEcens', 'RcppEigen'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Icens', 'TeachingDemos', 'mvtnorm', 'smoothSurv', 'gtools'

Packages suggested but not available for checking:
  'interval', 'logspline', 'mixAK', 'bayesSurv', 'FHtest', 'glrt',
  'icenReg', 'frailtypack', 'MIICD', 'MLEcens', 'cubature', 'runjags',
  'coda', 'ICBayes', 'dynsurv'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
'library' or 'require' call to 'KernSmooth' which was already attached by Depends.
  Please remove these calls from your code.
bickde: no visible global function definition for 'optimize'
iclocpoly: no visible global function definition for 'approx'
iclocpoly: no visible global function definition for 'sd'
iclocpoly: no visible global function definition for 'dnorm'
iclocpoly: no visible global function definition for 'pnorm'
iclocpoly: no visible global function definition for 'var'
inmost: no visible global function definition for 'stack'
Undefined global functions or variables:
  approx dnorm optimize pnorm sd stack var
Consider adding
  importFrom("stats", "approx", "dnorm", "optimize", "pnorm", "sd",
             "var")
  importFrom("utils", "stack")
to your NAMESPACE file.
Package suggested but not available for checking: 'icesVocab'
Packages required but not available:
  'purrr', 'roxygen2', 'glue', 'jsonlite'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'xml2'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
INCAncinner : dian: no visible global function definition for 'cutree'
INCAncinner : bestela: no visible global function definition for
  'cutree'
center: no visible global function definition for 'var'
dbhatta: no visible global function definition for 'as.dist'
dcor: no visible global function definition for 'cor'
dcor: no visible global function definition for 'as.dist'
dgower: no visible global function definition for 'as.dist'
dmahal: no visible global function definition for 'as.dist'
dproc2: no visible global function definition for 'as.dist'
plot.incaix: no visible global function definition for 'barplot'
plot.incanc: no visible global function definition for 'lines'
plot.incanc: no visible global function definition for 'legend'
selectioncluster : dian: no visible global function definition for
  'cutree'
selectioncluster : bestela: no visible global function definition for
  'cutree'
Undefined global functions or variables:
  as.dist barplot cor cutree legend lines var
Consider adding
  importFrom("graphics", "barplot", "legend", "lines")
  importFrom("stats", "as.dist", "cor", "cutree", "var")
to your NAMESPACE file.
Packages required but not available: 'ICsurv', 'pracma'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'quadprog', 'mvtnorm', 'kappalab'

Package suggested but not available for checking: 'relaimpo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'httr'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'rugarch', 'sandwich', 'xts', 'car', 'coefplot', 'fBasics',
  'forecast', 'lmtest', 'lubridate', 'openair', 'papeR', 'timeDate',
  'timeSeries', 'zoo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'caTools', 'gdata', 'gtools', 'gplots'

Depends: includes the non-default packages:
  'lattice', 'caTools', 'gdata', 'gtools', 'gplots', 'parallel'
Adding so many packages to the search path is excessive and importing
selectively is preferable.

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'EbayesThresh'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'network'

Packages suggested but not available for checking:
  'covr', 'ggnetwork', 'ggplot2', 'knitr', 'testthat', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'igraph', 'magick', 'rgdal'

Packages suggested but not available for checking:
  'ggplot2', 'knitr', 'rmarkdown', 'dplyr', 'kableExtra', 'data.tree',
  'dendextend'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'sp', 'igraph'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'rgdal', 'raster', 'rgl'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rvest', 'purrr', 'httr'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'multcomp', 'gmp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Icens'

Package suggested but not available for checking: 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Package suggested but not available for checking: 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'icensmis'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'CompQuadForm', 'dplyr', 'magrittr', 'Rcpp', 'rje', 'tidyr', 'zoo',
  'RcppEigen'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'mvtnorm', 'ICS'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ICS', 'moments', 'mvtnorm'

Package suggested but not available for checking: 'REPPlab'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'mvtnorm', 'survey'

Packages suggested but not available for checking:
  'pixmap', 'robustbase', 'ICSNP'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ICS', 'ICSOutlier', 'shiny', 'ICSNP', 'rrcov', 'simsalapar', 'DT'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'polynom', 'ggplot2'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'rstack'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'matrixcalc'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'rgenoud', 'minqa'
Running examples in 'icsw-Ex.R' failed
The error most likely occurred in:

> ### Name: compliance.score
> ### Title: Estimate compliance scores using covariates.
> ### Aliases: compliance.score
> 
> ### ** Examples
> 
> 
> # Load example dataset, see help(FoxDebate) for details
> data(FoxDebate)
> 
> # Matrix of covariates
> covmat <- with(FoxDebate, cbind(partyid, pnintst, watchnat, educad, readnews, 
+                                 gender, income, white))
> 
> # Estimate compliance scores with covariates, assuming (default) 
> #   case of two-sided non-compliance
> cscoreout <- with(FoxDebate, compliance.score(D = watchpro, Z = conditn,
+                                               W = covmat))
Error in compliance.score(D = watchpro, Z = conditn, W = covmat) : 
  rgenoud package required to use genoud = TRUE option.
Calls: with -> with.default -> eval -> eval -> compliance.score
Execution halted
Packages required but not available:
  'JADE', 'ICS', 'ggplot2', 'Rcpp', 'ICSNP', 'survey', 'GGally', 'png',
  'zoo', 'xts', 'RcppArmadillo'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'fICA'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'FD', 'picante', 'spatstat', 'ape', 'spatstat.geom', 'spatstat.core'

Packages suggested but not available for checking: 'ecespa', 'vegan'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
NB: .First.lib is obsolete and will not be used in R >= 3.0.0

idbg.interact: no visible global function definition for
  'capture.output'
idbg.interact: no visible global function definition for 'timestamp'
idbg.print_breakpoints: no visible global function definition for
  'capture.output'
Undefined global functions or variables:
  capture.output timestamp
Consider adding
  importFrom("utils", "capture.output", "timestamp")
to your NAMESPACE file.
Packages required but not available:
  'jsonlite', 'dplyr', 'httr', 'countrycode', 'purrr',
  'rnaturalearthdata', 'sf'

Packages suggested but not available for checking: 'tidyr', 'plotly'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'stringr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'stringr', 'tidyr', 'dplyr', 'ggplot2'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'shiny', 'dplyr', 'mlogit', 'Rcpp', 'Rdpack', 'scales', 'tmvtnorm',
  'RcppArmadillo'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'rstan', 'sqldf', 'mice', 'StanHeaders', 'BH', 'RcppEigen'

Packages suggested but not available for checking:
  'knitr', 'shiny', 'rmarkdown', 'pander', 'DT', 'shinythemes'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'tkrplot'

Packages suggested but not available for checking:
  'rggobi', 'DendSer', 'RColorBrewer'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'matrixcalc', 'pdist', 'mvtnorm', 'RcppArmadillo', 'rgen'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'sp', 'spacetime', 'dplyr', 'tidyr', 'FRK', 'DEoptim',
  'sparseinv'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/IDE_intro.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'FNN'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'evd', 'ismev', 'RcppRoll', 'pbapply', 'fastmatch'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'igraph', 'mvtnorm', 'glasso', 'GGMridge', 'visNetwork', 'scales'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'crayon', 'plyr', 'dplyr', 'tidyr'

Packages suggested but not available for checking:
  'rentrez', 'ggplot2', 'ggpubr', 'ggtree', 'phytools', 'treeio',
  'rmdformats', 'knitr', 'kableExtra', 'rvcheck', 'badger',
  'rmarkdown', 'RCurl', 'shiny', 'shinydashboard', 'rhandsontable',
  'gtools', 'rclipboard'

VignetteBuilder packages required for checking but not installed:
  'plyr', 'rmdformats', 'knitr', 'kableExtra', 'rmarkdown', 'RCurl',
  'rvcheck', 'badger', 'rentrez'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'infotheo', 'lme4'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'data.table', 'doParallel', 'foreach'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'rlang', 'ggplot2', 'viridis', 'magrittr', 'purrr',
  'future', 'furrr', 'stringr', 'tibble', 'tidyr', 'deSolve'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'knitr', 'pkgnet', 'DT', 'vdiffr',
  'spelling'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'animation', 'dummies', 'corpcor', 'ca', 'ggrepel'

Package suggested but not available for checking: 'caret'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'foreach', 'doParallel'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'VennDiagram'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'SwissAir'
Packages unavailable to check Rd xrefs: 'sfsmisc', 'RColorBrewer', 'hexbin', 'SwissAir'
Packages required but not available: 'Rsolnp', 'gtools'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
comp.uri: no visible global function definition for 'quantile'
est.IDR: no visible global function definition for 'ecdf'
get.pseudo.mix: no visible global function definition for 'pnorm'
get.uri.2d: no visible global function definition for 'smooth.spline'
get.uri.2d: no visible global function definition for 'predict'
Undefined global functions or variables:
  ecdf pnorm predict quantile smooth.spline
Consider adding
  importFrom("stats", "ecdf", "pnorm", "predict", "quantile",
             "smooth.spline")
to your NAMESPACE file.
Packages required but not available:
  'GD', 'ggplot2', 'reshape2', 'kableExtra'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'openssl', 'uuid'

Packages suggested but not available for checking:
  'knitr', 'rcorpora', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'XML', 'vegan'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'readxl', 'openxlsx', 'gWidgets2', 'gWidgets2tcltk', 'stringi',
  'mgsub', 'reader', 'lubridate', 'data.table'

Packages suggested but not available for checking:
  'iemisc', 'iemiscdata', 'pracma'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'install.load', 'iemisc', 'ie2misc', 'ie2miscdata', 'rivr', 'rvest',
  'data.table', 'stringi', 'qdap', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Note: found 1 marked UTF-8 string
Packages required but not available:
  'zoo', 'pracma', 'iemiscdata', 'import', 'gsubfn', 'fpCompare',
  'units', 'CHNOSZ', 'testit', 'stringi', 'rgdal', 'sp', 'data.table'

Packages suggested but not available for checking:
  'install.load', 'ie2misc', 'Rcpp', 'NISTunits', 'optiRum', 'rivr',
  'knitr', 'rmarkdown', 'ramify'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'install.load', 'tm', 'NLP', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Note: found 40 marked UTF-8 strings
Packages required but not available:
  'Rdpack', 'foreach', 'doParallel', 'ggplot2', 'dplyr', 'lubridate'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'qlcMatrix', 'mathjaxr', 'picasso', 'expm', 'foreach', 'rlecuyer',
  'HDCI', 'doParallel', 'future'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rlab', 'coda', 'ROCR'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'shiny', 'ggplot2', 'reshape2', 'rpf', 'OpenMx'

Packages suggested but not available for checking:
  'testthat', 'roxygen2', 'knitr', 'gridExtra', 'plyr', 'xtable'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/pritikin-schmidt.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'RcppProgress', 'xml2', 'png', 'tiff', 'jpeg', 'gridExtra',
  'latticeExtra', 'DT', 'visNetwork'

Packages suggested but not available for checking:
  'IFCdata', 'shiny', 'reticulate'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'caret', 'zoo', 'magrittr'

Packages suggested but not available for checking:
  'data.table', 'DescTools', 'forecast', 'h2o', 'keras', 'kernlab',
  'lubridate', 'tensorflow', 'tibble', 'timeSeries', 'timeDate',
  'timetk'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'haplo.stats', 'coda'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'splus2R'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking: 'knitr', 'markdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Package required but not available: 'CompQuadForm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'dplyr', 'stringr', 'knitr', 'xtable', 'kableExtra',
  'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'glmnet', 'pscl', 'GIGrvg'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'caTools', 'dplyr', 'ggplot2', 'gridExtra', 'hms', 'lubridate',
  'magrittr', 'patchwork', 'scales', 'shiny', 'tibble', 'tidyr'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'countrycode', 'dplyr', 'tinytest', 'ggplot2', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Package unavailable to check Rd xrefs: 'countrycode'
Note: found 160 marked UTF-8 strings
Package required but not available: 'bitops'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'igraph'
Packages required but not available: 'shiny', 'igraph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'clue', 'igraph', 'irlba', 'Rcpp'

Packages suggested but not available for checking:
  'dplyr', 'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'magrittr', 'pkgconfig'

Packages suggested but not available for checking:
  'ape', 'digest', 'graph', 'igraphdata', 'rgl', 'scales', 'testthat',
  'withr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'igraph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'e1071', 'BootMRMR'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'magrittr', 'ggdendro', 'fastcluster', 'RColorBrewer', 'htmlwidgets',
  'jsonlite', 'scales', 'knitr'

Packages suggested but not available for checking:
  'htmltools', 'shiny', 'testthat', 'rmarkdown', 'reshape2',
  'roxygen2', 'covr', 'webshot'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'curl', 'dplyr', 'httr', 'lubridate', 'magrittr', 'purrr', 'readxl',
  'rlang', 'rvest', 'tidyr', 'xml2'

Packages suggested but not available for checking:
  'covr', 'spelling', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'lpint', 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'BH'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'foreach', 'doParallel'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'checkmate', 'cli', 'dplyr', 'fs', 'magrittr', 'purrr', 'readr',
  'rlang', 'strex', 'stringr', 'withr', 'zeallot'

Packages suggested but not available for checking:
  'abind', 'covr', 'EBImage', 'knitr', 'mockery', 'pacman',
  'rmarkdown', 'rprojroot', 'spelling', 'testthat', 'tiff', 'vdiffr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'demography', 'rainbow', 'forecast', 'date'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'multcomp', 'depthTools', 'fda.usc'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'data.table', 'foreach', 'truncnorm', 'lhs'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'magick'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Packages suggested but not available for checking: 'pixmap', 'magick'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'sp'

Packages suggested but not available for checking: 'pixmap', 'magick'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Packages suggested but not available for checking: 'pixmap', 'magick'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Package suggested but not available for checking: 'magick'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dae', 'ggplot2', 'readxl', 'Hmisc', 'GGally', 'RColorBrewer',
  'reshape'

Packages suggested but not available for checking: 'testthat', 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Packages suggested but not available for checking: 'magick', 'FNN'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'R.utils', 'readbitmap', 'pracma', 'magick', 'OpenImageR'

Packages suggested but not available for checking:
  'ggplot2', 'scales', 'shiny', 'testthat', 'mockery', 'knitr',
  'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'moments', 'signal'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'jpeg'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Package suggested but not available for checking: 'magick'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'sp'

Packages suggested but not available for checking: 'pixmap', 'magick'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Package suggested but not available for checking: 'magick'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'foreach', 'doParallel', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'imager', 'fftwtools', 'magrittr', 'Rcpp'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'tesseract'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'magrittr', 'Rcpp', 'stringr', 'png', 'jpeg', 'readbitmap', 'purrr',
  'downloader', 'igraph'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'ggplot2', 'dplyr', 'scales', 'testthat',
  'OpenMPController', 'raster', 'spatstat.geom', 'magick', 'Cairo'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'graph', 'igraph', 'ggm', 'Rcpp', 'sfsmisc', 'lavaan', 'Rgraphviz',
  'RcppArmadillo', 'BH'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'magick'

Package suggested but not available for checking: 'opencv'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'htmlwidgets'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'imager', 'jpeg'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'imager'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'bnlearn', 'KernelKnn', 'ggplot2', 'mvtnorm', 'Rcpp', 'smotefamily',
  'FNN', 'C50', 'RcppArmadillo'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RNifti', 'magrittr'

Packages suggested but not available for checking:
  'mmand', 'tinytest', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'httr', 'dplyr', 'stringr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'IsingSampler', 'igraph', 'qgraph'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'mvtnorm', 'plotly', 'MBESS'

Package suggested but not available for checking: 'mediation'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'httr', 'jsonlite', 'plyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'dplyr', 'httr', 'jsonlite'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'downloader', 'farver', 'tibble', 'magrittr', 'dplyr', 'jpeg'

Packages suggested but not available for checking:
  'testthat', 'covr', 'bmp', 'png', 'magick'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'knitr', 'base64enc', 'dplyr', 'httr', 'jsonlite', 'rlang'

Packages suggested but not available for checking:
  'magick', 'ggplot2', 'usethis', 'pillar', 'rtweet', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'httr', 'png', 'jpeg'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'matrixStats', 'mclust', 'mvnfast', 'Rfast', 'slam', 'viridisLite'

Packages suggested but not available for checking:
  'gmp', 'knitr', 'mcclust', 'rmarkdown', 'Rmpfr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'crayon', 'mvtnorm', 'mixtools', 'mclust', 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'checkmate', 'data.table', 'Formula', 'future', 'future.apply',
  'ggplot2', 'keras', 'Metrics', 'prediction', 'R6'

Packages suggested but not available for checking:
  'ALEPlot', 'bench', 'caret', 'covr', 'e1071', 'future.callr',
  'glmnet', 'gower', 'h2o', 'knitr', 'mlr', 'mlr3', 'party',
  'partykit', 'patchwork', 'randomForest', 'ranger', 'rmarkdown',
  'testthat', 'yaImpute'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'httr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'igraph', 'proxyC', 'pbapply', 'magrittr', 'clusterProfiler',
  'GSEABase', 'ggplot2', 'visNetwork', 'RobustRankAggreg', 'reshape2',
  'corrr', 'GSVA', 'Boruta', 'limma'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'CDM', 'coda', 'psychotools', 'Rcpp', 'sirt', 'TAM', 'RcppArmadillo'

Packages suggested but not available for checking: 'eRm', 'lme4'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'pROC'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'poweRlaw', 'stringdist', 'Biostrings', 'igraph', 'stringr',
  'data.table', 'plyr', 'reshape2', 'ggplot2', 'ggthemes',
  'RColorBrewer', 'Metrics', 'repmis'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Iso', 'truncnorm', 'norm', 'missForest', 'missMDA', 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'caTools', 'matrixStats', 'parallelDist', 'Rcpp'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'tibble', 'dplyr', 'rlang', 'glue', 'lubridate', 'magrittr'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'ggplot2', 'stringr', 'tidyr', 'xtable'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'tableHTML', 'data.table',
  'spelling'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'DBI', 'dplyr', 'assertthat', 'dbplyr', 'rlang', 'tidyselect'

Packages suggested but not available for checking:
  'Lahman', 'lubridate', 'odbc', 'RJDBC', 'rJava', 'nycflights13',
  'stringr', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'dplyr'
'LazyData' is specified without a 'data' directory
Running examples in 'importar-Ex.R' failed
The error most likely occurred in:

> ### Name: import
> ### Title: This function imports/loads packages as in 'Python', i.e.,
> ###   "import package as alias"
> ### Aliases: import
> 
> ### ** Examples
> 
> import(dplyr, d)
Error in library(package., character.only = TRUE) : 
  there is no package called 'dplyr'
Calls: import -> <Anonymous> -> withCallingHandlers -> library
Execution halted
Packages required but not available:
  'gdata', 'Hmisc', 'chron', 'RODBC', 'readxl', 'writexl', 'haven'

Packages suggested but not available for checking:
  'shiny', 'shinyBS', 'shinythemes', 'compareGroups'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'haven', 'rgdal', 'data.table'

Packages suggested but not available for checking:
  'knitr', 'markdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'magrittr', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'dplyr', 'ggplot2', 'tidyr', 'shiny'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Package required but not available: 'Rcpp'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'zoo', 'mvtnorm', 'magrittr'

Packages suggested but not available for checking:
  'knitr', 'ggplot2', 'prettydoc', 'rmarkdown', 'R.rsp', 'testthat',
  'xts'

VignetteBuilder packages required for checking but not installed:
  'knitr', 'rmarkdown', 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'tmvtnorm', 'norm', 'pcaMethods', 'impute'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
impute.mdr: no visible global function definition for 'combn'
Undefined global functions or variables:
  combn
Consider adding
  importFrom("utils", "combn")
to your NAMESPACE file.
Package required but not available: 'randomForest'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'gtools', 'Rcpp', 'DBI', 'RSQLite'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'PSF'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'gamlss', 'mice', 'purrr', 'extremevalues', 'gamlss.dist'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'reshape2'

Packages suggested but not available for checking:
  'testthat', 'caret', 'glmnet', 'pls', 'Cubist', 'ridge', 'gbm',
  'mboost', 'earth'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'forecast', 'ggplot2', 'imputeTS', 'reshape2', 'tidyr',
  'zoo'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'magrittr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'ggtext', 'stinepack', 'forecast', 'magrittr', 'Rcpp'

Packages suggested but not available for checking:
  'testthat', 'R.rsp', 'knitr', 'zoo', 'timeSeries', 'tis', 'xts',
  'tibble', 'tsibble', 'rmarkdown'

VignetteBuilder packages required for checking but not installed:
  'R.rsp', 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'quadprog', 'emplik', 'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'HiClimR', 'RColorBrewer', 'igraph', 'ggplot2', 'gridExtra'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ltm', 'lme4', 'reshape2'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'extRemes'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'kpeaks', 'lhs'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'data.table'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'decoder', 'rvest', 'sweidnumbr', 'xml2'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

Package suggested but not available for checking: 'survey'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'backports', 'magrittr', 'plu', 'rlang'

Packages suggested but not available for checking:
  'covr', 'crayon', 'dplyr', 'nombre', 'stringi', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'limma', 'siggenes', 'multtest', 'genefilter', 'RankProd'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'RcppParallel', 'ggplot2', 'scales', 'data.table',
  'RcppArmadillo'

Packages suggested but not available for checking:
  'knitr', 'dtw', 'rmarkdown', 'gridExtra', 'testthat', 'dtwclust',
  'parallelDist', 'microbenchmark', 'rucrdtw', 'proxy', 'R.rsp',
  'dendextend', 'reshape2', 'colorspace', 'fastcluster'

VignetteBuilder packages required for checking but not installed:
  'knitr', 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'Rcpp', 'orca', 'purrr', 'testthat', 'tibble', 'BH'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'tibble', 'ellipsis', 'vctrs', 'pillar', 'data.table', 'rlang',
  'tidyselect', 'grates'

Packages suggested but not available for checking:
  'outbreaks', 'knitr', 'rmarkdown', 'covr', 'testthat', 'dplyr',
  'scales', 'roxygen2', 'ggplot2', 'magrittr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'aweek'

Packages suggested but not available for checking:
  'magrittr', 'outbreaks', 'testthat', 'vdiffr', 'covr', 'knitr',
  'rmarkdown', 'scales', 'cowplot'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'matrixStats', 'numDeriv', 'dlnm'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'dplyr', 'ggplot2', 'maptools', 'lubridate', 'rgeos'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'magrittr', 'rlang', 'dplyr', 'tibble', 'cubature', 'tmvtnorm',
  'ggplot2', 'glm2', 'plyr', 'pracma', 'foreach', 'doParallel', 'binom'

Packages suggested but not available for checking:
  'survey', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'ape', 'numDeriv', 'phangorn'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Packages suggested but not available for checking: 'TauStar', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'FNN', 'mvtnorm', 'Rdpack'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'fGarch', 'lubridate', 'xts', 'RcppBDT', 'zoo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package required but not available: 'permute'

Packages suggested but not available for checking: 'sp', 'rgeos'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'cli', 'fs', 'gfonts', 'rlang', 'withr'

Packages suggested but not available for checking:
  'callr', 'knitr', 'rcmdcheck', 'rmarkdown', 'spelling', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'gplots'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'optimbase', 'psych', 'matrixStats'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'zoo', 'XML', 'plyr', 'jsonlite', 'lubridate', 'tibbletime'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'reshape2'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'gridExtra', 'ggthemes'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Title field: should not end in a period.
IDM.bootCI: no visible global function definition for 'cov'
IDM.bootCI: no visible global function definition for 'cor'
IDM.bootCI: no visible global function definition for 'quantile'
Undefined global functions or variables:
  cor cov quantile
Consider adding
  importFrom("stats", "cor", "cov", "quantile")
to your NAMESPACE file.
Package required but not available: 'sandwich'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Title field: should not end in a period.
Package in Depends field not imported from: 'survival'
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
contrib: no visible global function definition for 'aggregate'
est.expDeath : surv_p: no visible global function definition for
  'survfit'
est.expDeath : surv_p: no visible global function definition for
  'approx'
function1: no visible global function definition for 'coxph.detail'
inference.SMR: no visible global function definition for 'qnorm'
var.expDeath : surv_p: no visible global function definition for
  'survfit'
var.expDeath : surv_p: no visible global function definition for
  'approx'
Undefined global functions or variables:
  aggregate approx coxph.detail qnorm survfit
Consider adding
  importFrom("stats", "aggregate", "approx", "qnorm")
to your NAMESPACE file.
Packages required but not available: 'numDeriv', 'lme4', 'Formula'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'markdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'glue', 'magrittr', 'purrr', 'rlang', 'tibble'

Packages suggested but not available for checking:
  'broom', 'covr', 'devtools', 'fs', 'knitr', 'nycflights13',
  'rmarkdown', 'stringr', 'testthat', 'tidyr', 'vdiffr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'magrittr', 'purrr', 'Rcpp', 'rlang', 'shiny', 'tibble',
  'tidyr'

Packages suggested but not available for checking:
  'covr', 'descriptr', 'haven', 'jsonlite', 'knitr', 'lubridate',
  'readr', 'readxl', 'rmarkdown', 'scales', 'shinyBS', 'shinythemes',
  'stringr', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'reshape2', 'ggplot2', 'Rcpp', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'matrixStats'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'magrittr'

Packages suggested but not available for checking: 'covr', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'seasonal'

Package suggested but not available for checking: 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages required but not available:
  'readxl', 'writexl', 'optimr', 'data.table', 'plotrix', 'tidyr',
  'ggplot2', 'UpSetR'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'geigen', 'ggplot2', 'ggrepel', 'ROCR'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'lme4'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'igraph'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'lavaan'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'igraph', 'janitor', 'ranger', 'coop', 'ggplot2'

Packages suggested but not available for checking:
  'Hmisc', 'nortest', 'NNS', 'shiny', 'shinythemes', 'shinyWidgets',
  'shinyjs', 'shinycssloaders', 'colourpicker', 'magrittr', 'DT',
  'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'jsonlite', 'httr', 'magrittr', 'purrr', 'rlang', 'tibble',
  'tidyr', 'xts', 'zoo'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'data.table', 'ggplot2', 'plyr', 'iterators', 'doParallel', 'foreach'

Packages suggested but not available for checking:
  'knitr', 'reshape2', 'ClustOfVar', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'data.table'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'dplyr'

Packages suggested but not available for checking: 'knitr', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/gamma_imputation_Jackson_2014.Rnw'
   'inst/doc/risk_score_imputation_Hsu_2009.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'abind', 'relevent'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
entropy: no visible global function definition for 'na.omit'
interinformation: no visible global function definition for 'na.omit'
multiinformation: no visible global function definition for 'na.omit'
mutinformation: no visible global function definition for 'na.omit'
Undefined global functions or variables:
  na.omit
Consider adding
  importFrom("stats", "na.omit")
to your NAMESPACE file.
Package required but not available: 'nloptr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'fields'

Package suggested but not available for checking: 'rNOMADS'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
getInfra: no visible global function definition for 'txtProgressBar'
getInfra: no visible global function definition for 'download.file'
getInfra: no visible global function definition for 'setTxtProgressBar'
getInfra : <anonymous>: no visible global function definition for
  'download.file'
Undefined global functions or variables:
  download.file setTxtProgressBar txtProgressBar
Consider adding
  importFrom("utils", "download.file", "setTxtProgressBar",
             "txtProgressBar")
to your NAMESPACE file.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'spaMM', 'proxy', 'blackbox', 'mvtnorm', 'numDeriv', 'viridis',
  'pbapply', 'foreach'

Packages suggested but not available for checking:
  'testthat', 'ranger', 'Rmixmod', 'crayon'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'ltm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'scales', 'gridExtra'

Packages suggested but not available for checking:
  'DALEX', 'gower', 'ranger', 'testthat', 'r2d3', 'jsonlite', 'knitr',
  'rmarkdown', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package suggested but not available for checking: 'testthat'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library (testthat);
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'dplyr', 'tidyr', 'rlang'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'sp', 'spdep'

Package suggested but not available for checking: 'INLA'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'sp', 'rgdal', 'rgeos', 'withr'

Packages suggested but not available for checking:
  'covr', 'dplyr', 'ggmap', 'ggpolypath', 'INLA', 'knitr', 'maptools',
  'patchwork', 'raster', 'RColorBrewer', 'rgl', 'rmarkdown', 'shiny',
  'sn', 'spatstat.geom', 'spatstat.core', 'spatstat.data', 'spatstat',
  'sphereplot', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'MCMCpack', 'sp', 'spdep'

Packages suggested but not available for checking:
  'INLA', 'spData', 'rgdal'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'sp', 'raster'

Packages suggested but not available for checking:
  'dataRetrieval', 'inlmisc', 'knitr', 'maptools', 'rgdal', 'rgeos'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'future.apply', 'future'
Package unavailable to check Rd xrefs: 'R.methodsS3'
Packages suggested but not available for checking: 'Rcpp', 'tinytest'
Packages required but not available:
  'checkmate', 'data.table', 'GA', 'htmltools', 'htmlwidgets',
  'igraph', 'knitr', 'leaflet', 'raster', 'rgdal', 'rgeos',
  'rmarkdown', 'scales', 'sp', 'tinytex', 'webshot', 'wordcloud2',
  'xtable', 'yaml'

Packages suggested but not available for checking:
  'alphahull', 'dichromat', 'doParallel', 'doRNG', 'gstat', 'maptools',
  'png', 'remotes', 'roxygen2', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'testthat', 'purrr', 'knitr', 'rmarkdown', 'dplyr', 'nycflights13'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'wordcloud', 'RColorBrewer', 'tm', 'SnowballC', 'ca', 'entropart',
  'metacom', 'stringi', 'R.devices'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Packages suggested but not available for checking:
  'spelling', 'data.table', 'testthat', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'prettyGraphs', 'ExPosition'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'evd', 'gdata', 'suncalc'

Package suggested but not available for checking: 'readr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'broom', 'dplyr', 'DT', 'ggbeeswarm', 'ggplot2', 'ggpubr',
  'ggthemes', 'glue', 'patchwork', 'purrr', 'readxl', 'shiny', 'tidyr'

Packages suggested but not available for checking:
  'covr', 'roxygen2', 'knitr', 'testthat', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ape', 'aphid', 'kmer', 'openssl', 'phylogram', 'RANN', 'seqinr',
  'xml2'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'httr', 'xml2', 'tibble', 'dplyr', 'stringr', 'lubridate',
  'tidyselect', 'rlang', 'purrr', 'crayon', 'openssl', 'rappdirs',
  'readsdmx'

Packages suggested but not available for checking:
  'tidyverse', 'prettydoc', 'htmltools', 'kableExtra', 'knitr',
  'rmarkdown', 'magrittr', 'testthat', 'covr', 'png'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'AER', 'afex', 'aod', 'BayesFactor', 'bayestestR', 'bbmle',
  'bdsmatrix', 'betareg', 'BGGM', 'biglm', 'blavaan', 'blme', 'brms',
  'censReg', 'cgam', 'clubSandwich', 'coxme', 'cplm', 'crch', 'dplyr',
  'effectsize', 'emmeans', 'estimatr', 'feisr', 'fixest', 'gam',
  'gamlss', 'gamm4', 'gbm', 'gee', 'geepack', 'GLMMadaptive',
  'glmmTMB', 'gmnl', 'gt', 'httr', 'ivreg', 'JM', 'knitr', 'lavaan',
  'lfe', 'lme4', 'lmtest', 'logistf', 'mclust', 'MCMCglmm', 'merTools',
  'metaBMA', 'mice', 'mlogit', 'multgee', 'nonnest2', 'ordinal',
  'panelr', 'parameters', 'parsnip', 'performance', 'plm', 'pscl',
  'quantreg', 'rmarkdown', 'rms', 'robustbase', 'robustlmm',
  'rstanarm', 'rstantools', 'rstudioapi', 'sandwich', 'speedglm',
  'spelling', 'statmod', 'survey', 'testthat', 'tripack', 'truncreg',
  'VGAM'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages unavailable to check Rd xrefs: 'bayestestR', 'sandwich', 'performance', 'parameters', 'effectsize'
Running 'spelling.R'
  Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'rJava', 'coda', 'ggplot2', 'InterVA5'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'raster'

Package suggested but not available for checking: 'rgl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'ggfittext', 'magrittr', 'progress', 'Rcpp',
  'tibble', 'tidyr'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rdpack'

Packages suggested but not available for checking:
  'covr', 'knitr', 'rmarkdown', 'testthat', 'pcal'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'missMDA'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'fastmatch', 'checkmate', 'assertthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'stringr'

Packages suggested but not available for checking:
  'curl', 'XML', 'htmltab', 'devtools', 'rjson', 'data.table', 'plyr',
  'ggplot2', 'sp', 'pkgbuild'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'httr', 'jsonlite'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Title field: should not end in a period.
Packages required but not available:
  'ciTools', 'classInt', 'colorspace', 'data.table', 'DHARMa', 'dplyr',
  'evtree', 'ggplot2', 'insight', 'lubridate', 'magrittr', 'patchwork',
  'scales', 'stringr', 'tidyr', 'tidyselect'

Packages suggested but not available for checking:
  'spelling', 'knitr', 'rmarkdown', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'intamap', 'spatstat.geom', 'automap', 'gstat', 'rgdal', 'sp'

Packages suggested but not available for checking:
  'spcosa', 'DBI', 'RSQLite'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'sp', 'gstat', 'automap', 'mvtnorm', 'evd', 'doParallel', 'foreach',
  'rgdal'

Package which this enhances but not available for checking: 'psgp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'alabama', 'doParallel', 'foreach'

Package suggested but not available for checking: 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'pracma', 'RcppEigen'

Packages suggested but not available for checking: 'knitr', 'copula'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/intcensROC.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'ltm', 'foreach', 'doParallel', 'mclust', 'abind'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available: 'ggplot2', 'Biobase'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'bootstrap', 'ggplot2', 'limSolve',
  'MultivariateRandomForest'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'DiagrammeR', 'DiagrammeRsvg', 'rsvg', 'gtools'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'httr', 'jsonlite', 'lubridate', 'magrittr', 'tidyr',
  'tibble', 'rlang', 'purrr'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'rgdal', 'diffeR', 'raster', 'ggplot2', 'reshape2'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'RColorBrewer', 'htmlwidgets', 'jsonlite', 'plyr'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'msm', 'car', 'officer', 'flextable'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'crayon', 'cli', 'generics', 'jtools', 'rlang', 'tibble'

Packages suggested but not available for checking:
  'broom', 'cowplot', 'ggstance', 'glue', 'huxtable', 'lme4',
  'margins', 'sandwich', 'survey', 'knitr', 'rmarkdown', 'testthat',
  'vdiffr'

Packages which this enhances but not available for checking:
  'brms', 'rstanarm'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'igraph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
interact: no visible global function definition for 'cor'
standardize.matrix: no visible binding for global variable 'var'
standardize.matrix: no visible binding for global variable 'sd'
Undefined global functions or variables:
  cor sd var
Consider adding
  importFrom("stats", "cor", "sd", "var")
to your NAMESPACE file.
Packages suggested but not available for checking: 'doParallel', 'foreach'
Packages required but not available: 'Rcpp', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'reshape2', 'tkrplot', 'xlsx', 'plyr'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'gtools'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'colorSpec', 'CircStats', 'plotrix'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'network', 'igraph'

Packages suggested but not available for checking:
  'testthat', 'roxygen2', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'interim', 'shiny', 'shinyBS'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available: 'Rcpp', 'geometries'

Packages suggested but not available for checking:
  'covr', 'sfheaders', 'tinytest'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'xml2', 'reshape2'

Packages suggested but not available for checking:
  'kableExtra', 'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'abind', 'arm', 'dplyr', 'purrr', 'interactionTest'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'mitools', 'gridExtra'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'date', 'chron'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'deldir', 'RcppEigen'

Packages suggested but not available for checking: 'sp', 'Deriv'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rdisop', 'enviPat', 'plyr', 'foreach', 'doParallel', 'DBI',
  'RSQLite'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'randomForest', 'AUC'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'NMF'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'curl', 'readxl'

Packages suggested but not available for checking: 'testthat', 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'data.table', 'Rcpp'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'perm', 'Icens', 'MLEcens'

Package suggested but not available for checking: 'coin'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
interventionEffects: no visible binding for global variable 'sd'
interventionEffects: no visible global function definition for 'pt'
interventionEffects: no visible global function definition for 'sd'
interventionalInference: no visible global function definition for 'sd'
interventionalInferenceAdvanced: no visible global function definition
  for 'sd'
linesROC: no visible global function definition for 'segments'
plotMaxML: no visible global function definition for 'segments'
Undefined global functions or variables:
  pt sd segments
Consider adding
  importFrom("graphics", "segments")
  importFrom("stats", "pt", "sd")
to your NAMESPACE file.
Packages required but not available:
  'shiny', 'ggplot2', 'dplyr', 'tidyr', 'tibble', 'lme4', 'agricolae',
  'FactoMineR', 'emmeans', 'purrr', 'stringr', 'stringi', 'DT'

Packages suggested but not available for checking:
  'agridat', 'gsheet', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'sp', 'gstat', 'raster', 'Rcpp', 'Rdpack', 'RcppArmadillo'

Packages suggested but not available for checking:
  'doParallel', 'foreach', 'latticeExtra', 'gridExtra', 'testthat',
  'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'maxLik'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'stringr', 'mice', 'dplyr', 'tibble', 'foreach', 'doParallel'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'NMF', 'mclust', 'InterSIM'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'RRF', 'arules', 'gbm', 'xtable', 'xgboost', 'data.table'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'SQUAREM', 'dplyr', 'rlist'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'yaImpute'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'genetics', 'RColorBrewer'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available: 'plyr', 'lme4'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'msm', 'tmvtnorm', 'mvtnorm', 'MHadaptive'

Package suggested but not available for checking: 'smoothmest'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

Package suggested but not available for checking: 'tinytest'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'Hmisc', 'memisc', 'plyr', 'reshape'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'knitr', 'magrittr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Package required but not available: 'libcoin'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'dplyr', 'earth', 'lmtest', 'quantreg', 'robustbase',
  'sandwich', 'scales'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'glmnet', 'mboost'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available: 'rlang', 'plyr'

Packages suggested but not available for checking:
  'spelling', 'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'magrittr', 'plyr', 'tidyr', 'plotly'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'e1071', 'GameTheoryAllocation'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'tibble', 'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages suggested but not available for checking: 'knitr', 'testthat'
Package unavailable to check Rd xrefs: 'nlstools'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package required but not available: 'optimx'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking:
  'iNZightPlots', 'testthat', 'covr'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  's20x', 'survey', 'quantreg', 'hexbin', 'colorspace', 'dichromat',
  'chron', 'scales', 'iNZightMR', 'iNZightTools', 'rlang', 'magrittr',
  'lubridate'

Packages suggested but not available for checking:
  'hextri', 'viridis', 'RColorBrewer', 'gridSVG', 'knitr', 'jsonlite',
  'testthat', 'covr', 'ggplot2', 'dplyr', 'tidyr', 'forcats',
  'ggmosaic', 'waffle', 'ggthemes', 'ggbeeswarm', 'ggridges', 'plotly'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'car', 'dplyr', 'ggplot2', 'ggrepel', 'ggtext', 'iNZightPlots',
  'iNZightTools', 'magrittr', 'multcomp', 'patchwork'

Packages suggested but not available for checking:
  'covr', 'survey', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'chron', 'dplyr', 'forcats', 'glue', 'haven', 'magrittr', 'RcppTOML',
  'readr', 'readxl', 'srvyr', 'stringr', 'styler', 'survey', 'tibble',
  'tidyr', 'lubridate', 'validate', 'zoo'

Packages suggested but not available for checking:
  'covr', 'jsonlite', 'RCurl', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'colorspace', 'dplyr', 'egg', 'forcats', 'ggplot2', 'ggtext', 'glue',
  'gridExtra', 'magrittr', 'patchwork', 'rlang', 'tidyr'

Packages suggested but not available for checking: 'covr', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'plot3D', 'lpSolve'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'magrittr', 'dplyr', 'data.table', 'ggplot2', 'plotly',
  'colorspace', 'colorRamps', 'RColorBrewer', 'shiny', 'markdown',
  'reshape2', 'shinyjs', 'colourpicker', 'bsplus', 'DT', 'igraph',
  'kableExtra', 'PlayerRatings', 'stringi'

Packages suggested but not available for checking:
  'testthat', 'withr', 'shinydashboard'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'assertthat', 'magrittr', 'BH'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'shiny', 'zip'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Biostrings'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'gplots', 'psych'

Package suggested but not available for checking: 'lavaan'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'mvtnorm', 'mco'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'filenamer', 'stringr'

Packages suggested but not available for checking:
  'XML', 'rhdf5', 'yaml', 'jsonlite', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
File 'iotools/libs/x64/iotools.dll':
  Found non-API calls to R: 'R_GetConnection', 'R_ReadConnection',
    'R_WriteConnection'

Compiled code should not call non-API entry points in R.

See 'Writing portable packages' in the 'Writing R Extensions' manual.
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'reticulate', 'stringr', 'jsonlite'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'reticulate', 'stringr', 'jsonlite'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'rlang', 'vctrs', 'AsioHeaders', 'BH'

Packages suggested but not available for checking:
  'blob', 'crayon', 'dplyr', 'fuzzyjoin', 'knitr', 'pillar',
  'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'treemap', 'ape'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'stringi'

Packages suggested but not available for checking: 'covr', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'expm', 'KRIS', 'fpc', 'LPCM', 'apcluster', 'Rmixmod'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'R6', 'shiny', 'txtq'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'future', 'promises', 'redux'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'dplyr', 'testthat', 'GlobalOptions', 'lubridate', 'eeptools',
  'hash', 'kableExtra'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'dplyr', 'gridExtra', 'readbitmap'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'gdistance', 'sp', 'raster', 'rgeos'

Packages suggested but not available for checking:
  'geoR', 'gstat', 'gdata', 'spatstat', 'rgdal', 'testthat', 'knitr',
  'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'numDeriv'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'glmnet'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'magrittr', 'tidyr', 'mlr'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'apcluster', 'dplyr', 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'sommer'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rJava', 'png'

Package suggested but not available for checking: 'maps'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'magrittr', 'rlang', 'tibble', 'tidyr', 'zeallot'

Packages suggested but not available for checking:
  'ggplot2', 'rmarkdown', 'spelling', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'party', 'randomForest', 'gbm'

Packages suggested but not available for checking:
  'mlbench', 'randomForestSRC', 'ranger'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'magrittr', 'purrr', 'rlang', 'Rcpp'

Packages suggested but not available for checking:
  'knitr', 'lme4', 'mvtnorm', 'rmarkdown', 'roxygen2', 'spelling',
  'testthat', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages required but not available:
  'AlgDesign', 'copula', 'evd', 'triangle', 'kolmim'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'prodlim'

Packages suggested but not available for checking:
  'mvtnorm', 'mlbench', 'TH.data', 'randomForest', 'party'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'doSNOW', 'foreach', 'ggplot2', 'mvtnorm', 'Rcpp', 'reshape2',
  'scales', 'RcppEigen'

Packages suggested but not available for checking:
  'caret', 'knitr', 'R.rsp', 'rmarkdown', 'testthat'

VignetteBuilder packages required for checking but not installed:
  'knitr', 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'ape', 'phangorn', 'plyr', 'seqinr', 'XML'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'httr', 'jsonlite'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'AsioHeaders', 'stringi', 'readr', 'triebeard', 'BH'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'haven', 'hipread', 'purrr', 'R6', 'raster', 'readr',
  'rlang', 'tibble', 'tidyselect', 'xml2', 'zeallot'

Packages suggested but not available for checking:
  'DT', 'ggplot2', 'htmltools', 'knitr', 'rgdal', 'rmarkdown',
  'rstudioapi', 'scales', 'sf', 'sp', 'shiny', 'testthat', 'covr',
  'biglm', 'DBI', 'RSQLite', 'dbplyr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggforce', 'ggplot2'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'extrafont', 'readxl'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'isotone'

Packages suggested but not available for checking:
  'mice', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'nleqslv'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'MplusAutomation', 'tidyverse', 'mvtnorm', 'dplyr', 'tibble', 'tidyr'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'geepack'

Package suggested but not available for checking: 'survey'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'miscTools', 'qcc'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Package required but not available: 'R6'

Packages suggested but not available for checking:
  'Rmpi', 'knitr', 'testthat', 'withr', 'mlr', 'ParamHelpers',
  'devtools'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/irace-package.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'ROCR'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'coda', 'R2admb', 'plyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'glmnet', 'Rdpack', 'GGMncv', 'corpcor'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package required but not available: 'repr'

Packages suggested but not available for checking: 'testthat', 'withr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'sp', 'e1071', 'Rdpack', 'fBasics', 'imager', 'reshape2'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'AUC', 'data.table', 'dplyr', 'Rcpp', 'foreach', 'doParallel',
  'RColorBrewer'

Package suggested but not available for checking: 'rgl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'data.table', 'RcppRoll'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'DiagrammeR', 'ggplot2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'gsheet', 'dplyr', 'reshape2', 'ggplot2', 'ggsci', 'WDI', 'scales'

Packages suggested but not available for checking: 'rmarkdown', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Invalid NAMESPACE file, parsing gives:
Error in utils::packageVersion("dplyr"): there is no package called 'dplyr'

See section 'Package namespaces' in the 'Writing R Extensions' manual.
Packages required but not available:
  'pracma', 'RCurl', 'seismicRoll', 'signal', 'stringr', 'XML'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'repr', 'evaluate', 'IRdisplay', 'pbdZMQ', 'crayon', 'jsonlite',
  'uuid', 'digest'

Packages suggested but not available for checking: 'testthat', 'roxygen2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages required but not available: 'geepack', 'data.table'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'MEMSS'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'scales', 'plyr', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Running examples in 'irrICC-Ex.R' failed
The error most likely occurred in:

> ### Name: ci.ICC1a
> ### Title: Confidence Interval of Intraclass Correlation Coefficient (ICC)
> ###   under ANOVA Model 1A.
> ### Aliases: ci.ICC1a
> 
> ### ** Examples
> 
> #iccdata3 is a small dataset that comes with the package. Use it as follows:
> library(irrICC)
> iccdata3 #see what the iccdata3 dataset looks like
  Subject Rater1 Rater2 Rater3
1       1     12     18     NA
2       2     14     12     13
3       3     19     17     21
4       4     24     30     NA
> ci.ICC1a(iccdata3)
Error in loadNamespace(x) : there is no package called 'plyr'
Calls: ci.ICC1a ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
Package required but not available: 'irr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'lpSolve'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'randomForestSRC', 'abind'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'shiny', 'fGarch'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'magrittr', 'shiny', 'shinydashboard', 'shinycssloaders', 'readxl',
  'mirt', 'psych', 'WrightMap', 'writexl', 'irtoys'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'sm', 'ltm'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'statmod', 'reshape2', 'dplyr', 'tidyr', 'purrr', 'ggplot2', 'rlang',
  'gridExtra', 'pbapply'

Package suggested but not available for checking: 'mirt'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'moments'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'lme4'
dendrify: no visible binding for global variable 'item'
dendrify: no visible binding for global variable 'node'
dendrify: no visible binding for global variable 'value'
exogenize: no visible binding for global variable 'item'
Undefined global functions or variables:
  item node value
Packages required but not available: 'ltm', 'mirt', 'fastGHQuad'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'shiny', 'shinyAce', 'beeswarm', 'CTT', 'ltm', 'psych'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'igraph', 'biclust'
Packages required but not available: 'gtools', 'stringr'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'dplyr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
isbf: no visible global function definition for 'var'
isbf: no visible global function definition for 'qnorm'
isbfReg: no visible global function definition for 'var'
isbfReg: no visible global function definition for 'qnorm'
Undefined global functions or variables:
  qnorm var
Consider adding
  importFrom("stats", "qnorm", "var")
to your NAMESPACE file.
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: 'VGAM'
Malformed Description field: should contain one or more complete sentences.
residualplot: no visible global function definition for 'predict'
residualplot: no visible global function definition for 'rstandard'
residualplot: no visible global function definition for
  'complete.cases'
residualplot: no visible global function definition for 'points'
residualplot: no visible global function definition for 'lines'
residualplot: no visible global function definition for 'smooth.spline'
residualplot: no visible global function definition for 'sd'
residualplot: no visible global function definition for 'rgb'
residualplot: no visible global function definition for 'polygon'
Undefined global functions or variables:
  complete.cases lines points polygon predict rgb rstandard sd
  smooth.spline
Consider adding
  importFrom("grDevices", "rgb")
  importFrom("graphics", "lines", "points", "polygon")
  importFrom("stats", "complete.cases", "predict", "rstandard", "sd",
             "smooth.spline")
to your NAMESPACE file.
Running examples in 'isdals-Ex.R' failed
The error most likely occurred in:

> ### Name: alligator
> ### Title: Alligator food preference
> ### Aliases: alligator
> ### Keywords: datasets
> 
> ### ** Examples
> 
> data(alligator)
> library(VGAM)
Error in library(VGAM) : there is no package called 'VGAM'
Execution halted
Packages required but not available:
  'ade4', 'geometry', 'geosphere', 'maptools', 'pdist', 'raster',
  'rgdal', 'sp', 'colorRamps', 'virtualspecies', 'rgl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'tibble', 'data.table', 'lubridate'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Xmisc', 'coda'

Packages suggested but not available for checking:
  'R2WinBUGS', 'BRugs', 'rjags', 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'qgraph', 'glmnet'

Package suggested but not available for checking: 'IsingSampler'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'plyr', 'magrittr', 'dplyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'glmnet'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'xlsx', 'rJava', 'xlsxjars'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'mvtnorm', 'matrixcalc', 'Formula', 'mixor', 'lme4'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Skipping vignette re-building
Packages suggested but not available for checking:
  'covr', 'ggplot2', 'knitr', 'magick', 'microbenchmark', 'rmarkdown',
  'sf', 'testthat', 'xml2'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
Running examples in 'isoband-Ex.R' failed
The error most likely occurred in:

> ### Name: iso_to_sfg
> ### Title: Convert isolines or isobands to sfg object
> ### Aliases: iso_to_sfg
> 
> ### ** Examples
> 
> library(sf)
Error in library(sf) : there is no package called 'sf'
Execution halted
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'Iso', 'isotone'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'raster', 'plyr', 'sp', 'magrittr', 'foreach'

Packages suggested but not available for checking:
  'dendextend', 'doParallel', 'dplyr', 'ggplot2', 'gridExtra',
  'kableExtra', 'knitr', 'pvclust', 'rmarkdown', 'rasterVis',
  'viridisLite'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'gtools', 'dplyr', 'plyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Title field: should not end in a period.
C.cal: no visible global function definition for 'as.stepfun'
bandwidth.choose.cv: no visible global function definition for 'isoreg'
g.density: no visible global function definition for 'as.stepfun'
g.density: no visible global function definition for 'dnorm'
h.density: no visible global function definition for 'dnorm'
iso.bt.unit: no visible global function definition for 'quantile'
iso.bt.unit.sub: no visible global function definition for 'isoreg'
iso.bt.unit.sub: no visible global function definition for 'as.stepfun'
iso.bt.wald.unit: no visible global function definition for 'var'
iso.ci: no visible global function definition for 'isoreg'
iso.ci.transform.unit: no visible global function definition for
  'as.stepfun'
Undefined global functions or variables:
  as.stepfun dnorm isoreg quantile var
Consider adding
  importFrom("stats", "as.stepfun", "dnorm", "isoreg", "quantile", "var")
to your NAMESPACE file.
Packages required but not available: 'circular', 'TSP', 'combinat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package unavailable to check Rd xrefs: 'Unicode'
Note: found 7418 marked UTF-8 strings
Packages required but not available: 'Rcpp', 'osqp'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Iso', 'xtable', 'Biobase', 'affy', 'ff'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'vegan'

Package suggested but not available for checking: 'proxy'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'IsoplotR', 'httpuv', 'jsonlite', 'later'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'futile.logger', 'RcppEigen'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/ISOpureRGuide.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'R.utils', 'magrittr', 'rlang', 'tidyselect', 'vctrs', 'tibble',
  'dplyr', 'tidyr', 'glue', 'stringr', 'purrr', 'future', 'lubridate',
  'readr', 'progress', 'UNF'

Packages suggested but not available for checking:
  'devtools', 'testthat', 'feather', 'readxl', 'openxlsx', 'xml2',
  'rhdf5', 'knitr', 'rmarkdown', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'latticeExtra', 'numDeriv', 'raster', 'rasterVis', 'sp', 'spaMM',
  'viridisLite'

Packages suggested but not available for checking:
  'gmp', 'magick', 'maps', 'maptools', 'RandomFields', 'rgeos',
  'rgdal', 'rgl', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Iso'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'nnls'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'coneproj'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'fgui', 'runjags', 'colorspace', 'ellipse', 'plotrix'

Package suggested but not available for checking: 'rgl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'Rcereal'

Packages suggested but not available for checking:
  'outliertree', 'jsonlite', 'readr'

Package which this enhances but not available for checking: 'SparseM'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'stringr'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'ibd'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'R6', 'Rdpack', 'BH'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'readxl', 'writexl', 'raster', 'dplyr', 'tidyr', 'RCurl', 'ggplot2',
  'maps', 'httr'

Packages suggested but not available for checking:
  'devtools', 'knitr', 'rmarkdown', 'rgdal'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'jsonlite', 'curl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'shinyBS', 'shinyWidgets', 'Cairo', 'ggplot2', 'gtools', 'shiny',
  'plotly', 'rstudioapi', 'data.table'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ConsensusClusterPlus', 'keras', 'tensorflow', 'philentropy'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/iSubGenGuide.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'qvalue', 'fastICA', 'JADE'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'reshape'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'sp', 'raster', 'maptools', 'rgeos'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'polycor', 'car'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'partitions', 'VGAM', 'ape', 'apTreeshape', 'geiger', 'gtools'

Depends: includes the non-default packages:
  'partitions', 'VGAM', 'MASS', 'ape', 'apTreeshape', 'geiger',
  'gtools'
Adding so many packages to the search path is excessive and importing
selectively is preferable.

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'RUnit', 'foreach'
Packages required but not available: 'quadprog', 'randtoolbox'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'iterators', 'gmp', 'arrangements'

Packages suggested but not available for checking:
  'foreach', 'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'iterators'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'iterators'

Package suggested but not available for checking: 'foreach'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Fgmutils', 'gsubfn', 'data.table', 'sqldf', 'plyr', 'randomcoloR',
  'rbokeh', 'ggplot2'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'network', 'circlize', 'RColorBrewer', 'reshape2', 'maps',
  'blockmodeling', 'igraph', 'dplyr', 'plyr', 'cowplot', 'ggplot2',
  'GGally', 'fastmatch', 'intergraph', 'sna', 'tnet', 'WDI',
  'networkDynamic'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'corpcor'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'NMF', 'pcalg', 'Rgraphviz'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'ggfortify', 'readr', 'chemometrics', 'tiff',
  'janitor', 'ggcorrplot', 'rlang', 'compositions', 'tidyr', 'broom',
  'tibble'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Formula', 'kernlab'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Formula', 'Rglpk', 'ncvreg', 'svMisc'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'plotfunctions'

Packages suggested but not available for checking:
  'knitr', 'xtable', 'sp', 'data.table'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'plyr', 'car', 'forecast', 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'R2jags', 'Matching'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ucminf', 'Formula'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'knitr', 'purrr', 'rsample'

Packages suggested but not available for checking: 'icsw', 'haven'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'gurobi'
Packages required but not available:
  'AER', 'coda', 'data.table', 'Rcpp', 'rgl', 'sandwich',
  'RcppArmadillo'

Packages suggested but not available for checking:
  'testthat', 'haven', 'MCMCpack', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Formula'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'randomForest', 'dplyr', 'rlang'

Package suggested but not available for checking: 'locClass'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Formula', 'reshape2', 'ggplot2'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Formula'

Packages suggested but not available for checking:
  'gurobi', 'slam', 'cplexAPI', 'lpSolveAPI', 'testthat', 'data.table',
  'splines2', 'knitr', 'rmarkdown', 'pander', 'AER', 'ggplot2',
  'gridExtra'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'AER', 'sandwich', 'lmtest'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Formula'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Formula'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'lmtest', 'sandwich', 'AER', 'Formula'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'car', 'Formula', 'lmtest'

Packages suggested but not available for checking:
  'AER', 'effects', 'knitr', 'insight', 'rmarkdown', 'sandwich',
  'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'lava', 'timereg'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'data.table', 'numDeriv', 'nleqslv', 'ahaz', 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'covr', 'forecast', 'spelling', 'testthat', 'lmtest'

Package which this enhances but not available for checking: 'texreg'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'plyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'trust'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'waveslim', 'fda', 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'extraDistr', 'rootSolve', 'foreach', 'doParallel'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'assertthat', 'R6'

Packages suggested but not available for checking:
  'coala', 'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'qvalue', 'dplyr', 'magrittr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ape', 'R6', 'Rcpp', 'zlibbioc', 'RcppArmadillo', 'RcppProgress',
  'Rhtslib'

Packages suggested but not available for checking:
  'coala', 'knitr', 'rmarkdown', 'scrm', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'imputeYn'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'partitions', 'DescTools', 'gmp', 'mvp', 'multicool'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'fBasics', 'Benchmarking', 'dplyr', 'ggplot2', 'foreach',
  'doParallel', 'reshape', 'tidyr', 'scales', 'plyr', 'rlang'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'corpcor', 'ClusterR', 'qvalue', 'lfa', 'irlba', 'rsvd'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/jackstraw.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Packages suggested but not available for checking:
  'knitr', 'dplyr', 'tidyr', 'ggplot2', 'rbenchmark', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Package required but not available: 'clue'

Packages suggested but not available for checking: 'ICS', 'ICSNP'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'formatR', 'glue'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rjags', 'coda'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'httr', 'dplyr', 'jsonlite'

Package suggested but not available for checking: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rjson', 'naturalsort'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'dplyr', 'testthat'
Note: found 1 marked UTF-8 string
Running examples in 'janeaustenr-Ex.R' failed
The error most likely occurred in:

> ### Name: austen_books
> ### Title: Tidy data frame of Jane Austen's 6 completed, published novels
> ### Aliases: austen_books
> 
> ### ** Examples
> 
> 
> library(dplyr)
Error in library(dplyr) : there is no package called 'dplyr'
Execution halted
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'dplyr', 'lifecycle', 'lubridate', 'magrittr', 'purrr', 'rlang',
  'stringi', 'stringr', 'snakecase', 'tidyselect', 'tidyr'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'sf', 'testthat', 'tibble', 'tidygraph'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'jsonlite', 'crul', 'tibble'

Packages suggested but not available for checking: 'testthat', 'vcr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'rjags', 'R2jags', 'ggplot2', 'ggExtra', 'gridExtra', 'mcmcplots'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'gtools'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'rJava'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'GA'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'evaluate', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'htmltools', 'htmlwidgets', 'reactR', 'stringr', 'magrittr', 'readr',
  'jsonlite', 'httpuv', 'mime', 'cli'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'stringr', 'RColorBrewer', 'maps', 'rworldmap', 'ggplot2', 'sp'

Package suggested but not available for checking: 'ncdf4'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'scales', 'ggplot2'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'gridExtra'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'igraph', 'png', 'ggplot2'

Package suggested but not available for checking: 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'rJava'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'pander'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'lpSolve', 'pcaPP', 'igraph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'renv', 'remotes', 'desc', 'docopt'

Packages suggested but not available for checking: 'testthat', 'withr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'org.Hs.eg.db', 'AnnotationDbi'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'kableExtra'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'fPortfolio', 'xts', 'caret', 'magrittr', 'tcltk2', 'zoo'

Packages suggested but not available for checking:
  'BurStFin', 'data.table', 'dplyr', 'DescTools', 'fAssets', 'fBasics',
  'forecast', 'FRAPO', 'h2o', 'iClick', 'keras', 'quantmod', 'rugarch',
  'tensorflow', 'tibble', 'timeDate', 'timeSeries', 'timetk'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'gee'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'igraph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rJava', 'JavaGD'

Package suggested but not available for checking: 'XLConnect'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'jiebaR'
Packages required but not available: 'jiebaRD', 'Rcpp'

Packages suggested but not available for checking:
  'knitr', 'testthat', 'devtools', 'rmarkdown', 'roxygen2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'sampling'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'lme4'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ellipse', 'mvtnorm', 'expm', 'matrixcalc', 'lvm4net', 'pROC',
  'network'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'GLMMadaptive', 'coda', 'Rcpp', 'matrixStats', 'ggplot2',
  'gridExtra', 'RcppArmadillo'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'pkgdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'doParallel', 'rstan', 'foreach', 'Rcpp', 'jagsUI', 'xtable',
  'shiny', 'Hmisc', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'statmod', 'pracma', 'reshape2', 'dplyr'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Formula', 'Rcpp', 'RcppArmadillo', 'roptim'

Packages suggested but not available for checking: 'testthat', 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'VGAM', 'statmod'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
powerLongSurv: no visible global function definition for 'qnorm'
powerLongSurv: no visible global function definition for 'pnorm'
Undefined global functions or variables:
  pnorm qnorm
Consider adding
  importFrom("stats", "pnorm", "qnorm")
to your NAMESPACE file.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
Malformed Description field: should contain one or more complete sentences.
BugReports field is not a suitable URL but contains an email address:
   use the Contact field instead
JBTest: no visible global function definition for 'pchisq'
generateSignificance: no visible global function definition for 'pnorm'
packages: no visible global function definition for 'install.packages'
shift: no visible global function definition for 'tail'
shift: no visible global function definition for 'head'
splitBy: no visible global function definition for 'head'
Undefined global functions or variables:
  head install.packages pchisq pnorm tail
Consider adding
  importFrom("stats", "pchisq", "pnorm")
  importFrom("utils", "head", "install.packages", "tail")
to your NAMESPACE file.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package which this enhances but not available for checking: 'xtable'
Packages suggested but not available for checking:
  'agricolae', 'coin', 'fastGraph'
Packages unavailable to check Rd xrefs: 'coin', 'fastGraph', 'agricolae'
Packages required but not available:
  'jmvcore', 'evaluate', 'rappdirs', 'httr', 'Rcpp', 'BH'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'R6', 'rlang', 'jsonlite', 'base64enc', 'stringi'

Packages suggested but not available for checking:
  'testthat', 'RProtoBuf', 'knitr', 'ggplot2', 'RColorBrewer'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'jmvcore', 'R6', 'car', 'multcomp', 'ggplot2', 'PMCMR', 'emmeans',
  'vcd', 'vcdExtra', 'GGally', 'BayesFactor', 'psych', 'GPArotation',
  'afex', 'mvnormtest', 'lavaan', 'ggridges', 'ROCR'

Packages suggested but not available for checking:
  'exact2x2', 'testthat', 'semPlot', 'carData', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'rjson'

Packages suggested but not available for checking:
  'jmv', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'plyr', 'TSP'

Package suggested but not available for checking: 'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
RE.ADT: no visible global function definition for 'sd'
RE.ADT: no visible global function definition for 'pnorm'
RE.Johnson: no visible global function definition for 'pnorm'
Undefined global functions or variables:
  pnorm sd
Consider adding
  importFrom("stats", "pnorm", "sd")
to your NAMESPACE file.
Packages required but not available:
  'lme4', 'JM', 'ggplot2', 'gridExtra', 'gtools', 'joineR', 'meta',
  'msm', 'statmod'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'cobs', 'doParallel', 'foreach', 'generics', 'ggplot2', 'lme4',
  'mvtnorm', 'randtoolbox', 'Rcpp', 'tibble', 'RcppArmadillo'

Packages suggested but not available for checking:
  'bindrcpp', 'dplyr', 'JM', 'joineR', 'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'statmod'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'glmnet', 'palasso', 'cornet'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

Packages which this enhances but not available for checking:
  'mice', 'earth', 'spls', 'MRCE', 'remMap',
  'MultivariateRandomForest', 'SiER', 'mcen', 'GPM', 'RMTL', 'MTPS'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'rjags', 'mcmcse', 'coda', 'rlang', 'future', 'foreach', 'mathjaxr'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'bookdown', 'ggplot2', 'ggpubr', 'testthat',
  'covr', 'doFuture'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'glasso'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'lme4', 'statmod'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'lpSolve', 'pcaPP', 'igraph', 'JGL', 'brainR', 'misc3d', 'oro.nifti',
  'shiny', 'rgl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'library' or 'require' call to 'stats' in package code.
  Please use :: or requireNamespace() instead.
  See section 'Suggested packages' in the 'Writing R Extensions' manual.
binteg: no visible global function definition for 'contourLines'
binteg: no visible global function definition for 'approx'
binteg: no visible global function definition for 'par'
plot1: no visible global function definition for 'par'
plot1: no visible global function definition for 'rect'
plot1: no visible global function definition for 'axis'
plot1: no visible global function definition for 'contour'
plot1: no visible global function definition for 'contourLines'
plot1: no visible binding for global variable 'approx'
plot1: no visible global function definition for 'lines'
plot1: no visible global function definition for 'text'
plot2: no visible global function definition for 'abline'
plot2: no visible global function definition for 'lines'
plot2: no visible global function definition for 'legend'
Undefined global functions or variables:
  abline approx axis contour contourLines legend lines par rect text
Consider adding
  importFrom("grDevices", "contourLines")
  importFrom("graphics", "abline", "axis", "contour", "legend", "lines",
             "par", "rect", "text")
  importFrom("stats", "approx")
to your NAMESPACE file.
Packages required but not available: 'acnr', 'matrixStats', 'DNAcopy'

Packages suggested but not available for checking:
  'PSCBS', 'R.cache', 'digest', 'changepoint', 'knitr', 'rmarkdown',
  'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'readxl', 'openxlsx', 'timeSeries', 'data.table', 'rChoiceDialogs',
  'R.utils', 'rJava', 'Rcpp', 'timeDate'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'lme4', 'ordinal'

Package suggested but not available for checking: 'mitml'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'SpATS', 'colorspace', 'fds', 'ggplot2', 'fields', 'spam', 'SemiPar'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'onion', 'emulator', 'mathjaxr'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'xtable'
Errors in running code in vignettes:
when running code in 'JoSAE.Rnw'
  ...

> names(d.data)[3] <- "mean.canopy.ht"

> result <- eblup.mse.f.wrap(domain.data = d.data, lme.obj = fit.lme)

> library(xtable)

  When sourcing 'JoSAE.R':
Error: there is no package called 'xtable'
Execution halted

  'JoSAE.Rnw' using 'UTF-8'... failed
Error(s) in re-building vignettes:
  ...
--- re-building 'JoSAE.Rnw' using Sweave
Loading required package: nlme

Error: processing vignette 'JoSAE.Rnw' failed with diagnostics:
 chunk 8 
Error in library(xtable) : there is no package called 'xtable'

--- failed re-building 'JoSAE.Rnw'

SUMMARY: processing the following file failed:
  'JoSAE.Rnw'

Error: Vignette re-building failed.
Execution halted
Packages required but not available: 'utf8', 'magrittr'

Package suggested but not available for checking: 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'openssl', 'jsonlite'

Packages suggested but not available for checking:
  'spelling', 'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'stringr', 'stringi', 'dplyr', 'purrr', 'tibble', 'rlang', 'httr',
  'shiny'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'data.table', 'tidyr',
  'rclipboard', 'tinytex', 'DT'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'doParallel', 'foreach'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rlang', 'data.table', 'glue', 'cli'

Packages suggested but not available for checking:
  'covr', 'janitor', 'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'leaflet', 'memoise', 'miniUI', 'purrr', 'rlang', 'sf', 'shiny',
  'tibble', 'units', 'magrittr', 'vctrs'

Packages suggested but not available for checking:
  'knitr', 'lintr', 'lwgeom', 'testthat', 'rmarkdown', 'vdiffr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'caret', 'pdist', 'randomForest'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'magrittr', 'lazyeval'

Packages suggested but not available for checking: 'jsonlite', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'htmltools'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'httpuv', 'jsonlite', 'stringr', 'stringi', 'mime', 'R6', 'R.utils'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'ape'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'directlabels', 'mirt', 'psych', 'irr', 'dplyr', 'tidyr', 'ggplot2',
  'ggsci'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'knitr', 'markdown', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages required but not available: 'V8', 'rstudioapi'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'coda', 'corrplot', 'RcppArmadillo', 'RcppGSL'

Packages suggested but not available for checking:
  'knitr', 'raster', 'sp', 'rmarkdown', 'bookdown', 'testthat', 'boral'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'gridExtra', 'survey', 'scales'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'rlang', 'dplyr', 'magrittr', 'purrr', 'glue', 'broom', 'tibble',
  'data.table', 'knitr'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'covr', 'roxygen2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'data.table', 'shiny', 'readxl', 'DT', 'jstable', 'labelled',
  'epiDisplay', 'GGally', 'ggplot2', 'haven', 'rstudioapi',
  'shinycustomloader', 'MatchIt', 'survey', 'tableone', 'jskm',
  'purrr', 'geepack', 'maxstat', 'survC1', 'survIDINRI', 'timeROC',
  'devEMF', 'shinyWidgets', 'pROC', 'Hmisc', 'see', 'readr',
  'RColorBrewer', 'Cairo', 'ggpubr'

Packages suggested but not available for checking:
  'testthat', 'shinytest', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'statmod', 'Rcpp', 'RcppEigen'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'jsonlite'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'RCurl', 'jsonlite'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'rapidjsonr'

Packages suggested but not available for checking:
  'covr', 'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'V8', 'jsonlite', 'curl'

Package suggested but not available for checking: 'spelling'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'httr', 'curl', 'plyr', 'testthat', 'knitr', 'rmarkdown', 'R.rsp',
  'sf'

VignetteBuilder packages required for checking but not installed:
  'knitr', 'R.rsp'
Package unavailable to check Rd xrefs: 'plyr'
Running examples in 'jsonlite-Ex.R' failed
The error most likely occurred in:

> ### Name: rbind_pages
> ### Title: Combine pages into a single data frame
> ### Aliases: rbind_pages
> 
> ### ** Examples
> 
> # Basic example
> x <- data.frame(foo = rnorm(3), bar = c(TRUE, FALSE, TRUE))
> y <- data.frame(foo = rnorm(2), col = c("blue", "red"))
> rbind_pages(list(x, y))
Error: Required package plyr not found. Please run: install.packages('plyr')
Execution halted
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > #This file runs all unit tests on every R CMD check.
  > #Comment this out to disable.
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'cli', 'dplyr', 'jsonlite', 'rlang'

Packages suggested but not available for checking: 'knitr', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'bit64', 'DBI', 'glue', 'jsonlite', 'magrittr', 'pillar', 'purrr',
  'rlang', 'RSQLite', 'tibble', 'tidyselect', 'vctrs', 'withr'

Packages suggested but not available for checking:
  'curl', 'dplyr', 'knitr', 'repurrrsive', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'V8'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'jdx', 'rJava', 'R6', 'curl'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'pander'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/jsr223.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'V8'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'geepack', 'lme4', 'data.table', 'labelled', 'tableone', 'coxme',
  'survey', 'dplyr', 'purrr', 'magrittr', 'tibble', 'car'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'tidyr', 'purrr', 'xml2', 'magrittr', 'stringr', 'readr',
  'tibble', 'rlang', 'furrr', 'pryr', 'crayon', 'cli'

Packages suggested but not available for checking:
  'testthat', 'covr', 'knitr', 'rmarkdown', 'future'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'htmlwidgets', 'jsonlite', 'htmltools', 'data.table'

Packages suggested but not available for checking:
  'testthat', 'covr', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'htmlwidgets', 'shiny', 'htmltools', 'rstudioapi', 'shinyAce',
  'miniUI', 'base64enc', 'R.utils'

Packages suggested but not available for checking: 'jsonlite', 'magrittr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'igraph', 'sparta', 'RcppArmadillo'

Package suggested but not available for checking: 'tinytest'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'crayon', 'generics', 'ggplot2', 'magrittr', 'pander', 'pkgconfig',
  'rlang', 'tibble'

Packages suggested but not available for checking:
  'broom', 'broom.mixed', 'ggstance', 'huxtable', 'kableExtra', 'lme4',
  'lmerTest', 'pbkrtest', 'RColorBrewer', 'sandwich', 'scales',
  'survey', 'weights', 'knitr', 'rmarkdown', 'testthat'

Packages which this enhances but not available for checking:
  'brms', 'quantreg', 'rstanarm'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'nortest', 'knitr'
qtls: no visible global function definition for 'quantile'
qtls: no visible global function definition for 'pnorm'
Undefined global functions or variables:
  pnorm quantile
Consider adding
  importFrom("stats", "pnorm", "quantile")
to your NAMESPACE file.
Package unavailable to check Rd xrefs: 'nortest'
Packages required but not available:
  'yaml', 'xts', 'zoo', 'readxl', 'data.table', 'dplyr'

Packages suggested but not available for checking:
  'knitr', 'tinytex', 'R.rsp', 'testthat', 'roxygen2', 'scales',
  'shape'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'knitr'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'rappdirs'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'magrittr', 'dplyr', 'purrr', 'pdftools', 'rvest', 'stringr',
  'SwimmeR', 'xml2'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppEigen'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Packages suggested but not available for checking:
  'testit', 'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'multcompView', 'emmeans', 'data.table', 'ggthemes', 'ggplot2',
  'ggpubr', 'mice', 'psych', 'rms', 'robustbase', 'quantreg', 'lavaan',
  'VGAM', 'lme4', 'extraoperators'

Packages suggested but not available for checking:
  'scales', 'foreach', 'testthat', 'covr', 'knitr', 'rmarkdown',
  'pander', 'GPArotation'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'knitr', 'magrittr', 'stringr', 'xml2', 'rvest', 'rmarkdown',
  'scales', 'viridisLite', 'htmltools', 'rstudioapi', 'glue',
  'webshot', 'digest', 'svglite'

Packages suggested but not available for checking:
  'testthat', 'magick', 'formattable', 'sparkline'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'abind', 'gtools', 'Rcpp', 'plyr'

Packages suggested but not available for checking:
  'testthat', 'clustMD', 'ggplot2', 'Hmisc'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'bigmemory', 'sqldf', 'biomaRt', 'KEGGgraph', 'CompQuadForm',
  'data.table', 'igraph'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'rcdd', 'gmp', 'lpSolve', 'Rglpk', 'slam', 'CVXR'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'affy', 'Biobase'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'reshape2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available: 'shiny', 'irr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'lpSolve', 'quadprog', 'kernlab'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'PresenceAbsence', 'maptools', 'rgeos', 'sp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Formula', 'coin'

Package suggested but not available for checking: 'locfit'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'tuneR', 'seewave'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'circular', 'MVN', 'tcltk2', 'tseriesChaos', 'stlplus', 'tseries',
  'forecast', 'stinepack', 'missForest', 'nonlinearTseries', 'zoo',
  'rgl', 'infotheo', 'plot3D'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'magrittr', 'forcats', 'dplyr', 'tidyr', 'stringr',
  'scales'

Packages suggested but not available for checking:
  'broom', 'knitr', 'purrr', 'rmarkdown', 'testthat', 'vdiffr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'pbdMPI'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'mvtnorm', 'snowfall', 'corpcor'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'pracma'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'RColorBrewer', 'roll', 'foreach', 'doParallel', 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'shiny', 'rhandsontable', 'dplyr', 'caret', 'FNN'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'shiny', 'rhandsontable', 'dplyr', 'caret', 'e1071'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'randtoolbox', 'BH', 'RcppEigen'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'locfit', 'qrng', 'Rcpp', 'quadprog', 'RcppArmadillo'

Packages suggested but not available for checking:
  'R.rsp', 'VineCopula', 'testthat'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'assertthat', 'univariateML', 'EQL'

Packages suggested but not available for checking:
  'extraDistr', 'SkewHyperbolic', 'testthat', 'covr', 'knitr',
  'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ape', 'distory', 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'qrng', 'cctools', 'kdecopula', 'VineCopula', 'doParallel',
  'foreach'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages unavailable to check Rd xrefs: 'nor1mix', 'ks', 'sm', 'locfit', 'orthopolynom'
Package suggested but not available for checking: 'Oarray'
Package unavailable to check Rd xrefs: 'Oarray'
Packages required but not available:
  'Hmisc', 'raster', 'reshape2', 'stringr', 'sp', 'xts', 'zoo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Bessel'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'dplyr', 'tibble', 'actuar'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
SeasonalMannKendall: no visible global function definition for 'is.ts'
SeasonalMannKendall: no visible global function definition for
  'frequency'
SeasonalMannKendall: no visible global function definition for 'cycle'
SeasonalMannKendall: no visible global function definition for 'pnorm'
Undefined global functions or variables:
  cycle frequency is.ts pnorm
Consider adding
  importFrom("stats", "cycle", "frequency", "is.ts", "pnorm")
to your NAMESPACE file.
Packages required but not available: 'lme4', 'metafor'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ltm', 'equateIRT', 'mirt'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'generics', 'reticulate', 'tensorflow', 'tfruns', 'magrittr',
  'zeallot', 'R6', 'rlang'

Packages suggested but not available for checking:
  'ggplot2', 'testthat', 'knitr', 'rmarkdown', 'tfdatasets', 'jpeg'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'reticulate'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'reticulate', 'tensorflow', 'rstudioapi', 'plotly', 'data.table',
  'RJSONIO', 'rjson', 'tidyjson', 'dplyr', 'echarts4r', 'crayon',
  'keras', 'magick'

Packages suggested but not available for checking:
  'knitr', 'tfdatasets', 'testthat', 'purrr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'date', 'chron', 'evir'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'testthat', 'nloptr', 'numDeriv', 'doParallel', 'doFuture'

Packages suggested but not available for checking:
  'DiceKriging', 'DiceDesign', 'inline', 'foreach', 'knitr', 'ggplot2',
  'reshape2', 'corrplot'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'future', 'future.apply'

Packages suggested but not available for checking:
  'covr', 'testthat', 'ks', 'cramer'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'randomForest', 'AUC', 'genalg', 'kernlab'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ks', 'sparr', 'sp', 'plyr', 'fastmatch', 'magrittr', 'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'inline', 'ManifoldOptim', 'JADE', 'ICtest', 'RcppArmadillo',
  'RcppEigen'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'testthat', 'covr', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'benchmarkme', 'directlabels', 'dplyr', 'ggplot2', 'gridExtra',
  'Hmisc', 'pbapply', 'rgdal', 'reshape2', 'wordspace'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'CompQuadForm', 'pracma', 'kernlab', 'lmtest',
  'RcppArmadillo'

Packages suggested but not available for checking:
  'bindata', 'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rgl', 'foreach', 'doParallel', 'GA'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'circular', 'mixtools'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'mvtnorm'

Packages suggested but not available for checking: 'gdata', 'org.Hs.eg.db'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'plotrix', 'rgl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'dplyr', 'fastmap', 'future.apply', 'ggplot2', 'ggrepel',
  'magrittr', 'matrixNormal', 'pgdraw', 'purrr', 'quanteda', 'rlang',
  'stringr', 'tibble', 'tidyr', 'RcppEigen', 'RcppProgress'

Packages suggested but not available for checking: 'readtext', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'Iso'

Package suggested but not available for checking: 'epade'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'dplyr', 'rlang', 'tibble'

Packages suggested but not available for checking:
  'covr', 'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'igraph', 'sna', 'matpow'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'assertthat', 'getPass', 'openssl', 'R6', 'sodium', 'yaml',
  'filelock', 'rappdirs'

Packages suggested but not available for checking:
  'callr', 'covr', 'mockery', 'testthat', 'withr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'stringr'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'htmltools', 'shiny', 'jsonlite'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'openssl', 'stringr', 'jsonlite'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'knitr', 'lme4', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/KFAS.Rnw'
(Is a VignetteBuilder field missing?)
Files named as vignettes but with no recognized vignette engine:
   'vignettes/KFAS.Rnw'
(Is a VignetteBuilder field missing?)
Running 'test-all.R'
Running the tests in 'tests/test-all.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package required but not available: 'kernlab'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'knitr'

Package suggested but not available for checking: 'ggplot2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'dlm', 'dse', 'FKF', 'KFAS', 'numDeriv', 'stsm'
Package unavailable to check Rd xrefs: 'stsm'
Running examples in 'KFKSDS-Ex.R' failed
The error most likely occurred in:

> ### Name: DS
> ### Title: Disturbance Smoother for State Space Models
> ### Aliases: DS DS.deriv
> ### Keywords: ts, model
> 
> ### ** Examples
> 
> # local level plus seasonal model with arbitrary parameter values
> # for the 'JohnsonJohnson' time series
> m <- stsm::stsm.model(model = "llm+seas", y = JohnsonJohnson, 
+   pars = c("var1" = 2, "var2" = 15, "var3" = 30))
Error in loadNamespace(x) : there is no package called 'stsm'
Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
Packages required but not available: 'kader', 'pracma', 'fdapace', 'fda'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'shiny', 'shinythemes', 'plyr'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'R6', 'pracma', 'pspline', 'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'rlang', 'RcppProgress', 'Rdpack'

Packages suggested but not available for checking:
  'testthat', 'covr', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'abind', 'deepnet', 'ggplot2', 'gridExtra', 'magrittr',
  'matrixStats', 'png', 'shiny', 'stringr'

Packages suggested but not available for checking:
  'jsonlite', 'shinyjs', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'scales', 'spacesXYZ'

Packages suggested but not available for checking:
  'covr', 'crayon', 'fansi', 'knitr', 'rmarkdown', 'testthat', 'vdiffr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'R6', 'data.table', 'stringr', 'purrr', 'jsonlite', 'rio', 'tibble',
  'dplyr', 'magrittr', 'tidyr', 'elastic', 'Biostrings', 'Rsamtools',
  'rtracklayer'

Packages suggested but not available for checking:
  'ggplot2', 'readr', 'xml2', 'yaml', 'testthat', 'rmarkdown', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages required but not available: 'memoise', 'plyr', 'pryr'

Package suggested but not available for checking: 'testthat'

Package which this enhances but not available for checking: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'data.table', 'remotes'

Packages suggested but not available for checking: 'ggplot2', 'moments'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
* DONE
Status: 1 ERROR
n the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'readr', 'shiny', 'shinythemes', 'ggrepel',
  'fitdistrplus', 'LaplacesDemon', 'here', 'tibble', 'magrittr',
  'plotly', 'dplyr', 'rlang', 'tidyselect', 'stringr'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'circular', 'lqmm', 'splancs', 'sp', 'plotrix'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'quadprog'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'git2r'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'kirby21.base'

Package suggested but not available for checking: 'kirby21.t1'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'kirby21.base'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'raster'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Bessel', 'kelvin', 'psd'

Packages suggested but not available for checking:
  'dplyr', 'tibble', 'RColorBrewer', 'signal', 'testthat', 'knitr',
  'rmarkdown', 'formatR', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/ResponseModels-knitr.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'beepr', 'dplyr', 'imager', 'magrittr', 'purrr', 'rvest', 'stringr',
  'tibble'

Packages suggested but not available for checking: 'spelling', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'tibble', 'jsonlite', 'lubridate', 'httr', 'dplyr', 'purrr'

Packages suggested but not available for checking:
  'ggplot2', 'knitr', 'rmarkdown', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'igraph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'combinat', 'questionr'

Packages suggested but not available for checking:
  'scatterplot3d', 'som', 'mlbench', 'e1071'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'tm', 'httr', 'jsonlite'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'xtable', 'psychometric', 'polycor'

Package which this enhances but not available for checking: 'rkward'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'chk', 'covr', 'testthat', 'tibble'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'coca', 'RColorBrewer', 'pheatmap'

Packages suggested but not available for checking:
  'Rmosek', 'tikzDevice', 'mclust', 'knitr', 'markdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'blink', 'plyr', 'Rcpp', 'stringi', 'SnowballC'

Packages suggested but not available for checking:
  'knitr', 'ggplot2', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'htmlwidgets', 'jsonlite'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package in Depends field not imported from: 'survival'
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
comp.npci: no visible global function definition for 'qnorm'
epband.fun: no visible global function definition for 'data'
epband.fun: no visible binding for global variable
  'critical.value.nair.90'
epband.fun: no visible binding for global variable
  'critical.value.nair.95'
epband.fun: no visible binding for global variable
  'critical.value.nair.99'
hall.wellner.fun: no visible global function definition for 'data'
hall.wellner.fun: no visible binding for global variable
  'critical.value.hall.90'
hall.wellner.fun: no visible binding for global variable
  'critical.value.hall.95'
hall.wellner.fun: no visible binding for global variable
  'critical.value.hall.99'
lrt.confints: no visible global function definition for 'qchisq'
rothman.fun: no visible global function definition for 'qnorm'
Undefined global functions or variables:
  critical.value.hall.90 critical.value.hall.95 critical.value.hall.99
  critical.value.nair.90 critical.value.nair.95 critical.value.nair.99
  data qchisq qnorm
Consider adding
  importFrom("stats", "qchisq", "qnorm")
  importFrom("utils", "data")
to your NAMESPACE file.
Packages required but not available: 'rootSolve', 'emplik', 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LinkingTo' for
  'Rcpp' 'RcppEigen'
are unused as they have no 'include' directory
dscore: no visible global function definition for 'glm'
dscore: no visible binding for global variable 'binomial'
dscore: no visible global function definition for 'pnorm'
pearson.group: no visible global function definition for 'cor'
spearman.group: no visible global function definition for 'cor'
sscore: no visible global function definition for 'glm'
sscore: no visible binding for global variable 'binomial'
sscore: no visible global function definition for 'pnorm'
Undefined global functions or variables:
  binomial cor glm pnorm
Consider adding
  importFrom("stats", "binomial", "cor", "glm", "pnorm")
to your NAMESPACE file.
Package required but not available: 'ggplot2'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'openssl', 'phylogram', 'Rcpp'

Packages suggested but not available for checking:
  'ape', 'dendextend', 'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'mitools'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'clv', 'rgl', 'misc3d', 'longitudinalData', 'kml'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'clv', 'longitudinalData'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'longitudinalData', 'kml'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
C_zero : <anonymous>: no visible global function definition for 'runif'
get_extra_centroid_index: no visible global function definition for
  'head'
get_within_cluster_ss: no visible global function definition for
  'aggregate'
kmod: no visible global function definition for 'head'
kmod: no visible global function definition for 'tail'
Undefined global functions or variables:
  aggregate head runif tail
Consider adding
  importFrom("stats", "aggregate", "runif")
  importFrom("utils", "head", "tail")
to your NAMESPACE file.
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'checkmate', 'cowplot', 'ggplot2', 'pammtools', 'tidyr'

Packages suggested but not available for checking:
  'broom', 'covr', 'devtools', 'knitr', 'rmarkdown', 'simsurv',
  'testthat', 'usethis'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'lpSolve'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'signal'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'RefManageR', 'digest', 'httr'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'knitr', 'rmarkdown', 'markdown'

Packages suggested but not available for checking:
  'testthat', 'roxygen2', 'corrplot', 'ggplot2', 'igraph', 'maps',
  'mapproj', 'maptools', 'plyr', 'reshape2', 'xtable'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'knitr', 'xfun'

Packages suggested but not available for checking:
  'gpg', 'rmarkdown', 'magrittr', 'shiny', 'miniUI', 'rstudioapi',
  'DT', 'digest'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'R6', 'R.oo'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'purrr', 'testthat', 'covr', 'mockr', 'withr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'evaluate', 'highr', 'markdown', 'stringr', 'yaml', 'xfun'

Packages suggested but not available for checking:
  'formatR', 'testit', 'digest', 'rgl', 'rmarkdown', 'htmlwidgets',
  'webshot', 'tikzDevice', 'tinytex', 'reticulate', 'JuliaCall',
  'magick', 'png', 'jpeg', 'gifski', 'xml2', 'httr', 'DBI', 'showtext',
  'tibble', 'sass', 'bslib', 'ragg', 'styler'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppEigen'

Packages suggested but not available for checking: 'testthat', 'FNN'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
benchmark.patchwork.copula : <anonymous> : <anonymous>: no visible
  global function definition for 'rbeta'
benchmark.patchwork.copula : <anonymous> : <anonymous>: no visible
  global function definition for 'runif'
calculate.power : <anonymous>: no visible binding for global variable
  'quantile'
generate.benchmark.data: no visible global function definition for
  'runif'
generate.benchmark.data: no visible global function definition for
  'rnorm'
generate.benchmark.data: no visible global function definition for
  'rbinom'
generate.patchwork.copula: no visible global function definition for
  'rbeta'
generate.patchwork.copula: no visible global function definition for
  'runif'
novelTest.chisq: no visible global function definition for 'pchisq'
novelTest.chisq4nn: no visible global function definition for 'pchisq'
optimise.copula.mi : <anonymous>: no visible global function definition
  for 'optimize'
power.plot: no visible global function definition for 'axis'
power.plot : <anonymous>: no visible global function definition for
  'points'
power.plot: no visible global function definition for 'legend'
roc.plot: no visible global function definition for 'colorRampPalette'
roc.plot : <anonymous> : <anonymous>: no visible global function
  definition for 'points'
run.tests : <anonymous> : <anonymous>: no visible global function
  definition for 'runif'
Undefined global functions or variables:
  axis colorRampPalette legend optimize pchisq points quantile rbeta
  rbinom rnorm runif
Consider adding
  importFrom("grDevices", "colorRampPalette")
  importFrom("graphics", "axis", "legend", "points")
  importFrom("stats", "optimize", "pchisq", "quantile", "rbeta",
             "rbinom", "rnorm", "runif")
to your NAMESPACE file.
Packages required but not available:
  'parallelDist', 'forecast', 'doParallel', 'foreach', 'plyr'

Packages suggested but not available for checking: 'tseries', 'tsibble'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'shiny', 'rmarkdown', 'dplyr', 'caret', 'e1071', 'rhandsontable',
  'psycho', 'FNN'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rdsdp', 'corpcor', 'glmnet', 'RSpectra', 'gtools'

Packages suggested but not available for checking:
  'knitr', 'testthat', 'rmarkdown', 'lars', 'ranger', 'stabs',
  'RPtests', 'doMC'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'seqminer', 'CompQuadForm', 'data.table', 'SPAtest'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'httr', 'jsonlite', 'base64enc', 'digest', 'lubridate', 'xts', 'zoo'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'fossil', 'plotrix', 'sp', 'vegan'

Packages suggested but not available for checking: 'raster', 'rgbif'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'randomForest', 'RRF', 'PRROC'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'base64enc', 'dplyr', 'httr', 'jsonlite', 'lubridate', 'purrr',
  'rlang', 'rstudioapi', 'stringr', 'tibble', 'tidyr'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'glmnet', 'knockoff', 'spcov', 'xgboost', 'Rdpack'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'rgl', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'jsonlite', 'httr', 'xts', 'zoo'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'bigmemory'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'pheatmap'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'glue', 'rlang', 'sf', 'stringr', 'tibble'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'rmarkdown'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'koRpus', 'sylly.en'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'sylly', 'data.table'

Packages suggested but not available for checking:
  'testthat', 'tm', 'SnowballC', 'shiny', 'knitr', 'rmarkdown',
  'koRpus.lang.de', 'koRpus.lang.en', 'koRpus.lang.es',
  'koRpus.lang.fr', 'koRpus.lang.it', 'koRpus.lang.nl',
  'koRpus.lang.pt', 'koRpus.lang.ru'

Package which this enhances but not available for checking: 'rkward'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'glmnet', 'ordinalNet'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'expm', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'leaps'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'pcalg', 'energy', 'kernlab', 'RSpectra', 'graph'

Packages suggested but not available for checking: 'Rgraphviz', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/kpcalg_tutorial.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'data.table', 'kernlab', 'RANN', 'proxy', 'gmp', 'emstreeR'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'matrixStats'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'ggplot2', 'dplyr', 'tibble', 'magrittr'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'Rcpp', 'coda'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'maps'
Malformed Description field: should contain one or more complete sentences.
image.kriging: no visible global function definition for 'heat.colors'
image.kriging: no visible global function definition for 'image'
kriging: no visible global function definition for 'lm'
plot.kriging: no visible global function definition for 'curve'
Undefined global functions or variables:
  curve heat.colors image lm
Consider adding
  importFrom("grDevices", "heat.colors")
  importFrom("graphics", "curve", "image")
  importFrom("stats", "lm")
to your NAMESPACE file.
Running examples in 'kriging-Ex.R' failed
The error most likely occurred in:

> ### Name: kriging
> ### Title: Ordinary Kriging
> ### Aliases: kriging
> ### Keywords: datagen models
> 
> ### ** Examples
> 
> # Krige random data for a specified area using a list of polygons
> library(maps)
Error in library(maps) : there is no package called 'maps'
Execution halted
Packages required but not available:
  'DiceKriging', 'randtoolbox', 'rgenoud', 'pbivnorm', 'anMC',
  'mvtnorm'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'pbapply', 'testthat'
Package unavailable to check Rd xrefs: 'pbapply'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package required but not available: 'rARPACK'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'kernlab', 'cvTools', 'robustbase'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'kyotil'

Package suggested but not available for checking: 'RUnit'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'SuppDists'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'doParallel', 'foreach', 'iterators', 'mclust'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'pryr'

Packages suggested but not available for checking:
  'ggplot2', 'gridExtra', 'mclust', 'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'gplots'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'amap', 'FactoClass', 'foreach', 'LICORS', 'testthat'
kselection: no visible global function definition for 'txtProgressBar'
kselection: no visible global function definition for
  'setTxtProgressBar'
plot.Kselection: no visible global function definition for 'lines'
plot.Kselection: no visible global function definition for 'legend'
Undefined global functions or variables:
  legend lines setTxtProgressBar txtProgressBar
Consider adding
  importFrom("graphics", "legend", "lines")
  importFrom("utils", "setTxtProgressBar", "txtProgressBar")
to your NAMESPACE file.
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Last 13 lines of output:
  > ##  the Free Software Foundation, either version 3 of the License, or
  > ##  (at your option) any later version.
  > ##
  > ##  This program is distributed in the hope that it will be useful,
  > ##  but WITHOUT ANY WARRANTY; without even the implied warranty of
  > ##  MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
  > ##  GNU General Public License for more details.
  > ##
  > ##  You should have received a copy of the GNU General Public License
  > ##  along with this program.  If not, see <http://www.gnu.org/licenses/>
  > ## 
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'Rcpp', 'dgof'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'dbscan', 'knitr', 'Rcssplot', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package required but not available: 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'expm', 'CompQuadForm', 'DEoptim'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'FNN', 'kernlab', 'mclust', 'multicool', 'mvtnorm', 'plot3D'

Packages suggested but not available for checking:
  'maps', 'misc3d', 'OceanView', 'oz', 'rgl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'tightClust'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'pks', 'stringr', 'sets', 'relations', 'kstMatrix'

Package suggested but not available for checking: 'kst'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages required but not available: 'proxy', 'relations', 'sets'

Package suggested but not available for checking: 'Rgraphviz'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'dplyr', 'dbscan', 'GSE'

Packages suggested but not available for checking:
  'jpeg', 'tclust', 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available: 'BB', 'nleqslv'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking: 'lme4', 'XML'
Malformed Description field: should contain one or more complete sentences.
'library' or 'require' call to 'XML' in package code.
  Please use :: or requireNamespace() instead.
  See section 'Suggested packages' in the 'Writing R Extensions' manual.
auc: no visible global function definition for 'approx'
kulife.colors: no visible global function definition for 'palette'
rootonorm: no visible global function definition for 'sd'
rootonorm: no visible global function definition for 'hist'
rootonorm: no visible global function definition for 'pnorm'
rootonorm: no visible global function definition for 'dnorm'
rootonorm: no visible global function definition for 'rect'
rootonorm: no visible global function definition for 'lines'
rootonorm: no visible global function definition for 'abline'
Undefined global functions or variables:
  abline approx dnorm hist lines palette pnorm rect sd
Consider adding
  importFrom("grDevices", "palette")
  importFrom("graphics", "abline", "hist", "lines", "rect")
  importFrom("stats", "approx", "dnorm", "pnorm", "sd")
to your NAMESPACE file.
Running examples in 'kulife-Ex.R' failed
The error most likely occurred in:

> ### Name: write.xml
> ### Title: Write a data frame in XML format
> ### Aliases: write.xml
> ### Keywords: file
> 
> ### ** Examples
> 
> data(trees)
> write.xml(trees, file="mydata.xml")
Loading required package: XML
Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE,  :
  there is no package called 'XML'
Error in write.xml(trees, file = "mydata.xml") : 
  package XML must be installed
Execution halted
Packages required but not available: 'xtable', 'plyr', 'openxlsx', 'RUnit'

Package suggested but not available for checking: 'rockchalk'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'hydroGOF'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'RUnit', 'R.rsp', 'lme4', 'xtable', 'abind', 'pracma', 'VGAM',
  'copula', 'mvtnorm', 'Hmisc', 'RColorBrewer', 'zoo', 'doParallel',
  'Exact', 'survey'

VignetteBuilder package required for checking but not installed: 'R.rsp'
Running examples in 'kyotil-Ex.R' failed
The error most likely occurred in:

> ### Name: DMHeatMap
> ### Title: Better Heatmap Function
> ### Aliases: DMHeatMap
> 
> ### ** Examples
> 
> 
> cor=matrix(runif(15),5,3)
> breaks=c(-1,-.7,-.5,-.3,-.1,.1,.3,.5,.7,1)
> hU=DMHeatMap(cor, trace="none", symm=FALSE,dendrogram="none", col=RColorBrewer::brewer.pal(
+     length(breaks)-1,"RdYlGn"), distfun = function(c) as.dist(1 - c), cexRow =1.5, cexCol =1.5, 
+     lmat=rbind( c(2, 1), c(4,3) ), lhei=c(4, 1 ), breaks=breaks, margins=c(2,2), key = FALSE, 
+     Rowv=NA, lower.left.only=FALSE)
Error in loadNamespace(x) : there is no package called 'RColorBrewer'
Calls: DMHeatMap ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
Package suggested but not available for checking: 'polynom'
Packages required but not available: 'digest', 'kzft'

Package suggested but not available for checking: 'polynom'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'polynom'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'ggplot2', 'reshape2', 'RcppArmadillo'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'pracma', 'raster'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'VGAM'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'mixtools', 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'mstate', 'colorspace', 'Rcpp', 'RcppEigen'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'fastmatrix'

Package suggested but not available for checking: 'heavy'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'igraph', 'NMI', 'glmnet', 'cvTools', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'fGarch', 'kedd', 'nor1mix'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rtsne'

Package suggested but not available for checking: 'optpart'

Package which this enhances but not available for checking: 'vegan'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Found the following hidden files and directories:
  .Rapp.history
These were most likely included in error. See section 'Package
structure' in the 'Writing R Extensions' manual.
Malformed Description field: should contain one or more complete sentences.
License components which are templates and need '+ file LICENSE':
  MIT
Packages required but not available:
  'haven', 'dplyr', 'lifecycle', 'rlang', 'vctrs', 'stringr', 'tidyr'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'questionr', 'snakecase', 'utf8',
  'covr', 'spelling'

Package which this enhances but not available for checking: 'memisc'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'yaml'

Packages suggested but not available for checking:
  'testthat', 'roxygen2', 'magrittr', 'rlang', 'covr', 'knitr',
  'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'pdist'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'combinat', 'lpSolve'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'Hmisc', 'knitr', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
Running 'tests-all.R'
Running the tests in 'tests/tests-all.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'sp', 'maptools', 'data.table', 'rgdal', 'rgeos', 'spdep'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'data.table', 'cld2', 'magrittr', 'stopwords', 'stringdist'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'knitr'

Package suggested but not available for checking: 'Rcmdr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'scatterplot3d', 'ggplot2'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'FrF2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'numDeriv', 'statmod'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'magrittr', 'dplyr', 'httr', 'jsonlite', 'janitor', 'sjmisc',
  'stringr'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'httptest', 'mockery'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'polynom', 'orthopolynom'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'spatstat', 'spatstat.geom', 'spatstat.linnet', 'spatstat.core',
  'RcppRoll'

Packages suggested but not available for checking:
  'raster', 'maptools', 'rgdal', 'cubature', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'L1pack'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package unavailable to check Rd xrefs: 'sampling'
Malformed Title field: should not end in a period.
LDuncan.aov : prob: no visible global function definition for 'qtukey'
LDuncan.aov: no visible global function definition for 'qtukey'
LScottKnott.aov : sk: no visible global function definition for
  'pchisq'
LScottKnott.aov: no visible global function definition for 'read.table'
LTukey.aov: no visible global function definition for 'qtukey'
Undefined global functions or variables:
  pchisq qtukey read.table
Consider adding
  importFrom("stats", "pchisq", "qtukey")
  importFrom("utils", "read.table")
to your NAMESPACE file.
Package required but not available: 'Rcpp'

Packages suggested but not available for checking: 'testthat', 'yaml'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library("testthat")
  Error in library("testthat") : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'dplyr', 'rappdirs', 'lazyeval', 'purrr', 'magrittr', 'sf', 'curl',
  'stringr', 'tibble', 'tidyr', 'memoise', 'rlang', 'progress', 'qs'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'devtools', 'R.rsp', 'printr',
  'ggplot2'

VignetteBuilder packages required for checking but not installed:
  'R.rsp', 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'tgp'

Packages suggested but not available for checking:
  'mvtnorm', 'akima', 'lhs', 'crs', 'DiceOptim'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'partykit', 'spatialreg', 'Formula'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'dplyr'

Packages suggested but not available for checking:
  'ggplot2', 'googleVis', 'data.table', 'vcd', 'reshape2', 'tidyr',
  'knitr', 'rmarkdown', 'car'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rLakeAnalyzer', 'plyr'

Package suggested but not available for checking: 'R2jags'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'rgdal', 'raster', 'rgeos', 'sp', 'geosphere'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'dplyr', 'reshape2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'mice', 'GPArotation', 'testthat'
Malformed Title field: should not end in a period.
'library' or 'require' calls in package code:
  'GPArotation' 'mice'
  Please use :: or requireNamespace() instead.
  See section 'Suggested packages' in the 'Writing R Extensions' manual.
angoff: no visible global function definition for 'cov2cor'
angoff: no visible global function definition for 'runif'
cov.lambda4: no visible global function definition for 'cov2cor'
cov.lambda4: no visible global function definition for 'median'
guttman: no visible global function definition for 'cov2cor'
impute.cov: no visible global function definition for 'cov'
impute.cov: no visible global function definition for 'complete'
impute.cov: no visible global function definition for 'mice'
kristof: no visible global function definition for 'cov2cor'
kristof: no visible global function definition for 'runif'
lambda1: no visible global function definition for 'cov2cor'
lambda2: no visible global function definition for 'cov2cor'
lambda3: no visible global function definition for 'cov2cor'
lambda3: no visible binding for global variable 'sd'
lambda5: no visible global function definition for 'cov2cor'
lambda6: no visible global function definition for 'cov2cor'
omega.tot: no visible global function definition for 'cov2cor'
omega.tot: no visible global function definition for 'factanal'
quant.lambda4: no visible global function definition for 'cov2cor'
quant.lambda4: no visible global function definition for 'runif'
quant.lambda4: no visible global function definition for 'quantile'
raju: no visible global function definition for 'cov2cor'
raju: no visible global function definition for 'runif'
user.lambda4: no visible global function definition for 'runif'
user.lambda4: no visible binding for global variable 'sd'
Undefined global functions or variables:
  complete cov cov2cor factanal median mice quantile runif sd
Consider adding
  importFrom("stats", "cov", "cov2cor", "factanal", "median", "quantile",
             "runif", "sd")
to your NAMESPACE file.
Running examples in 'Lambda4-Ex.R' failed
The error most likely occurred in:

> ### Name: omega.tot
> ### Title: Compute McDonald's Omega Total
> ### Aliases: omega.tot
> 
> ### ** Examples
> 
> omega.tot(Rosenberg, factors=1)
Loading required package: GPArotation
Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE,  :
  there is no package called 'GPArotation'
Error in omega.tot(Rosenberg, factors = 1) : 
  require(GPArotation) is not TRUE
Calls: omega.tot -> stopifnot
Execution halted
Running 'test-all.R'
Running the tests in 'tests/test-all.R' failed.
Complete output:
  > library("testthat")
  Error in library("testthat") : there is no package called 'testthat'
  Execution halted
Package required but not available: 'formatR'

Package suggested but not available for checking: 'testit'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'purrr', 'abind', 'ggplot2', 'readr', 'stringr', 'lubridate',
  'narray', 'bestNormalize', 'fANCOVA', 'imputeTS', 'modeest',
  'scales', 'tictoc', 'bizdays', 'torch'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'lamW', 'RColorBrewer', 'reshape2', 'Rcpp'

Packages suggested but not available for checking:
  'Rsolnp', 'nortest', 'numDeriv', 'testthat', 'data.table', 'moments',
  'knitr', 'markdown', 'vars'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages required but not available: 'CDM', 'Rcpp', 'sirt', 'RcppArmadillo'

Packages suggested but not available for checking:
  'coda', 'expm', 'numDeriv', 'STARTS', 'TAM'

Packages which this enhances but not available for checking:
  'lavaan', 'lme4'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppParallel'

Packages suggested but not available for checking: 'testthat', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'igraph', 'fdrtool', 'foreach', 'doParallel', 'GOstats', 'GOSemSim',
  'GGally', 'intergraph', 'ggplot2', 'modeest', 'Rcpp', 'mvtnorm',
  'pROC', 'BH'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'matrixStats', 'ranger', 'forestError', 'glmnet', 'mlr',
  'parallelMap', 'sp', 'rgdal', 'meteo', 'gdalUtils', 'raster'

Packages suggested but not available for checking:
  'geoR', 'ParamHelpers', 'mda', 'psych', 'spdep', 'fossil', 'xgboost',
  'plyr', 'kernlab', 'rjson', 'spatstat', 'spatstat.core', 'maptools',
  'maxlike', 'RCurl', 'aqp', 'deepnet', 'RSAGA', 'soiltexture',
  'snowfall', 'plotKML'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Kern.FUN: no visible global function definition for 'dnorm'
Prob.Covariate.ShortEvent: no visible global function definition for
  'bw.nrd'
optimize.mse.BW: no visible global function definition for 'optimize'
Undefined global functions or variables:
  bw.nrd dnorm optimize
Consider adding
  importFrom("stats", "bw.nrd", "dnorm", "optimize")
to your NAMESPACE file.
Packages required but not available: 'rgdal', 'sp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rgdal', 'sp', 'lmodel2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'cli', 'ggplot2', 'raster', 'Rcpp', 'sp', 'tibble', 'RcppArmadillo'

Packages suggested but not available for checking:
  'covr', 'dplyr', 'knitr', 'rgeos', 'rmarkdown', 'testthat'

Packages which this enhances but not available for checking:
  'stars', 'sf', 'terra'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'raster', 'Rcpp'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'raster', 'tibble', 'Rcpp'

Packages suggested but not available for checking:
  'testthat', 'covr', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'sp', 'Rcpp', 'mvtnorm', 'fields', 'splancs', 'sf', 'DBI', 'RSQLite',
  'foreach', 'doParallel', 'testthat'

Packages suggested but not available for checking:
  'testthat', 'shiny', 'shinyjs', 'DT', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'httr', 'jsonlite', 'attempt', 'curl'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'e1071', 'rms', 'Hmisc', 'zipfR', 'lme4', 'multcomp', 'lmerTest',
  'optimx'
Packages required but not available:
  'callr', 'collections', 'desc', 'fs', 'jsonlite', 'lintr', 'R6',
  'repr', 'roxygen2', 'stringi', 'styler', 'xml2', 'xmlparsedata'

Packages suggested but not available for checking:
  'covr', 'magrittr', 'mockery', 'processx', 'purrr', 'testthat',
  'withr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'tinytest'
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'dplyr', 'tidyr', 'reshape2', 'ggplot2', 'rlang', 'R.matlab'

Packages suggested but not available for checking:
  'covr', 'testthat', 'knitr', 'rmarkdown'

VignetteBuilder packages required for checking but not installed:
  'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'polynom', 'orthopolynom'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'LHD'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'devtools'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Formula'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'testthat', 'futile.logger', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'config.R'
  Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package required but not available: 'Rcpp'

Package suggested but not available for checking: 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'data.table', 'treemap', 'xlsx'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
betabreaker: no visible global function definition for 'predict'
coef.lars: no visible global function definition for 'predict'
cv.lars: no visible global function definition for 'predict'
cv.lars: no visible binding for global variable 'var'
error.bars: no visible global function definition for 'segments'
plot.lars: no visible global function definition for 'matplot'
plot.lars: no visible global function definition for 'title'
plot.lars: no visible global function definition for 'abline'
plot.lars: no visible global function definition for 'axis'
predict.lars: no visible global function definition for 'approx'
Undefined global functions or variables:
  abline approx axis matplot predict segments title var
Consider adding
  importFrom("graphics", "abline", "axis", "matplot", "segments",
             "title")
  importFrom("stats", "approx", "predict", "var")
to your NAMESPACE file.
Packages required but not available: 'lpSolve', 'ismev', 'foreach', 'doRNG'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'PGEE', 'mvtnorm', 'caret', 'SimCorMultRes', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Package suggested but not available for checking: 'snowfall'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'lars'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'glasso', 'glmnet'

Packages suggested but not available for checking: 'covTest', 'lars'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
File
  LICENSE
is not mentioned in the DESCRIPTION file.
Package required but not available: 'glmnet'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rdpack'

Package suggested but not available for checking: 'ltm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'pracma', 'glmnet', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'network', 'ergm', 'sna', 'mvtnorm', 'abind', 'coda',
  'statnet.common'

Packages suggested but not available for checking:
  'snowFT', 'rgl', 'heplots', 'rlecuyer', 'ergm.userterms'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'ade4'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'rlang'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'stringr', 'magrittr'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'ggplot2', 'plyr', 'rmarkdown', 'purrr',
  'tibble'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'Rdpack', 'R.utils', 'assertthat', 'foreach', 'data.table',
  'longitudinalData', 'magrittr', 'plyr', 'ggplot2', 'matrixStats',
  'stackoverflow', 'clusterCrit', 'mclustcomp', 'scales', 'caret',
  'lme4', 'mclust'

Packages suggested but not available for checking:
  'testthat', 'roxygen2', 'knitr', 'rmarkdown', 'kml', 'lcmm',
  'longclust', 'mixtools', 'flexmix', 'fda', 'funFEM', 'igraph',
  'crimCV', 'akmedoids', 'dtwclust', 'mixAK', 'psych', 'qqplotr',
  'doParallel'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'magrittr', 'stringr', 'mpoly', 'ggplot2', 'memoise', 'dplyr',
  'usethis', 'glue'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'spatstat', 'spatstat.geom', 'splancs', 'spdep', 'spam', 'sp',
  'spatialreg', 'sf'

Packages suggested but not available for checking:
  'knitr', 'devtools', 'roxygen2', 'testthat', 'rmarkdown', 'rgdal'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'png', 'jpeg', 'RColorBrewer'

Packages suggested but not available for checking:
  'maps', 'mapproj', 'deldir', 'tripack', 'quantreg', 'zoo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'spam', 'fields'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'latticeExtra'

Package which this enhances but not available for checking: 'chron'
Package unavailable to check Rd xrefs: 'zoo'
Packages required but not available: 'mnormt', 'pbivnorm', 'numDeriv'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'shiny', 'shinyAce', 'psych', 'lavaan', 'semPlot'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'lavaan', 'survey'

Packages suggested but not available for checking:
  'testthat', 'mice', 'mitools'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'fastGHQuad', 'pracma'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'numDeriv', 'SQUAREM'

Packages suggested but not available for checking:
  'Rgraphviz', 'data.table', 'ellipse', 'fields', 'foreach', 'geepack',
  'gof', 'graph', 'knitr', 'bookdown', 'rmarkdown', 'igraph',
  'lava.tobit', 'lavaSearch2', 'lme4', 'magrittr', 'mets', 'optimx',
  'polycor', 'quantreg', 'rgl', 'R.rsp', 'testthat', 'visNetwork',
  'zoo'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'lava', 'doParallel', 'multcomp', 'mvtnorm', 'Rcpp',
  'reshape2', 'sandwich', 'RcppArmadillo'

Packages suggested but not available for checking:
  'data.table', 'foreach', 'lme4', 'lmerTest', 'numDeriv', 'pbapply',
  'pbkrtest', 'R.rsp', 'riskRegression', 'testthat'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'glmnet', 'pracma'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'coda'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Kendall', 'mvtnorm', 'Rdpack'

Package suggested but not available for checking: 'fBasics'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'chandwich', 'numDeriv', 'revdbayes', 'sandwich'

Packages suggested but not available for checking:
  'distillery', 'evd', 'evir', 'extRemes', 'fExtremes', 'ismev',
  'knitr', 'mev', 'POT', 'rmarkdown', 'testthat', 'texmex'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'R6', 'fstcore', 'yaml'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'fst', 'rmarkdown', 'dipsaus'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'R6'

Package suggested but not available for checking: 'forecast'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'Rcpp', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'raster', 'vapour', 'quadmesh'

Packages suggested but not available for checking: 'palr', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'sf', 'DBI', 'tibble', 'dbplyr', 'magrittr', 'dplyr'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'checkmate', 'magrittr', 'plyr'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'readr', 'stringr', 'dplyr', 'lubridate', 'ggplot2', 'h2o',
  'ReinforcementLearning', 'openssl', 'lifecycle'

Packages suggested but not available for checking:
  'testthat', 'covr', 'magrittr', 'data.table', 'bit64'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Hmisc', 'labelVector'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'alabama', 'plotrix', 'scatterplot3d', 'rgl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'numDeriv', 'RcppArmadillo'

Packages suggested but not available for checking:
  'optimx', 'microbenchmark', 'testthat', 'knitr', 'pkgbuild',
  'rmarkdown', 'RcppArmadillo'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'actuar'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'gridExtra', 'plotrix', 'Rcpp', 'RColorBrewer',
  'shiny', 'tidyr'

Packages suggested but not available for checking:
  'colorspace', 'knitr', 'scales', 'shinyBS', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'mvtnorm', 'rms', 'kinship2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'shiny', 'trekcolors'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'covr', 'png', 'ggrepel',
  'showtext', 'leaflet', 'leaflet.extras'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'poLCA', 'foreach', 'doParallel', 'GA', 'memoise'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'hnp', 'doSNOW', 'doRNG', 'foreach'

Packages suggested but not available for checking:
  'roxygen2', 'covr', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'poLCA'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'quadprog'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'MCMCpack', 'mvtnorm'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'BH'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/lclGWAS.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'NormPsy'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages required but not available: 'sf', 'igraph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'copula', 'Rcpp', 'pcaPP'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'fdapace'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'plyr', 'numDeriv'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rlang', 'coda', 'rjags'

Packages suggested but not available for checking: 'R2WinBUGS', 'gtools'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'lavaan', 'dplyr', 'tibble', 'magrittr', 'rlang', 'tidyr', 'ggplot2',
  'broom', 'semPlot', 'stringr', 'purrr', 'data.table', 'utf8'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'shiny'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'sp', 'reshape', 'weights', 'pscl'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'quantmod', 'TTR', 'xts', 'zoo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'RUnit', 'data.table', 'entropy', 'foreach', 'iterators', 'iterpc',
  'kSamples', 'car', 'gmp'

Packages suggested but not available for checking:
  'doMC', 'knitr', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'batchtools', 'checkmate', 'colorspace', 'data.table', 'dendextend',
  'fs', 'future', 'lda', 'parallelMap', 'progress'

Packages suggested but not available for checking:
  'RColorBrewer', 'testthat', 'tosca'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'reshape2', 'ggplot2', 'penalized'
Packages required but not available:
  'beepr', 'broom', 'chinese.misc', 'dplyr', 'DT', 'highcharter',
  'htmlwidgets', 'ldatuning', 'plotly', 'purrr', 'quanteda', 'shiny',
  'shinyalert', 'shinyBS', 'shinycssloaders', 'shinydashboard',
  'shinyjs', 'shinyWidgets', 'SnowballC', 'stringr', 'textmineR',
  'tidyr', 'tidytext', 'tm', 'topicmodels'

Packages suggested but not available for checking:
  'knitr', 'RColorBrewer', 'rmarkdown', 'Rmpfr', 'scales', 'magrittr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'lvec', 'Rcpp', 'BH'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'coda', 'digest', 'extraDistr', 'lubridate', 'magrittr', 'memoise',
  'mvtnorm', 'progress', 'topicmodels', 'viridis'

Packages suggested but not available for checking:
  'knitr', 'pkgdown', 'rmarkdown', 'testthat', 'vdiffr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'topicmodels', 'slam', 'Rmpfr', 'ggplot2', 'reshape2', 'scales'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'tibble'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'proxy', 'RJSONIO'

Packages suggested but not available for checking:
  'mallet', 'lda', 'topicmodels', 'gistr', 'servr', 'shiny', 'knitr',
  'rmarkdown', 'digest', 'htmltools'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/details.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'RANN', 'mnormt'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'genetics', 'snpStats', 'Rcpp'

Packages suggested but not available for checking:
  'rtracklayer', 'GenomicRanges', 'GenomeInfoDb', 'IRanges', 'ggplot2',
  'vcfR'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ecd', 'optimx', 'xts', 'zoo', 'moments', 'scales', 'ggplot2'

Packages suggested but not available for checking:
  'knitr', 'testthat', 'depmixS4', 'roxygen2', 'R.rsp', 'shape'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'httr'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'spelling'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'keras', 'devtools', 'reticulate', 'tensorflow'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rsolnp', 'Rmpfr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'nleqslv'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'GrassmannOptim'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'dr'
Running examples in 'LDRTools-Ex.R' failed
The error most likely occurred in:

> ### Name: AOP
> ### Title: Function to Average Orthogonal Projection Matrices
> ### Aliases: AOP
> ### Keywords: multivariate
> 
> ### ** Examples
> 
> ## Ex.1
> ##
> library(dr)
Error in library(dr) : there is no package called 'dr'
Execution halted
Packages required but not available:
  'Rcpp', 'foreach', 'doParallel', 'ashr', 'corrplot', 'lpSolve',
  'abind', 'modeest', 'matrixStats', 'RcppArmadillo'

Packages suggested but not available for checking:
  'testthat', 'covr', 'knitr', 'rmarkdown', 'updog',
  'VariantAnnotation'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'data.table', 'foreach', 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'GA', 'knitr', 'rmarkdown', 'testthat', 'ggplot2', 'patchwork',
  'doFuture', 'future'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'plyr', 'R6'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'base64enc', 'htmltools', 'htmlwidgets', 'leaflet', 'raster', 'sf',
  'png'

Packages suggested but not available for checking:
  'clipr', 'gdalUtils', 'leafgl', 'mapdeck', 'plainview', 'stars'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'geojsonsf', 'htmltools', 'jsonify', 'leaflet', 'sf'

Packages suggested but not available for checking:
  'colourvalues', 'shiny', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'leaflet', 'htmltools', 'base64enc', 'knitr'

Package suggested but not available for checking: 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'htmltools', 'magrittr', 'sp', 'jsonlite', 'leaflet', 'rgeos'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'leaflet', 'leaflet.extras', 'htmltools'

Package suggested but not available for checking: 'htmlwidgets'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'leaflet', 'htmltools', 'magrittr'

Packages suggested but not available for checking:
  'jsonlite', 'shiny', 'sf', 'geojsonsf', 'sp', 'testthat', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'leaflet', 'htmlwidgets', 'htmltools', 'stringr', 'magrittr'

Packages suggested but not available for checking: 'jsonlite', 'readr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'leaflet', 'htmltools'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'dplyr', 'shiny', 'manipulateWidget',
  'testthat', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'htmlwidgets', 'htmltools'

Packages suggested but not available for checking:
  'leaflet', 'testthat', 'magrittr', 'raster', 'rgdal', 'covr',
  'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'htmltools', 'htmlwidgets'

Packages suggested but not available for checking:
  'leaflet', 'raster', 'rgdal', 'magrittr', 'testthat', 'knitr',
  'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'V8', 'jsonlite', 'testthat'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'base64enc', 'crosstalk', 'htmlwidgets', 'htmltools', 'magrittr',
  'markdown', 'png', 'RColorBrewer', 'raster', 'scales', 'sp',
  'viridis', 'leaflet.providers'

Packages suggested but not available for checking:
  'knitr', 'maps', 'sf', 'shiny', 'rgdal', 'rgeos', 'R6', 'RJSONIO',
  'purrr', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'brew', 'jsonlite'

Packages suggested but not available for checking: 'httr', 'rgdal', 'sp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'htmltools', 'htmlwidgets', 'jsonlite', 'leaflet', 'sf'

Package suggested but not available for checking: 'testthat'

Packages which this enhances but not available for checking:
  'geojsonio', 'mapedit', 'mapview', 'shiny'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'base64enc', 'brew', 'htmltools', 'htmlwidgets', 'sf', 'svglite',
  'uuid'

Packages suggested but not available for checking: 'leaflet', 'sp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'htmltools', 'htmlwidgets', 'leaflet'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'leaflet', 'htmlwidgets', 'htmltools'

Package suggested but not available for checking: 'geojsonio'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'httr', 'xml2', 'jsonlite'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'covr', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'igraph', 'foreach'

Packages suggested but not available for checking:
  'knitr', 'doMC', 'rmarkdown', 'ROCR', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'alabama'

Package suggested but not available for checking: 'rjags'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'sva', 'corpcor'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'ggplot2'
Errors in running code in vignettes:
when running code in 'LEAP_Vignette.Rnw'
  ...

> data$lag_bin = factor(lag_bin, levels = c(">175", 
+     "151-175", "126-150", "101-125", "76-100", "51-75", "41-50", 
+     "31-40", "21-30", "11-2 ..." ... [TRUNCATED] 

> library(ggplot2)

  When sourcing 'LEAP_Vignette.R':
Error: there is no package called 'ggplot2'
Execution halted

  'LEAP_Vignette.Rnw'... failed
Error(s) in re-building vignettes:
  ...
--- re-building 'LEAP_Vignette.Rnw' using Sweave

Error: processing vignette 'LEAP_Vignette.Rnw' failed with diagnostics:
 chunk 10 
Error in library(ggplot2) : there is no package called 'ggplot2'

--- failed re-building 'LEAP_Vignette.Rnw'

SUMMARY: processing the following file failed:
  'LEAP_Vignette.Rnw'

Error: Vignette re-building failed.
Execution halted
Package suggested but not available for checking: 'biglm'
Packages required but not available:
  'conicfit', 'doParallel', 'foreach', 'jpeg', 'opencpu'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'magick'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'
'LazyData' is specified without a 'data' directory
Packages required but not available: 'magick', 'crayon'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'plyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'data.table', 'readxl', 'haven', 'readODS'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'gtools', 'phytools'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'roxygen2', 'knitr', 'devtools', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages required but not available:
  'withr', 'rappdirs', 'rprojroot', 'jsonlite', 'htmltools',
  'htmlwidgets', 'evaluate', 'knitr', 'markdown', 'shiny', 'rmarkdown',
  'ellipsis', 'checkmate', 'renv'

Packages suggested but not available for checking:
  'testthat', 'callr', 'rlang'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'shiny', 'Rcmdr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'gdistance', 'raster', 'rgdal', 'rgeos', 'sp', 'pbapply'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'spdep'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'rio', 'rlang', 'stringr', 'tidyr', 'tibble', 'tidyselect'

Packages suggested but not available for checking: 'covr', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'RCurl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'glmmTMB', 'lme4', 'MuMIn', 'pscl', 'SparseM', 'stringr',
  'VGAM', 'RcppArmadillo'

Packages suggested but not available for checking:
  'knitr', 'popbio', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'httr', 'jsonlite'

Packages suggested but not available for checking:
  'curl', 'httptest', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'curl', 'dplyr'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'knitr', 'magrittr', 'purrr', 'stringr',
  'tibble'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'formula.tools', 'pROC', 'foreach', 'snow', 'doSNOW', 'iterators',
  'Hmisc', 'RColorBrewer', 'glmnet'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'testthat', 'covr'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'readr', 'rlang', 'stringr', 'glue', 'httr', 'dplyr', 'rappdirs'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'devtools', 'pacman'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'igraph', 'Matrix.utils', 'Rcpp', 'sccore', 'RcppArmadillo',
  'RcppEigen'

Packages suggested but not available for checking: 'pbapply', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'reticulate', 'igraph'

Packages suggested but not available for checking:
  'bipartite', 'covr', 'data.table', 'devtools', 'graphsim', 'knitr',
  'multiplex', 'multinet', 'markdown', 'network', 'RColorBrewer',
  'rmarkdown', 'spelling', 'testthat', 'tibble'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'abind', 'RcppArmadillo'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'plyr', 'gridExtra', 'gtable', 'knitr', 'scales', 'rlang'

Packages suggested but not available for checking:
  'rmarkdown', 'stringr', 'dplyr', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'magrittr', 'tidyselect', 'rlang'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'covr', 'roxygen2', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ncdf4', 'raster'

Packages suggested but not available for checking:
  'covr', 'knitr', 'maptools', 'rmarkdown', 'sf', 'sp', 'testthat',
  'viridis'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'latticeExtra', 'robustbase', 'ellipse', 'leaps', 'openxlsx',
  'colorspace', 'knitr', 'viridisLite'

Packages suggested but not available for checking:
  'rmarkdown', 'wesanderson', 'haven', 'triangle'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
Package unavailable to check Rd xrefs: 'MESS'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'raster', 'maps', 'XML', 'geosphere', 'fields', 'maptools', 'sp',
  'rgdal', 'rgeos'

Packages suggested but not available for checking: 'testthat', 'devtools'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Note: found 3 marked UTF-8 strings
Packages required but not available: 'data.table', 'syuzhet'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'data.table', 'pbapply', 'quanteda', 'quanteda.textstats',
  'stringdist', 'stringi', 'tibble'

Packages suggested but not available for checking:
  'corpustools', 'covr', 'diffobj', 'dplyr', 'RSQLite', 'testthat',
  'tidytext', 'tm', 'kableExtra', 'knitr', 'pdftools', 'rmarkdown',
  'spelling', 'striprtf', 'xml2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'dplyr', 'tidyr'

Packages suggested but not available for checking: 'knitr', 'HMDHFDplus'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'SnowballC', 'igraph', 'Rcpp'

Packages suggested but not available for checking:
  'covr', 'testthat', 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'plyr', 'rARPACK'

Packages suggested but not available for checking: 'testthat', 'rgl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'matrixStats', 'R6'

Packages suggested but not available for checking: 'LFDR.MLE', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Formula', 'xtable', 'sandwich'

Packages suggested but not available for checking:
  'knitr', 'digest', 'igraph', 'plm', 'cubature', 'numDeriv',
  'data.table', 'alpaca', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/biascorrection.Rnw'
   'inst/doc/identification.Rnw'
   'inst/doc/lfehow.Rnw'
   'inst/doc/speed.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'foreach', 'forecast', 'plyr', 'tseries', 'e1071', 'zoo'

Packages suggested but not available for checking:
  'testthat', 'doMC', 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'foreach', 'rmarkdown', 'knitr', 'RSpectra', 'ggplot2', 'readr',
  'purrr', 'Rcpp', 'RcppEigen'

Package suggested but not available for checking: 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'xts', 'lmom', 'lmomRFA', 'dygraphs', 'zoo', 'latticeExtra', 'plyr'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'zoo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'spatstat.geom', 'spatstat.core', 'spatstat', 'spatstat.utils', 'sp',
  'raster', 'RandomFields', 'iterators', 'ncdf4', 'rpanel', 'fields',
  'maptools', 'rgeos'

Packages suggested but not available for checking:
  'sparr', 'rgdal', 'gpclib'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'CompQuadForm', 'SKAT', 'geeM', 'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'mvtnorm', 'localgauss', 'logspline', 'ggplot2', 'ks', 'np',
  'tseries'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'ggplot2'
Packages required but not available: 'data.table', 'lgr'

Packages suggested but not available for checking:
  'covr', 'DBI', 'gmailr', 'jsonlite', 'RMariaDB', 'RPostgres',
  'RPushbullet', 'RSQLite', 'rsyslog', 'sendmailR', 'testthat',
  'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'CompQuadForm', 'SKAT', 'geepack'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'R6'

Packages suggested but not available for checking:
  'cli', 'covr', 'crayon', 'data.table', 'desc', 'future',
  'future.apply', 'glue', 'jsonlite', 'knitr', 'rmarkdown', 'rotor',
  'rprojroot', 'testthat', 'tibble', 'whoami', 'yaml'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'numbers'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'devtools'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Packages suggested but not available for checking:
  'testthat', 'assertthat', 'DoE.base', 'knitr', 'rmarkdown', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'phangorn', 'RColorBrewer', 'ape', 'plyr', 'matlab', 'biomaRt',
  'distances', 'arules', 'e1071', 'proxy', 'gplots'

Packages suggested but not available for checking:
  'mclust', 'fpc', 'NbClust', 'modeest', 'pastecs', 'vegan'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'data.table', 'curl', 'pbapply', 'stringr', 'xml2'

Packages suggested but not available for checking:
  'assertr', 'testthat', 'knitr', 'magrittr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
* DONE
Status: 1 ERROR
ting R Extensions'
manual.
Package required but not available: 'mvtnorm'

Package suggested but not available for checking: 'coin'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'Rcpp', 'testthat'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages suggested but not available for checking: 'SparseM', 'testthat'
Package unavailable to check Rd xrefs: 'LiblineaR'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package suggested but not available for checking: 'SparseM'
Package required but not available: 'nnls'

Packages suggested but not available for checking: 'lars', 'igraph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'BiocManager', 'remotes'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'covr', 'testthat'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'readr', 'readxl', 'haven', 'openxlsx', 'crayon', 'dplyr', 'tibble'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'magrittr', 'logr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'Rcpp', 'RcppGSL'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'RColorBrewer', 'mvtnorm', 'zoo', 'FNN', 'fields', 'locfit'

Packages suggested but not available for checking:
  'huge', 'RANN', 'yaImpute', 'itertools'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'sp', 'raster', 'imager', 'leaps', 'gvlma', 'car', 'reldist', 'lidR'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'raster', 'sp', 'data.table', 'future', 'geometry', 'glue',
  'lazyeval', 'Rcpp', 'RCSF', 'rgeos', 'rgdal', 'rgl', 'rlas', 'sf',
  'BH', 'RcppArmadillo'

Packages suggested but not available for checking:
  'EBImage', 'concaveman', 'crayon', 'gstat', 'hexbin', 'mapview',
  'mapedit', 'progress', 'testthat', 'knitr', 'rmarkdown', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'markovchain', 'Rcpp'

Packages suggested but not available for checking:
  'demography', 'forecast', 'testthat', 'knitr', 'formatR', 'StMoMo',
  'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'TraMineR'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'glue', 'rlang'

Packages suggested but not available for checking:
  'covr', 'crayon', 'knitr', 'rmarkdown', 'testthat', 'tibble'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Hmisc', 'optimx', 'BB'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'R6', 'MortalityTables', 'objectProperties', 'lubridate', 'openxlsx',
  'dplyr', 'scales', 'abind', 'stringr', 'rlang'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'pander', 'kableExtra', 'magrittr', 'tibble',
  'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'shiny', 'dplyr', 'lubridate', 'modelr', 'stringr',
  'tidyr', 'lazyeval', 'R6', 'fitbitScraper', 'tibble', 'plyr'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'mclust'

Packages suggested but not available for checking:
  'gWidgets', 'gWidgetsRGtk2', 'RGtk2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'adlift', 'nlt'

Package suggested but not available for checking: 'fracdiff'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'yaml', 'knitr', 'rmarkdown', 'stringr', 'rstudioapi'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'curl', 'httr', 'assertthat', 'jsonlite', 'crayon'

Packages suggested but not available for checking:
  'covr', 'knitr', 'rmarkdown', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'matrixStats', 'RcppArmadillo'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'R6', 'data.table', 'jsonlite'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'RJSONIO', 'RCurl', 'R6', 'httr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'future.apply', 'progressr', 'xml2'

Packages suggested but not available for checking:
  'digest', 'knitr', 'pavo', 'rmarkdown', 'spelling', 'testthat',
  'withr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'magrittr', 'shiny', 'shinyjs'

Packages suggested but not available for checking:
  'knitr', 'testthat', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'R6', 'purrr', 'tibble', 'dplyr', 'RSelenium', 'raster', 'magrittr',
  'rvest', 'xml2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'sn', 'moments', 'BB', 'Bolstad2', 'optimx', 'Rmpfr'

Depends: includes the non-default packages:
  'sn', 'moments', 'BB', 'Bolstad2', 'optimx', 'Rmpfr'
Adding so many packages to the search path is excessive and importing
selectively is preferable.

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'cond', 'digest', 'nleqslv', 'Rsolnp', 'alabama', 'pracma'

Packages suggested but not available for checking: 'lme4', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/likelihoodAsy.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'lazyeval', 'plyr'

Package suggested but not available for checking: 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'DEoptim', 'ggplot2', 'gtools', 'rtf', 'gdata'

Packages suggested but not available for checking: 'svUnit', 'scales'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'xtable', 'psych', 'reshape2', 'gridExtra', 'plyr'

Packages suggested but not available for checking: 'devtools', 'shiny'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'car', 'caret', 'dplyr', 'gbm', 'ggplot2', 'glmnet', 'h2o', 'impute',
  'infotheo', 'limma', 'M3C', 'Metrics', 'MLmetrics', 'pathifier',
  'pathview', 'plyr', 'preprocessCore', 'pROC', 'RCy3', 'reticulate',
  'reshape', 'RWeka', 'scales', 'stringr', 'survminer'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ddpcr', 'dplyr', 'knitr', 'pracma', 'progress', 'rlang', 'tidyr'

Package suggested but not available for checking: 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'FNN', 'stringi', 'beepr', 'ggplot2', 'keras', 'dplyr', 'readr',
  'textclean', 'tm', 'e1071', 'SnowballC', 'data.table', 'fastmatch',
  'neuralnet'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'glmnet', 'ggplot2', 'stringi', 'Rcpp', 'assertthat', 'gower',
  'RcppEigen'

Packages suggested but not available for checking:
  'xgboost', 'testthat', 'mlr', 'h2o', 'text2vec', 'covr', 'knitr',
  'rmarkdown', 'sessioninfo', 'magick', 'keras', 'htmlwidgets',
  'shiny', 'shinythemes', 'ranger'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
plotBox: no visible global function definition for 'sd'
plotBox: no visible global function definition for 'rect'
plotBox: no visible global function definition for 'qnorm'
plotBox: no visible global function definition for 'segments'
plotInit: no visible global function definition for 'runif'
plotInit: no visible global function definition for 'mtext'
plotInit: no visible global function definition for 'segments'
plotStack: no visible global function definition for 'points'
Undefined global functions or variables:
  mtext points qnorm rect runif sd segments
Consider adding
  importFrom("graphics", "mtext", "points", "rect", "segments")
  importFrom("stats", "qnorm", "runif", "sd")
to your NAMESPACE file.
'LazyData' is specified without a 'data' directory
Packages required but not available: 'limSolve', 'diagram'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'quadprog', 'lpSolve'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
class.calib: no visible global function definition for 'lm'
class.calib: no visible global function definition for 'coef'
class.calib: no visible global function definition for 'qt'
hoad.calib: no visible global function definition for 'lm'
hoad.calib: no visible global function definition for 'anova'
hoad.calib: no visible global function definition for 'qt'
hoad.calib: no visible global function definition for 'rnorm'
huntlam.calib: no visible global function definition for 'lm'
huntlam.calib: no visible global function definition for 'anova'
huntlam.calib: no visible global function definition for 'rnorm'
huntlam.calib: no visible global function definition for 'qnorm'
inver.calib: no visible global function definition for 'lm'
inver.calib: no visible global function definition for 'coef'
inver.calib: no visible global function definition for 'anova'
inver.calib: no visible global function definition for 'qnorm'
Undefined global functions or variables:
  anova coef lm qnorm qt rnorm
Consider adding
  importFrom("stats", "anova", "coef", "lm", "qnorm", "qt", "rnorm")
to your NAMESPACE file.
Package required but not available: 'stringr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'gridExtra'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'lamW'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'lamW'

Package suggested but not available for checking: 'fitdistrplus'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'mvtnorm', 'factoextra', 'Rcpp', 'ggplot2', 'glmnet', 'sparsevar',
  'RcppArmadillo'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available: 'Rcpp', 'stepR'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'sandwich', 'dplyr', 'ggplot2', 'viridis', 'tidyr', 'readr',
  'forecast'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'plyr', 'pryr', 'stringr', 'magrittr', 'scales'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'sf'

Packages suggested but not available for checking: 'tinytest', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'nloptr', 'broom', 'tmg', 'mvtnorm', 'purrr', 'quadprog',
  'TruncatedNormal', 'ggplot2', 'plot3D'

Packages suggested but not available for checking:
  'Rcpp', 'testthat', 'viridis', 'tikzDevice'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'devtools', 'roxygen2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'qtl'

Packages suggested but not available for checking:
  'roxygen2', 'knitr', 'rmarkdown', 'devtools', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'broom'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppParallel'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'splot', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'leaflet', 'leaflet.minicharts', 'stringdist'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'covr', 'sp', 'rgeos', 'rgdal',
  'ggplot2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'stringr', 'shiny', 'magrittr', 'miniUI', 'knitr', 'rstudioapi', 'DT'

Packages suggested but not available for checking:
  'pkgdown', 'rmarkdown', 'testthat', 'tidyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'devtools', 'R.utils', 'roxygen2', 'sf', 'stringr', 'raster'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'rgdal', 'sp', 'RSAGA', 'rgrass7', 'curl',
  'listviewer', 'markdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'qtl', 'plotrix', 'RColorBrewer'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'igraph', 'RColorBrewer', 'dynamicTreeCut'

Packages suggested but not available for checking: 'fastcluster', 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'nloptr', 'spBayes'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'crochet'

Packages suggested but not available for checking:
  'BGData', 'ff', 'bigmemory', 'tinytest'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
gcomb: no visible global function definition for 'complete.cases'
linkim: no visible global function definition for 'runif'
missing.dist: no visible global function definition for
  'complete.cases'
pgdata1: no visible global function definition for 'barplot'
pgdata1: no visible global function definition for 'layout'
pgdata1: no visible global function definition for 'par'
pgdata1: no visible global function definition for 'rainbow'
singim: no visible global function definition for 'complete.cases'
singim: no visible global function definition for 'runif'
Undefined global functions or variables:
  barplot complete.cases layout par rainbow runif
Consider adding
  importFrom("grDevices", "rainbow")
  importFrom("graphics", "barplot", "layout", "par")
  importFrom("stats", "complete.cases", "runif")
to your NAMESPACE file.
Packages required but not available: 'igraph', 'intergraph'

Packages suggested but not available for checking: 'knitr', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'shiny', 'visNetwork', 'infotheo', 'minerva', 'energy', 'mclust',
  'rAmCharts', 'pbapply', 'ggplot2', 'dplyr', 'tidyr', 'shinybusy'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
gen.lms: no visible global function definition for 'na.omit'
plot.idf: no visible global function definition for 'mtext'
plot.idf: no visible global function definition for 'points'
plot.idf: no visible global function definition for 'segments'
plot.idf: no visible global function definition for 'ftable'
plot.idf: no visible global function definition for 'image'
plot.idf: no visible global function definition for 'gray'
plot.idf: no visible global function definition for 'abline'
plot.s.linlir: no visible global function definition for 'mtext'
plot.s.linlir: no visible global function definition for 'polygon'
plot.s.linlir: no visible global function definition for 'points'
plot.s.linlir: no visible global function definition for 'curve'
s.linlir: no visible global function definition for 'na.omit'
s.linlir: no visible global function definition for 'dbinom'
s.linlir: no visible global function definition for 'pchisq'
Undefined global functions or variables:
  abline curve dbinom ftable gray image mtext na.omit pchisq points
  polygon segments
Consider adding
  importFrom("grDevices", "gray")
  importFrom("graphics", "abline", "curve", "image", "mtext", "points",
             "polygon", "segments")
  importFrom("stats", "dbinom", "ftable", "na.omit", "pchisq")
to your NAMESPACE file.
Packages required but not available: 'rmarkdown', 'knitr'

Packages suggested but not available for checking: 'testthat', 'yaml'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'R6', 'rlang', 'purrr', 'cli', 'shiny', 'magrittr'

Packages suggested but not available for checking:
  'htmltools', 'knitr', 'rmarkdown', 'testthat', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'mvtnorm'

Packages suggested but not available for checking: 'knitr', 'shiny'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'lpSolve'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rpanel', 'xtable'

Packages suggested but not available for checking: 'AER', 'gam'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'mvtnorm', 'elasticnet', 'randomForest', 'pls', 'gtools'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking: 'knitr', 'tinytest'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages required but not available:
  'rex', 'crayon', 'cyclocomp', 'testthat', 'digest', 'rstudioapi',
  'httr', 'jsonlite', 'knitr', 'xml2', 'xmlparsedata'

Packages suggested but not available for checking: 'rmarkdown', 'mockery'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'shiny', 'readMzXmlData', 'CHNOSZ', 'scales', 'shinythemes'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'BiocManager', 'dplyr', 'ggplot2', 'knitr', 'limma', 'reshape2',
  'shadowtext', 'stringr', 'tableone', 'tidyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'itertools'

Packages suggested but not available for checking: 'testthat', 'iterators'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'coda', 'rjags'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'tibble'

Packages suggested but not available for checking:
  'testthat', 'covr', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'RUnit'
last: no visible global function definition for 'tail'
Undefined global functions or variables:
  tail
Consider adding
  importFrom("utils", "tail")
to your NAMESPACE file.
Running 'run.R'
Running the tests in 'tests/run.R' failed.
Complete output:
  > library(RUnit)
  Error in library(RUnit) : there is no package called 'RUnit'
  Execution halted
getMatrix : <anonymous>: no visible global function definition for
  'read.table'
Undefined global functions or variables:
  read.table
Consider adding
  importFrom("utils", "read.table")
to your NAMESPACE file.
Skipping vignette re-building
Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages suggested but not available for checking:
  'testthat', 'magrittr', 'zeallot', 'rlang', 'tibble', 'purrr'
Found a .Internal call in the following function:
  'eval'
with calls to .Internal functions
  'eval'

Packages should not call .Internal(): it is not part of the API, for
use only by R itself and subject to change without notice.
Packages unavailable to check Rd xrefs: 'purrr', 'keras'
'LazyData' is specified without a 'data' directory
Running examples in 'listarrays-Ex.R' failed
The error most likely occurred in:

> ### Name: extract_dim
> ### Title: Extract with '[' on a specified dimension
> ### Aliases: extract_dim extract_rows extract_cols
> 
> ### ** Examples
> 
> # extract_rows is useful to keep the same code path for arrays of various sizes
> X <- array(1:8, c(4, 3, 2))
> y <- c("a", "b", "c", "d")
> (Y <- onehot(y))
     a b c d
[1,] 1 0 0 0
[2,] 0 1 0 0
[3,] 0 0 1 0
[4,] 0 0 0 1
> 
> extract_rows(X, 2)
     [,1] [,2]
[1,]    2    6
[2,]    6    2
[3,]    2    6
> extract_rows(Y, 2)
a b c d 
0 1 0 0 
> extract_rows(y, 2)
[1] "b"
> 
> library(zeallot)
Error in library(zeallot) : there is no package called 'zeallot'
Execution halted
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'rlang', 'digest'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'knitr', 'dplyr'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'testthat.r'
Running the tests in 'tests/testthat.r' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'crayon', 'yaml'

Packages suggested but not available for checking:
  'DT', 'ggplot2', 'testthat', 'purrr', 'rmarkdown', 'knitr'

Package which this enhances but not available for checking: 'workflowr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'R.utils', 'R.rsp', 'markdown'

VignetteBuilder package required for checking but not installed: 'R.rsp'
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'sandwich', 'VGAM', 'magic', 'gamlss.dist', 'quadprog', 'corpcor',
  'mvtnorm', 'coda', 'arm'

Packages suggested but not available for checking: 'testthat', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'htmltools', 'htmlwidgets', 'shiny'

Packages suggested but not available for checking:
  'jsonlite', 'miniUI', 'rstudioapi'

Package which this enhances but not available for checking: 'reactR'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'assertthat'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'assertthat', 'DBI', 'rappdirs', 'RSQLite'

Packages suggested but not available for checking:
  'callr', 'covr', 'processx', 'testthat', 'withr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'readr', 'stringr', 'dplyr', 'tidyselect', 'tidyr', 'fs', 'ggplot2',
  'purrr', 'rlang', 'yaml', 'rmarkdown'

Packages suggested but not available for checking:
  'knitr', 'kableExtra', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'purrr', 'jsonlite', 'data.table', 'magrittr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'mlr', 'dplyr', 'breakDown', 'data.table', 'forestmodel', 'shiny',
  'ggplot2', 'gower', 'e1071'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'glmnet', 'covr', 'DALEX', 'RWeka',
  'mda', 'modeltools'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'mlr', 'rJava', 'parallelMap', 'ggplot2', 'checkmate', 'BBmisc',
  'plyr', 'data.table'

Packages suggested but not available for checking:
  'testthat', 'ParamHelpers'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'StanHeaders', 'Rcpp', 'llogistic', 'rstan', 'MCMCpack',
  'coda'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'scatterplot3d', 'snowfall'

Package suggested but not available for checking: 'rgl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'data.table', 'combinat', 'VGAM', 'plyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'partykit', 'stringr', 'RWeka', 'survey', 'reghelper', 'scales'

Package suggested but not available for checking: 'mlbench'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'rootSolve', 'openxlsx', 'digest', 'svDialogs', 'minpack.lm',
  'ggplot2', 'svglite', 'dplyr', 'nleqslv', 'crayon'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
lm.beta: no visible global function definition for 'coef'
lm.beta: no visible global function definition for 'model.matrix'
lm.beta: no visible global function definition for 'model.frame'
Undefined global functions or variables:
  coef model.frame model.matrix
Consider adding
  importFrom("stats", "coef", "model.frame", "model.matrix")
to your NAMESPACE file.
Package required but not available: 'evd'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'assertthat', 'dynutils', 'irlba'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'minqa', 'nloptr', 'statmod', 'Rcpp', 'RcppEigen'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'PKPDmodels', 'MEMSS', 'testthat', 'ggplot2',
  'mlmRev', 'optimx', 'gamm4', 'pbkrtest', 'HSAUR3', 'numDeriv', 'car',
  'dfoptim'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/Theory.Rnw'
   'inst/doc/lmer.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'covr', 'testthat', 'knitr', 'rmarkdown', 'scdhlm', 'dplyr', 'tidyr',
  'mlmRev', 'carData', 'lme4', 'merDeriv'

VignetteBuilder package required for checking but not installed: 'knitr'
Running examples in 'lmeInfo-Ex.R' failed
The error most likely occurred in:

> ### Name: g_mlm
> ### Title: Calculates adjusted mlm effect size
> ### Aliases: g_mlm
> 
> ### ** Examples
> 
> 
> library(nlme)
> data(Bryant2016, package = "lmeInfo")
> Bryant2016_RML1 <- lme(fixed = outcome ~ treatment,
+                        random = ~ 1 | school/case,
+                        correlation = corAR1(0, ~ session | school/case),
+                        data = Bryant2016)
> Bryant2016_g1 <- g_mlm(Bryant2016_RML1, p_const = c(0,1), r_const = c(1,1,0,1),
+                        infotype = "expected", returnModel = TRUE)
> summary(Bryant2016_g1)
                                           est      se
Tau.school.school.var((Intercept))     105.619 285.200
Tau.case.case.var((Intercept))           0.000 632.159
cor_params                               0.978   0.015
sigma_sq                              1058.303 678.388
total variance                        1163.922 366.515
(Intercept)                             84.571   9.684
treatmenttreatment                      16.425   2.975
treatment effect at a specified time    16.425   2.975
unadjusted effect size                   0.481   0.122
adjusted effect size                     0.463   0.118
degree of freedom                       20.169        
constant kappa                           0.087        
logLik                               -1133.122        
> print(Bryant2016_g1)
                          est    se
unadjusted effect size  0.481 0.122
adjusted effect size    0.463 0.118
degree of freedom      20.169      
> 
> data(Laski, package = "scdhlm")
Error in find.package(package, lib.loc, verbose = verbose) : 
  there is no package called 'scdhlm'
Calls: data -> find.package
Execution halted
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'qtl', 'lme4', 'pastecs', 'stringr'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'numDeriv', 'statmod', 'lmeNBBayes'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'lme4', 'LCFdata', 'fields'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'plyr', 'dplyr', 'nlmeU', 'RLRsim'

Packages suggested but not available for checking:
  'lme4', 'testthat', 'mlmRev'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'lme4', 'numDeriv', 'ggplot2'

Package suggested but not available for checking: 'pbkrtest'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Title field: should not end in a period.
Malformed Description field: should contain one or more complete sentences.
Package in Depends field not imported from: 'nlme'
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
approx.Z : <anonymous>: no visible global function definition for
  'approx'
smspline: no visible global function definition for 'model.frame'
Undefined global functions or variables:
  approx model.frame
Consider adding
  importFrom("stats", "approx", "model.frame")
to your NAMESPACE file.
Packages required but not available:
  'MultiLCIRT', 'mvtnorm', 'Formula', 'mix', 'diagram', 'mclust',
  'scatterplot3d'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'bookdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available: 'spatstat', 'magic'

Package suggested but not available for checking: 'lme4'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages unavailable to check Rd xrefs: 'sfsmisc', 'mnormt'
Packages required but not available:
  'Rcpp', 'rstan', 'rstantools', 'Formula', 'loo', 'BH', 'RcppEigen',
  'StanHeaders'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'maxLik'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'matrixcalc', 'mnormt', 'plyr', 'doParallel', 'bigmemory'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'lmom', 'pracma', 'ggplot2', 'sf'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'goftest', 'Lmoments'

Package suggested but not available for checking: 'copBasic'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'lmom', 'stringr'

Packages suggested but not available for checking:
  'rasterList', 'lmomRFA', 'SPEI'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'lmom'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'genefilter', 'Biobase', 'progress'

Packages suggested but not available for checking: 'devtools', 'roxygen2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'AICcmodavg', 'car', 'gplots', 'gvlma', 'lme4', 'pbkrtest', 'psych',
  'pwr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'zoo'

Packages suggested but not available for checking:
  'car', 'strucchange', 'sandwich', 'dynlm', 'AER'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'nnls', 'cli', 'R6', 'generics', 'origami', 'future', 'progressr',
  'data.table', 'SuperLearner'

Packages suggested but not available for checking:
  'testthat', 'covr', 'rmarkdown', 'knitr', 'ranger', 'twang'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'matrixcalc', 'maxLik'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'R.rsp', 'plotly'

VignetteBuilder packages required for checking but not installed:
  'knitr', 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'shiny', 'shinyjs', 'lmtest', 'scatterplot3d', 'rgl', 'car'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'seqinr', 'e1071', 'caret'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'igraph'

Package suggested but not available for checking: 'graph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'coda', 'mcmcse'
Skipping vignette re-building
Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library("testthat")
  Error in library("testthat") : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'png', 'RgoogleMaps', 'OpenStreetMap', 'sp', 'rgdal', 'RColorBrewer',
  'plyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'crayon', 'Rcpp', 'rlang'

Packages suggested but not available for checking:
  'covr', 'pillar', 'pkgdown', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'gss'

Packages suggested but not available for checking:
  'colorspace', 'RColorBrewer', 'TeachingDemos', 'data.table',
  'ggplot2', 'gridExtra', 'rpart.plot', 'xtable'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'foreach', 'matrixStats'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'checkmate'

Packages suggested but not available for checking:
  'covr', 'h2o', 'mlbench', 'randomForest', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rlang', 'sampleSelection'

Packages suggested but not available for checking:
  'dplyr', 'ggplot2', 'tidyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'glmnet', 'ggplot2', 'partykit', 'ingredients'

Packages suggested but not available for checking:
  'covr', 'knitr', 'rmarkdown', 'randomForest', 'DALEX', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'
Running examples in 'localsolver-Ex.R' failed
The error most likely occurred in:

> ### Name: add.output.expr
> ### Title: Add expression to output of ls.problem.
> ### Aliases: add.output.expr
> 
> ### ** Examples
> 
> model.text.lsp <- lsp.model.example('extdata/knapsack.txt')
> lsp <- ls.problem(model.text.lsp)
Error in ls.problem(model.text.lsp) : 
  has.localsolver(ls.path) is not TRUE
Calls: ls.problem -> stopifnot
Execution halted
'LazyData' is specified without a 'data' directory
Skipping vignette re-building
Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
Packages required but not available: 'dplyr', 'ggplot2'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'interp', 'gam'
Packages required but not available: 'wavethresh', 'igraph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Note: found 23 marked UTF-8 strings
Packages suggested but not available for checking: 'lubridate', 'mosaic'
Packages required but not available:
  'Rcpp', 'Rdpack', 'RSpectra', 'RcppEigen'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'testthat', 'covr'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package required but not available: 'rms'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'rlang'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'Rdpack', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'igraph', 'vegan'
Running examples in 'loe-Ex.R' failed
The error most likely occurred in:

> ### Name: GARI
> ### Title: Graph Adjusted Rand Index
> ### Aliases: GARI
> 
> ### ** Examples
> 
> library(igraph)
Error in library(igraph) : there is no package called 'igraph'
Execution halted
Packages required but not available:
  'dplyr', 'tidyr', 'magrittr', 'rlang', 'ggplot2', 'metR',
  'gridExtra', 'rootSolve', 'viridis'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'kableExtra', 'devtools'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'futile.logger', 'knitr', 'lgr', 'logger', 'logging',
  'microbenchmark', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'run-all.R'
Running the tests in 'tests/run-all.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'pander', 'psych', 'dplyr', 'ggplot2', 'rlang', 'stringr',
  'magrittr', 'modules'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'glm2', 'turboEM'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'mclust', 'mvtnorm'

Packages suggested but not available for checking: 'rgl', 'tkrplot'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'logcondens'
Packages required but not available: 'logcondens', 'distr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'ks'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'mvtnorm', 'cobs'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'glue', 'pander', 'jsonlite', 'crayon', 'slackr', 'RPushbullet',
  'telegram', 'testthat', 'covr', 'knitr', 'rmarkdown', 'devtools',
  'roxygen2', 'rsyslog', 'shiny', 'callr', 'txtq', 'botor', 'R.utils',
  'syslognet'

Packages which this enhances but not available for checking:
  'logging', 'futile.logger', 'log4r'

VignetteBuilder package required for checking but not installed: 'knitr'
Package unavailable to check Rd xrefs: 'rsyslog'
Running examples in 'logger-Ex.R' failed
The error most likely occurred in:

> ### Name: %except%
> ### Title: Try to evaluate an expressions and evaluate another expression
> ###   on exception
> ### Aliases: %except%
> 
> ### ** Examples
> 
> everything %except% 42
WARN [2021-04-25 12:33:12] Running "42" as "everything" failed: "object 'everything' not found"
[1] 42
> everything <- '640kb'
> everything %except% 42
[1] "640kb"
> 
> Mean(1:10) %except% sum(1:10) / length(1:10)
WARN [2021-04-25 12:33:12] Running "sum(1:10)" as "Mean(1:10)" failed: "could not find function \"Mean\""
[1] 5.5
> Mean(1:10) %except% (sum(1:10) / length(1:10))
WARN [2021-04-25 12:33:12] Running "(sum(1:10)/length(1:10))" as "Mean(1:10)" failed: "could not find function \"Mean\""
[1] 5.5
> Mean(1:10) %except% MEAN(1:10) %except% mean(1:10)
WARN [2021-04-25 12:33:12] Running "MEAN(1:10)" as "Mean(1:10)" failed: "could not find function \"Mean\""
Error in sprintf(fmt, ...) : too few arguments
Calls: %except% ... <Anonymous> -> do.call -> <Anonymous> -> eval -> sprintf
Execution halted
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages suggested but not available for checking: 'testthat', 'crayon'
Running 'run_tests.R'
Running the tests in 'tests/run_tests.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Skipping vignette re-building
Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'partykit', 'doParallel', 'data.table', 'foreach', 'iterators'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'lubridate', 'readxl'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Title field: should not end in a period.
EstimateProbability: no visible global function definition for
  'predict'
LOGICOIL: no visible binding for global variable 'pssm'
LOGICOIL: no visible binding for global variable 'LOGICOILfit'
LOGICOIL: no visible binding for global variable 'Model_Parameters'
plot_LOGICOIL: no visible global function definition for 'png'
plot_LOGICOIL: no visible global function definition for 'par'
plot_LOGICOIL: no visible global function definition for 'lines'
plot_LOGICOIL: no visible global function definition for 'axis'
plot_LOGICOIL: no visible global function definition for 'mtext'
plot_LOGICOIL: no visible global function definition for 'legend'
plot_LOGICOIL: no visible global function definition for 'dev.off'
Undefined global functions or variables:
  LOGICOILfit Model_Parameters axis dev.off legend lines mtext par png
  predict pssm
Consider adding
  importFrom("grDevices", "dev.off", "png")
  importFrom("graphics", "axis", "legend", "lines", "mtext", "par")
  importFrom("stats", "predict")
to your NAMESPACE file.
Package required but not available: 'ggplot2'

Package suggested but not available for checking: 'popbio'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'mice', 'formula.tools'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'rms', 'statmod', 'speedglm', 'RColorBrewer', 'data.table', 'pROC',
  'aod'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/plotGlm.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'ggplot2'

Packages suggested but not available for checking:
  'rARPACK', 'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Malformed Description field: should contain one or more complete sentences.
LogitNet.weight: no visible global function definition for 'lowess'
LogitNet.weight: no visible global function definition for 'median'
Undefined global functions or variables:
  lowess median
Consider adding
  importFrom("stats", "lowess", "median")
to your NAMESPACE file.
Skipping vignette re-building
Packages suggested but not available for checking:
  'RUnit', 'knitr', 'markdown', 'ggplot2', 'reshape2'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
Packages required but not available: 'nloptr', 'randtoolbox'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'here', 'ggplot2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'pracma'

Packages suggested but not available for checking: 'R.rsp', 'testthat'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
rloglognorm: no visible global function definition for 'runif'
Undefined global functions or variables:
  runif
Consider adding
  importFrom("stats", "runif")
to your NAMESPACE file.
Packages required but not available: 'gnm', 'qvcalc'

Packages suggested but not available for checking:
  'survey', 'ellipse', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'markdown', 'rmarkdown', 'testthat', 'knitr', 'dplyr', 'ggplot2',
  'mvtnorm', 'purrr', 'tidyr'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > # workaround for error LC_CTYPE failed, using "C" but does not work
  > #https://github.com/r-lib/testthat/issues/86
  > #Sys.setenv("R_TESTS" = "")
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package suggested but not available for checking: 'testthat'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
LogrankA: no visible global function definition for 'is.Surv'
LogrankA: no visible global function definition for 'na.omit'
LogrankA: no visible global function definition for 'pchisq'
Undefined global functions or variables:
  is.Surv na.omit pchisq
Consider adding
  importFrom("stats", "na.omit", "pchisq")
to your NAMESPACE file.
Packages required but not available: 'R6', 'cli', 'crayon'

Packages suggested but not available for checking:
  'shiny', 'plumber', 'testthat', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'tidylog', 'dplyr'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package required but not available: 'sfsmisc'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'network', 'ggplot2', 'reshape2', 'intergraph', 'BH'

Packages suggested but not available for checking:
  'testthat', 'inline', 'knitr', 'rmarkdown', 'ergm', 'BH', 'igraph'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'abind', 'irlba', 'pls', 'robust', 'robustbase'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'randomForest', 'latex2exp', 'testthat', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'magic', 'survminer', 'Formula'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'RColorBrewer', 'colorspace', 'ggplot2'
Package suggested but not available for checking: 'mvtnorm'
Running examples in 'longclust-Ex.R' failed
The error most likely occurred in:

> ### Name: longclustEM
> ### Title: Model-Based Clustering and Classification for Longitudinal Data
> ### Aliases: longclustEM
> ### Keywords: "multivariate" "cluster" "classif"
> 
> ### ** Examples
> 
> library(mvtnorm)
Error in library(mvtnorm) : there is no package called 'mvtnorm'
Execution halted
Packages required but not available:
  'AICcmodavg', 'missForest', 'R2jags', 'rjags'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'tidyr', 'zoo', 'scales', 'rlang', 'lubridate'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'clv', 'rgl', 'misc3d'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'corpcor'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'randomForest', 'mvtnorm', 'latex2exp'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'sfsmisc'

Package which this enhances but not available for checking: 'fracdiff'
Errors in running code in vignettes:
when running code in 'BspecFGN.Rnw'
  ...

> draw.f <- function(lambda, H, ..., log = "", ylim = if (any("y" == 
+     strsplit(log, "")[[1]])) NULL else c(0, 2 * fB1)) {
+     fB1 <- fB(1, lam .... [TRUNCATED] 

> op <- sfsmisc::mult.fig(4)$old.par

  When sourcing 'BspecFGN.R':
Error: there is no package called 'sfsmisc'
Execution halted

  'BspecFGN.Rnw'... failed
Error(s) in re-building vignettes:
  ...
--- re-building 'BspecFGN.Rnw' using Sweave
Loading required package: longmemo

Error: processing vignette 'BspecFGN.Rnw' failed with diagnostics:
 chunk 4 (label = curve-fB) 
Error in loadNamespace(x) : there is no package called 'sfsmisc'

--- failed re-building 'BspecFGN.Rnw'

SUMMARY: processing the following file failed:
  'BspecFGN.Rnw'

Error: Vignette re-building failed.
Execution halted
Packages required but not available:
  'Rcpp', 'longmemo', 'partitions', 'fracdiff', 'mvtnorm',
  'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'lme4'

Packages suggested but not available for checking:
  'gee', 'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available: 'ggplot2', 'formula.tools'

Package suggested but not available for checking: 'rpart.plot'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'httr'

Package suggested but not available for checking: 'tinytest'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'TDAstats', 'evd', 'RANN', 'ggplot2', 'tidyr'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'data.table', 'dplyr'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Note: found 994 marked Latin-1 strings
Packages required but not available:
  'loon', 'ggplot2', 'ggmulti', 'GGally', 'gridExtra', 'scales',
  'rlang'

Packages suggested but not available for checking:
  'magrittr', 'tidyr', 'dplyr', 'gtable', 'png', 'tibble', 'testthat',
  'knitr', 'rmarkdown', 'tidyverse', 'covr', 'maps', 'hexbin',
  'nycflights13', 'ggplot2movies'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'gridExtra'

Packages suggested but not available for checking:
  'maps', 'sp', 'graph', 'scagnostics', 'PairViz', 'RColorBrewer',
  'loon.data', 'rworldmap', 'rgl', 'Rgraphviz', 'RDRToolbox',
  'kernlab', 'scales', 'testthat', 'knitr', 'rmarkdown', 'png',
  'formatR', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'igraph', 'numDeriv'

Packages suggested but not available for checking:
  'deSolve', 'knitr', 'markdown', 'remotes', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
fplot: no visible global function definition for 'rnorm'
fplot: no visible global function definition for 'segments'
fplot: no visible global function definition for 'points'
fplot: no visible global function definition for 'text'
fplot.foodweb: no visible global function definition for 'segments'
fplot.foodweb: no visible global function definition for 'points'
fplot.foodweb: no visible global function definition for 'text'
gplot: no visible global function definition for 'runif'
groupplot: no visible global function definition for 'rnorm'
groupplot: no visible global function definition for 'segments'
groupplot: no visible global function definition for 'points'
groupplot: no visible global function definition for 'text'
groupplot.foodweb: no visible global function definition for 'rnorm'
groupplot.foodweb: no visible global function definition for 'segments'
groupplot.foodweb: no visible global function definition for 'points'
groupplot.foodweb: no visible global function definition for 'text'
Undefined global functions or variables:
  points rnorm runif segments text
Consider adding
  importFrom("graphics", "points", "segments", "text")
  importFrom("stats", "rnorm", "runif")
to your NAMESPACE file.
Packages required but not available:
  'GenomicRanges', 'IRanges', 'S4Vectors'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'checkmate', 'matrixStats'

Packages suggested but not available for checking:
  'bayesplot', 'brms', 'ggplot2', 'knitr', 'rmarkdown', 'rstan',
  'rstanarm', 'rstantools', 'spdep', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'digest', 'futile.options', 'ggplot2', 'httr', 'dplyr', 'reshape2'

Packages suggested but not available for checking:
  'biomaRt', 'knitr', 'rmarkdown', 'roxygen2', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'data.table', 'Rcpp'

Packages suggested but not available for checking: 'ggplot2', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'mirt', 'rms'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'clime', 'scio'
Malformed Description field: should contain one or more complete sentences.
Packages required but not available:
  'magrittr', 'emulator', 'tensor', 'magic'

Packages suggested but not available for checking: 'knitr', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'magrittr', 'dineq'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'data.table', 'rARPACK', 'svd'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'gdata', 'shapes', 'e1071', 'pcaMethods', 'miscTools', 'rgl',
  'geomorph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Skipping vignette re-building
Packages suggested but not available for checking:
  'testthat', 'covr', 'knitr', 'rmarkdown', 'microbenchmark', 'ggplot2'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat) # nolint
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'Rcpp', 'RcppArmadillo'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RSQLite'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RSQLite'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'polynom', 'orthopolynom', 'Hmisc'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'plyr', 'RColorBrewer'

Package suggested but not available for checking: 'doMC'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'scatterplot3d', 'dr'
Running examples in 'LPCM-Ex.R' failed
The error most likely occurred in:

> ### Name: gvessel
> ### Title: North Atlantic Water Temperature Data.
> ### Aliases: gvessel
> ### Keywords: datasets
> 
> ### ** Examples
> 
> data(gvessel)
> pairs(gvessel[,c(3,2,4,5)])
> tcol <- (gvessel$tempg- min(gvessel$tempg))/(max(gvessel$tempg)- min(gvessel$tempg))
> require(scatterplot3d)
Loading required package: scatterplot3d
Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE,  :
  there is no package called 'scatterplot3d'
> scatterplot3d(gvessel[,2],gvessel[,4],gvessel[,5], color=rgb(tcol,0,1-tcol))
Error in scatterplot3d(gvessel[, 2], gvessel[, 4], gvessel[, 5], color = rgb(tcol,  : 
  could not find function "scatterplot3d"
Execution halted
Package required but not available: 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'raster', 'dplyr', 'data.table', 'virtualspecies', 'magrittr',
  'rgdal'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'car', 'PMA'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
lpint : <anonymous>: no visible global function definition for
  'integrate'
lpint: no visible global function definition for 'integrate'
lpint : lpint : <anonymous>: no visible global function definition for
  'integrate'
lplikint : lplikint.fun : <anonymous>: no visible global function
  definition for 'integrate'
Undefined global functions or variables:
  integrate
Consider adding
  importFrom("stats", "integrate")
to your NAMESPACE file.
Packages required but not available:
  'doParallel', 'dplyr', 'foreach', 'ggplot2', 'ggpubr', 'gridExtra',
  'lmtest', 'plm', 'sandwich', 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'testthat', 'readxl', 'knitr', 'rmarkdown', 'zoo', 'vars'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'apcluster', 'igraph', 'mclust', 'LPGraph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'decon', 'flexmix', 'locpol', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rglpk'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'slam'

Package suggested but not available for checking: 'Rsymphony'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'fracdiff', 'powdist'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'BayesGOF', 'leaps', 'locfdr', 'Bolstad2', 'reshape2', 'ggplot2',
  'polynom', 'glmnet', 'caret'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'LPGraph', 'LPBkg', 'truncnorm', 'nloptr', 'Hmisc', 'orthopolynom',
  'polynom'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'limma'
Package required but not available: 'RColorBrewer'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'orthopolynom'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'nleqslv'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'pkgdown', 'ggplot2', 'knitr', 'devtools'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'SparseGrid'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'spatstat.geom', 'numDeriv', 'MomTrunc', 'quantreg'

Packages suggested but not available for checking: 'ald', 'qrLMM', 'qrNLMM'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'DoseFinding'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package required but not available: 'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'psych'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'GeneticsPed', 'SparseM', 'quantreg', 'kinship2', 'MCMCglmm', 'rsvd',
  'R.matlab', 'sparsesvd'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'wavethresh'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'LS2W', 'matrixStats', 'RandomFields', 'spdep'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'lsa', 'rgl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'lme4', 'Hmisc'

Packages suggested but not available for checking:
  'BIFIEsurvey', 'TAM', 'miceadds', 'sirt', 'mice', 'pls', 'WrightMap',
  'irr', 'lavaan', 'difR', 'kerdiest', 'glmnet', 'mirt', 'car',
  'mitml', 'matrixStats', 'combinat', 'xtable', 'tensor', 'gtools',
  'plyr', 'prettyR', 'gridExtra'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'SnowballC'

Package suggested but not available for checking: 'tm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'mvtnorm'

Packages suggested but not available for checking: 'testthat', 'polycor'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'plyr', 'clue', 'gridExtra', 'reshape2', 'Rcpp',
  'mvtnorm', 'doParallel', 'foreach'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ks', 'numDeriv'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'LICORS', 'RColorBrewer', 'fields', 'gam'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'LazyData' is specified without a 'data' directory
Package required but not available: 'abind'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'LSDinterface', 'tseries', 'kSamples', 'diptest', 'lawstat', 'abind',
  'sensitivity', 'car', 'randtoolbox', 'rgenoud', 'DiceKriging'

Package suggested but not available for checking: 'rgl'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
Lsdv.formula: no visible global function definition for 'model.frame'
Lsdv.formula: no visible global function definition for 'model.matrix'
Lsdv.formula: no visible global function definition for
  'model.response'
lsdv: no visible global function definition for 'pf'
summary.Lsdv: no visible global function definition for 'coef'
summary.Lsdv: no visible global function definition for 'pt'
Undefined global functions or variables:
  coef model.frame model.matrix model.response pf pt
Consider adding
  importFrom("stats", "coef", "model.frame", "model.matrix",
             "model.response", "pf", "pt")
to your NAMESPACE file.
legend.lshorth: no visible global function definition for 'legend'
legend.lshorth: no visible global function definition for 'strwidth'
legend.lshorth: no visible global function definition for 'text'
plot.lshorth: no visible global function definition for 'plot.new'
plot.lshorth: no visible global function definition for 'plot.window'
plot.lshorth: no visible global function definition for 'axis'
plot.lshorth: no visible global function definition for 'title'
plot.lshorth: no visible global function definition for 'box'
plot.lshorth: no visible global function definition for 'lines'
plot.lshorth: no visible global function definition for 'legend'
plot.lshorth: no visible global function definition for 'strwidth'
plot.lshorth: no visible global function definition for 'text'
Undefined global functions or variables:
  axis box legend lines plot.new plot.window strwidth text title
Consider adding
  importFrom("graphics", "axis", "box", "legend", "lines", "plot.new",
             "plot.window", "strwidth", "text", "title")
to your NAMESPACE file.
Packages required but not available: 'ggplot2', 'reshape2', 'lavaan'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'R6', 'ggplot2', 'lavaan', 'RcppEigen'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'emmeans'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'mvtnorm', 'fBasics'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'ggplot2', 'dplyr', 'scales', 'NFCP'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'ggplot2', 'pracma', 'combinat', 'matrixStats', 'dplyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'seqinr', 'RCurl', 'data.table', 'bit64', 'R.utils'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'scales', 'ggplot2', 'broom'

VignetteBuilder package required for checking but not installed: 'knitr'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package required but not available: 'pls'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'raster', 'sp', 'rasterVis', 'latticeExtra', 'RColorBrewer'
'LazyData' is specified without a 'data' directory
Package required but not available: 'quantreg'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'raster'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rdpack', 'ggplot2', 'scales', 'patchwork'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'quanteda', 'quanteda.textstats', 'stringi', 'digest', 'RSpectra',
  'irlba', 'rsvd', 'rsparse', 'proxyC', 'ggplot2', 'ggrepel',
  'reshape2', 'locfit'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages unavailable to check Rd xrefs: 'etable', 'xtable', 'tables'
Packages required but not available: 'mcmc', 'MHadaptive', 'numDeriv'

Packages suggested but not available for checking:
  'coda', 'mcmcplots', 'ggmcmc', 'knitr', 'ggplot2', 'gridExtra',
  'reshape2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'gtools', 'pracma'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'matrixStats', 'speedglm'

Packages suggested but not available for checking:
  'SuperLearner', 'testthat', 'tmle', 'knitr', 'rmarkdown', 'nnls',
  'arm'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'msm', 'polycor'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
OC : Lnapprox: no visible global function definition for 'pnorm'
OC : Lnapprox: no visible global function definition for 'qnorm'
OC : Lt: no visible global function definition for 'pt'
OC : Lt: no visible global function definition for 'qnorm'
OC : OC_emwa2: no visible global function definition for 'pnorm'
OC : OC_emwa2: no visible global function definition for 'qnorm'
OC: no visible global function definition for 'pnorm'
OC: no visible global function definition for 'qnorm'
cmBE : LAtHy: no visible global function definition for 'phyper'
cmBE: no visible global function definition for 'uniroot'
planAOQL : Gderivacex: no visible global function definition for
  'pnorm'
planAOQL : Mnk: no visible global function definition for 'uniroot'
planAOQL : k0AOQL : delta: no visible global function definition for
  'pnorm'
planAOQL : alpha0: no visible global function definition for 'pnorm'
planAOQL : alpha0: no visible global function definition for 'qnorm'
planAOQL : fMSmodq2: no visible global function definition for
  'optimize'
planAOQL : kAOQL: no visible global function definition for 'uniroot'
planLTPD : nAPPROXL : k0L : g: no visible global function definition
  for 'qnorm'
planLTPD : nAPPROXL : k0L : h: no visible global function definition
  for 'qnorm'
planLTPD : nAPPROXL : k0L: no visible global function definition for
  'qnorm'
planLTPD : nAPPROXL : alpha0: no visible global function definition for
  'pnorm'
planLTPD : nAPPROXL : alpha0: no visible global function definition for
  'qnorm'
planLTPD : nAPPROXL: no visible global function definition for
  'uniroot'
planLTPD : kEWMA: no visible global function definition for 'uniroot'
Undefined global functions or variables:
  optimize phyper pnorm pt qnorm uniroot
Consider adding
  importFrom("stats", "optimize", "phyper", "pnorm", "pt", "qnorm",
             "uniroot")
to your NAMESPACE file.
Packages required but not available: 'ipred', 'prodlim', 'partykit'

Packages suggested but not available for checking:
  'randomForestSRC', 'LTRCtrees'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'partykit', 'inum', 'icenReg', 'Icens', 'interval'

Packages suggested but not available for checking:
  'Formula', 'rpart.plot', 'knitr', 'rmarkdown'

VignetteBuilder packages required for checking but not installed:
  'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'robustbase'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'fields', 'gstat', 'sp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'pracma', 'RcppArmadillo'

Packages suggested but not available for checking:
  'robustbase', 'rrcov', 'mvtnorm', 'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'zoo'
Packages required but not available: 'generics', 'Rcpp'

Packages suggested but not available for checking:
  'covr', 'knitr', 'testthat', 'vctrs', 'rmarkdown'

Packages which this enhances but not available for checking:
  'chron', 'timeDate', 'tis', 'zoo'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'RPostgreSQL', 'rpostgis', 'plyr', 'DBI'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'broom', 'dplyr', 'knitr', 'lme4', 'rjags', 'rmarkdown', 'sommer',
  'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'mclust', 'networkD3', 'lbfgs', 'glasso', 'glmnet'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'fGarch', 'landpred', 'RcppArmadillo'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'raster', 'ncdf4'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'raster', 'ROCR', 'rasterVis'

Packages suggested but not available for checking:
  'caret', 'randomForest', 'gsubfn', 'Hmisc', 'plyr', 'RColorBrewer'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'R6'

Package suggested but not available for checking: 'tinytest'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'magrittr', 'bbmle', 'data.table', 'DEoptim', 'httr', 'matrixStats',
  'minpack.lm', 'plotrix', 'raster', 'readxl', 'shape', 'XML', 'zoo',
  'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'spelling', 'RLumShiny', 'plotly', 'rmarkdown', 'rstudioapi',
  'rjags', 'coda', 'pander', 'testthat', 'devtools', 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
terrestrial.season: no visible global function definition for 'is'
Undefined global functions or variables:
  is
Consider adding
  importFrom("methods", "is")
to your NAMESPACE file (and ensure that your DESCRIPTION Imports field
contains 'methods').
Packages required but not available: 'Rcpp', 'lubridate'

Packages suggested but not available for checking:
  'testthat', 'sf', 'sp', 'rgdal', 'covr', 'ggplot2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'assertthat'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'BH'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'lhs', 'randtoolbox'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ergm', 'network', 'igraph', 'ellipse', 'glmmML', 'mvtnorm',
  'corpcor'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'manet', 'colorspace'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'coda', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'cowplot', 'dplyr', 'ggplot2', 'glue', 'purrr', 'rlang', 'rsample',
  'tibble', 'tidyselect', 'vctrs'

Packages suggested but not available for checking:
  'covr', 'devtools', 'forcats', 'fs', 'git2r', 'knitr', 'lme4',
  'rmarkdown', 'testthat', 'usethis', 'vdiffr', 'withr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'OpenMx', 'glasso', 'qgraph', 'psych', 'mvtnorm', 'corpcor', 'dplyr',
  'lavaan', 'semPlot'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'RColorBrewer'

Package suggested but not available for checking: 'depth'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'plotrix'

Packages suggested but not available for checking:
  'magrittr', 'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'data.table', 'vegperiod', 'foreach', 'iterators', 'doFuture',
  'future', 'progressr'

Packages suggested but not available for checking:
  'sirad', 'knitr', 'rmarkdown', 'roxygen2', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'units', 'sf'

Packages suggested but not available for checking:
  'covr', 'sp', 'geosphere', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'data.table', 'ggplot2', 'plyr', 'gridExtra', 'gWQS', 'gamm4'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Found the following significant warnings:
  lxb.c:62:25: warning: 'sprintf' may write a terminating nul past the end of the destination [-Wformat-overflow=]
  lxb.c:62:21: warning: '%d' directive writing between 1 and 10 bytes into a region of size 4 [-Wformat-overflow=]
See 'C:/msys64/home/tomas/ucrt3/svn/ucrt3/r_packages/pkgcheck/CRAN/lxb/lxb.Rcheck/00install.out' for details.
Packages required but not available: 'expm', 'corpcor'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'geosphere', 'caTools', 'ggplot2', 'randomForest', 'e1071', 'caret'

Packages suggested but not available for checking:
  'adehabitatLT', 'moveHMM', 'knitr', 'DiagrammeR', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'mpoly', 'stringr', 'memoise', 'gmp', 'usethis', 'Rcpp'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'microbenchmark', 'testthat', 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'dplyr'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'dplyr'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ncdf4', 'rgdal', 'maps', 'mapdata'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'icenReg', 'doParallel', 'foreach', 'iterators'

Packages suggested but not available for checking:
  'mixtools', 'ICsurv', 'coxinterval', 'knitr', 'rmarkdown', 'pbapply'

VignetteBuilder packages required for checking but not installed:
  'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'C50'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'lme4', 'optimx', 'car'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'httr', 'jsonlite', 'lubridate', 'xts', 'rhandsontable', 'DT'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'abind', 'dials', 'foreach', 'ggplot2', 'kernlab', 'magrittr',
  'party', 'polspline', 'progress', 'recipes', 'rlang', 'rsample',
  'Rsolnp', 'tibble'

Packages suggested but not available for checking:
  'adabag', 'BART', 'bartMachine', 'C50', 'doParallel', 'e1071',
  'earth', 'elasticnet', 'gbm', 'glmnet', 'gridExtra', 'Hmisc',
  'kableExtra', 'kknn', 'knitr', 'lars', 'mboost', 'mda', 'partykit',
  'pls', 'randomForest', 'randomForestSRC', 'ranger', 'rmarkdown',
  'rms', 'testthat', 'tree', 'xgboost'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'machina', 'plyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'etl', 'dplyr', 'lubridate', 'readr', 'sf'

Packages suggested but not available for checking:
  'ggplot2', 'dbplyr', 'RSQLite', 'broom', 'knitr', 'leaflet', 'purrr',
  'rmarkdown', 'clifro', 'testthat'

VignetteBuilder packages required for checking but not installed:
  'knitr', 'rmarkdown', 'etl', 'dplyr', 'ggplot2', 'lubridate',
  'leaflet', 'clifro'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'party', 'plsgenomics', 'st', 'e1071'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'BMA', 'plot.matrix', 'rlist'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'ggplot2', 'R2wd', 'metafor'

Packages which this enhances but not available for checking:
  'compute.es', 'irr'
'library' or 'require' calls in package code:
  'R2wd' 'ggplot2' 'metafor'
  Please use :: or requireNamespace() instead.
  See section 'Suggested packages' in the 'Writing R Extensions' manual.
Packages required but not available:
  'pscl', 'sandwich', 'mediation', 'emplik', 'BB', 'mathjaxr'

Package suggested but not available for checking: 'SuppDists'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'mvtnorm', 'ellipse', 'mvmeta'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'ggplot2'

VignetteBuilder package required for checking but not installed: 'knitr'
Packages required but not available: 'data.table', 'magrittr'

Packages suggested but not available for checking:
  'knitr', 'tinytest', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'matrixcalc', 'expm'

Packages suggested but not available for checking:
  'testthat', 'dplyr', 'tidyr', 'lubridate', 'SharpeR', 'sandwich',
  'formatR', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/introducing_madness.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'rstan', 'Rcpp', 'BH', 'RcppEigen', 'StanHeaders'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'magclass', 'spam', 'digest', 'stringr', 'rlang', 'assertthat'

Packages suggested but not available for checking:
  'igraph', 'knitr', 'rmarkdown', 'testthat', 'ggplot2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'metafor', 'R2wd', 'ggplot2'

Packages which this enhances but not available for checking:
  'compute.es', 'irr'
'library' or 'require' calls in package code:
  'R2wd' 'ggplot2' 'metafor'
  Please use :: or requireNamespace() instead.
  See section 'Suggested packages' in the 'Writing R Extensions' manual.
'LazyData' is specified without a 'data' directory
Package required but not available: 'mrds'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rgl', 'geometry', 'stringr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'rmarkdown', 'knitr', 'htmltools', 'ggplot2', 'TCGAbiolinks', 'DT',
  'flexdashboard', 'maftools', 'bsplus', 'crosstalk', 'plotly',
  'canvasXpress', 'dplyr', 'ComplexHeatmap', 'circlize',
  'RColorBrewer', 'ggbeeswarm', 'ensurer', 'data.table', 'reshape2',
  'GenomicRanges', 'IRanges', 'pheatmap'

Package suggested but not available for checking: 'jsonlite'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'sp', 'maptools', 'abind', 'data.table', 'forcats'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'reshape2', 'data.tree', 'raster',
  'units', 'udunits2', 'ncdf4', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'celestial', 'plotrix', 'sm', 'mapproj', 'RColorBrewer', 'RANN'

Packages suggested but not available for checking: 'imager', 'fst'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package required but not available: 'magick'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'magrittr', 'curl'

Packages suggested but not available for checking:
  'av', 'spelling', 'jsonlite', 'knitr', 'rmarkdown', 'rsvg', 'webp',
  'pdftools', 'ggplot2', 'gapminder', 'IRdisplay', 'tesseract',
  'gifski'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'httr', 'tibble'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'abind'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ape', 'coxme', 'doParallel', 'dplyr', 'foreach', 'iterators',
  'lme4', 'multcomp', 'plyr', 'qqman', 'seqinr'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'covr', 'knitr', 'rlang', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'RGtk2', 'gWidgets2', 'gWidgets2RGtk2', 'Rgraphviz', 'ssize',
  'Biobase', 'impute', 'limma'

Packages suggested but not available for checking:
  'Biostrings', 'BiocManager', 'RSQLite', 'convert', 'marray',
  'GEOquery', 'GEOmetadb', 'amap', 'RBGL', 'WGCNA', 'KEGGREST',
  'KEGGgraph', 'cairoDevice', 'pdInfoBuilder', 'lumi', 'oligo',
  'graph', 'affy', 'genefilter', 'simpleaffy', 'beadarray', 'GOstats',
  'GO.db', 'globaltest', 'Category', 'annotate'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Hmisc', 'matrixStats', 'weights'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'commonmark', 'gmailr', 'rstudioapi', 'googledrive', 'rmarkdown',
  'dplyr', 'glue', 'googlesheets4', 'magrittr', 'withr', 'purrr', 'fs',
  'lifecycle', 'shiny', 'miniUI'

Packages suggested but not available for checking:
  'spelling', 'covr', 'knitr', 'testthat', 'here'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
Packages required but not available: 'rJava', 'stringr', 'R.utils'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'htmltools', 'glue'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'miscTools', 'robustbase', 'rrcov', 'pcaPP', 'mclust',
  'ggplot2', 'GGally', 'sn', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'jsonlite', 'urltools'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Namespace in Imports field not imported from: 'MASS'
  All declared Imports should be used.
'LazyData' is specified without a 'data' directory
Package required but not available: 'tibble'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'magrittr'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'dplyr', 'RColorBrewer'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'sys'

Packages suggested but not available for checking:
  'curl', 'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'e1071'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'tidygraph', 'Rcpp', 'RcppProgress', 'RcppArmadillo',
  'igraph', 'tibble', 'magrittr'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'ggraph', 'dirmult', 'Rmpfr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'curl', 'rgdal', 'raster', 'sp', 'xml2', 'gridExtra',
  'httr', 'dplyr', 'stringi', 'tidyr', 'rlang'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'palettetown', 'magrittr',
  'tibble', 'rdhs'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'MALDIquant', 'base64enc', 'digest', 'readBrukerFlexData',
  'readMzXmlData', 'XML'

Packages suggested but not available for checking:
  'knitr', 'testthat', 'RNetCDF'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/MALDIquantForeign-intro.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking: 'knitr', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/MALDIquant-intro.Rnw'
(Is a VignetteBuilder field missing?)
Files named as vignettes but with no recognized vignette engine:
   'vignettes/MALDIquant-intro.Rnw'
(Is a VignetteBuilder field missing?)
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library("testthat")
  Error in library("testthat") : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'MALDIquant', 'signal', 'robustbase'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'rJava'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'stringr', 'assertthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'reshape2'

Packages suggested but not available for checking:
  'testthat', 'RColorBrewer'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'msma', 'oro.nifti', 'oro.dicom', 'imager', 'caret'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'MCMCpack', 'combinat', 'igraph', 'mclust'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'kinship2'
Errors in running code in vignettes:
when running code in 'Mangrove.Rnw'
  ...
     SNP1               SNP2               SNP3               SNP4          
 Length:9           Length:9           Length:9           Length:9          
 Class :character   Class :character   Class :character   Class :character  
 Mode  :character   Mode  :character   Mode  :character   Mode  :character  

> library(kinship2)

  When sourcing 'Mangrove.R':
Error: there is no package called 'kinship2'
Execution halted

  'Mangrove.Rnw'... failed
Error(s) in re-building vignettes:
  ...
--- re-building 'Mangrove.Rnw' using Sweave

Error: processing vignette 'Mangrove.Rnw' failed with diagnostics:
 chunk 19 
Error in library(kinship2) : there is no package called 'kinship2'

--- failed re-building 'Mangrove.Rnw'

SUMMARY: processing the following file failed:
  'Mangrove.Rnw'

Error: Vignette re-building failed.
Execution halted
Packages required but not available: 'magrittr', 'plotly', 'ggplot2'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'reshape2', 'ggplot2', 'ggrepel', 'gridExtra'

Packages suggested but not available for checking: 'R.utils', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'NLP', 'tm', 'magrittr', 'httr', 'jsonlite', 'functional', 'zoo',
  'psych', 'base64enc', 'htmlwidgets', 'DT', 'htmltools', 'purrr',
  'readr', 'dplyr', 'tidyselect', 'tibble'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'R.rsp', 'haven', 'readxl',
  'devtools', 'formatR', 'highr'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

Package suggested but not available for checking: 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'shiny', 'miniUI', 'htmltools', 'htmlwidgets', 'knitr', 'base64enc',
  'webshot'

Packages suggested but not available for checking:
  'dygraphs', 'leaflet', 'plotly', 'xts', 'rmarkdown', 'testthat',
  'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'plyr', 'magic', 'plotrix', 'ellipse', 'multcomp', 'data.table'

Packages suggested but not available for checking:
  'RGtk2', 'knitr', 'rmarkdown', 'HSAUR3', 'tidyr', 'ggplot2', 'GFD',
  'testthat'

VignetteBuilder packages required for checking but not installed:
  'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'caret', 'Metrics', 'e1071', 'dplyr', 'ggplot2', 'lme4'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'reticulate', 'nsga2R', 'lhs', 'stringr', 'randtoolbox', 'e1071',
  'gtools', 'pracma'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'Rdpack', 'RSpectra', 'Rtsne', 'RANN', 'labdsv', 'shapes',
  'fastcluster', 'dbscan', 'RcppArmadillo', 'RcppDist'

Package suggested but not available for checking: 'igraph'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'rentrez'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'reshape', 'assertthat', 'gtools'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'forecast', 'RColorBrewer', 'smooth'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'httr', 'sf', 'jsonlite', 'purrr', 'curl', 'dplyr', 'tidyr',
  'aws.s3', 'stringi', 'slippymath', 'protolite', 'rlang', 'geojsonsf',
  'magick', 'leaflet'

Packages suggested but not available for checking:
  'mapdeck', 'tigris', 'tidycensus'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'magrittr', 'htmlwidgets', 'htmltools', 'yaml', 'purrr', 'geojsonsf'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'shiny'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'dplyr', 'ggplot2', 'magrittr'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'sf'

Packages suggested but not available for checking:
  'dplyr', 'ggplot2', 'RColorBrewer', 'showtext'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'maps'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'colourvalues', 'googlePolylines', 'geojsonsf', 'htmlwidgets',
  'jsonify', 'magrittr', 'Rcpp', 'shiny', 'sfheaders', 'BH',
  'geometries', 'rapidjsonr', 'spatialwidget'

Packages suggested but not available for checking:
  'covr', 'googleway', 'jsonlite', 'knitr', 'rmarkdown',
  'spatialwidget', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'htmltools', 'htmlwidgets', 'jsonlite', 'leafem', 'leaflet',
  'leaflet.extras', 'leafpm', 'mapview', 'miniUI', 'raster', 'scales',
  'sf', 'shiny', 'sp'

Package suggested but not available for checking: 'crayon'

Package which this enhances but not available for checking: 'geojsonio'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
cf1.sample: no visible global function definition for 'rexp'
cf1.sample: no visible global function definition for 'rmultinom'
dherlang : <anonymous> : <anonymous>: no visible global function
  definition for 'dgamma'
erhmm.param.kmeans: no visible global function definition for 'kmeans'
erhmm.param.kmeans: no visible global function definition for 'var'
erhmm.param.kmeans: no visible global function definition for 'runif'
gmmpp.param.kmeans: no visible global function definition for 'kmeans'
gmmpp.param.kmeans: no visible global function definition for 'runif'
herlang.param.kmeans: no visible global function definition for
  'kmeans'
herlang.param.kmeans: no visible global function definition for 'var'
map.param.kmeans: no visible global function definition for 'kmeans'
map.param.kmeans: no visible global function definition for 'runif'
ph.param.random: no visible global function definition for 'runif'
ph.sample: no visible global function definition for 'rmultinom'
ph.sample: no visible global function definition for 'rexp'
pherlang : <anonymous> : <anonymous>: no visible global function
  definition for 'pgamma'
rherlang: no visible global function definition for 'rmultinom'
rherlang : <anonymous>: no visible global function definition for
  'rgamma'
Undefined global functions or variables:
  dgamma kmeans pgamma rexp rgamma rmultinom runif var
Consider adding
  importFrom("stats", "dgamma", "kmeans", "pgamma", "rexp", "rgamma",
             "rmultinom", "runif", "var")
to your NAMESPACE file.
Packages required but not available: 'sp', 'gam', 'maptools', 'colorspace'

Packages suggested but not available for checking:
  'maps', 'mapproj', 'PBSmapping'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'magrittr', 'raster', 'rgdal', 'rlang', 'stringr',
  'testthat'

Packages suggested but not available for checking:
  'EcoHydRology', 'geosphere'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'data.table', 'sf', 'pbapply'

Packages suggested but not available for checking:
  'ggplot2', 'latticeExtra', 'sp', 'progress'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'doParallel', 'Rcpp', 'CompQuadForm', 'RcppArmadillo'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
'library' or 'require' call to 'mgcv' which was already attached by Depends.
  Please remove these calls from your code.
ageprofile: no visible global function definition for 'model.frame'
ageprofile: no visible binding for global variable 'poisson'
ageprofile: no visible global function definition for 'predict.gam'
ageprofile: no visible global function definition for 'as.formula'
ageprofile: no visible global function definition for 'summary.gam'
ageprofile: no visible global function definition for 'contrasts<-'
ageprofile: no visible global function definition for 'anova.gam'
plotap: no visible global function definition for 'dev.new'
plotap: no visible global function definition for 'lines'
plotap: no visible global function definition for 'points'
plotap: no visible global function definition for 'legend'
splitter: no visible global function definition for 'reshape'
tabm: no visible global function definition for 'coef'
tabm: no visible global function definition for 'AIC'
Undefined global functions or variables:
  AIC anova.gam as.formula coef contrasts<- dev.new legend lines
  model.frame points poisson predict.gam reshape summary.gam
Consider adding
  importFrom("grDevices", "dev.new")
  importFrom("graphics", "legend", "lines", "points")
  importFrom("stats", "AIC", "as.formula", "coef", "contrasts<-",
             "model.frame", "poisson", "reshape")
to your NAMESPACE file.
Packages required but not available: 'sp', 'raster'

Packages suggested but not available for checking:
  'RColorBrewer', 'classInt', 'rgdal', 'rgeos', 'geosphere', 'knitr',
  'markdown'

Package which this enhances but not available for checking: 'geonames'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/mapmisc.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'tmap', 'cartography', 'ggplot2', 'rgdal', 'sf', 'dplyr', 'leaflet',
  'tmaptools', 'viridisLite', 'httr', 'curl', 'htmltools', 'leafpop',
  'leafsync', 'mapview', 'geojsonio', 'jsonlite', 'stringr'

Packages suggested but not available for checking:
  'knitr', 'DiagrammeR', 'rmarkdown', 'validate', 'unrepx'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'shapefiles'
Package unavailable to check Rd xrefs: 'shapefiles'
Running examples in 'mapplots-Ex.R' failed
The error most likely occurred in:

> ### Name: draw.shape
> ### Title: Draw shapefiles in an existing plot
> ### Aliases: draw.shape
> 
> ### ** Examples
> 
> library(shapefiles)
Error in library(shapefiles) : there is no package called 'shapefiles'
Execution halted
Packages required but not available:
  'Rcpp', 'RCurl', 'fields', 'ggpubr', 'ggsci', 'rstudioapi',
  'scatterplot3d', 'dplyr', 'crayon', 'cli', 'magrittr', 'reshape2',
  'ggplot2', 'smacof', 'princurve', 'dendextend', 'vcfR', 'zoo',
  'plotly'

Packages suggested but not available for checking:
  'testthat', 'updog', 'fitPoly'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'maps'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'flexmix'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'sp', 'rgdal', 'Hmisc'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'leaflet', 'spocc', 'sp', 'maps', 'RColorBrewer',
  'jsonlite', 'gistr', 'data.table'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'taxize', 'maptools', 'rgbif', 'scrubr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'magrittr', 'xml2', 'sf', 'bitops', 'stars', 'RgoogleMaps'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'leaflet', 'ggplot2', 'dplyr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'knitr', 'ggplot2', 'dplyr', 'sf'
Note: found 16 marked Latin-1 strings
  Note: found 980 marked UTF-8 strings
Packages required but not available: 'sf', 'classInt', 'Rcpp'

Packages suggested but not available for checking:
  'raster', 'rgdal', 'lwgeom', 'knitr', 'rmarkdown', 'tinytest', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'sf', 'countrycode', 'giscoR', 'raster', 'png', 'slippymath',
  'leaflet'

Packages suggested but not available for checking:
  'tmap', 'rgdal', 'tinytest', 'tibble', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'mapproj', 'mapdata', 'sp', 'maptools', 'rnaturalearth'
Packages unavailable to check Rd xrefs: 'sp', 'maptools', 'mapproj'
Packages required but not available:
  'raster', 'gstat', 'rgdal', 'sp', 'rgeos'

Package suggested but not available for checking: 'roxygen2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'survey', 'maptools', 'RColorBrewer', 'Hmisc', 'classInt', 'sp',
  'colorspace', 'reshape2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'sf', 'curl', 'png', 'terra', 'slippymath'

Packages suggested but not available for checking: 'covr', 'tinytest'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'sp'

Packages suggested but not available for checking:
  'rgeos', 'spatstat.geom', 'PBSmapping', 'maps', 'RColorBrewer',
  'raster', 'polyclip', 'plotrix', 'spatstat.linnet', 'spatstat.utils',
  'spatstat'

Package which this enhances but not available for checking: 'gpclib'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'slam'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'base64enc', 'htmltools', 'htmlwidgets', 'leafem', 'leaflet',
  'leafpop', 'png', 'raster', 'satellite', 'scales', 'sf', 'sp',
  'webshot'

Packages suggested but not available for checking:
  'covr', 'dplyr', 'knitr', 'later', 'leaflet.extras2', 'lwgeom',
  'mapdeck', 'plainview', 'rmarkdown', 'stars', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'cmrutils', 'fda', 'zoo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'plyr', 'mvtnorm', 'RColorBrewer', 'minpack.lm', 'zoo', 'numDeriv',
  'magrittr', 'scales'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'lubridate'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'shape', 'seacarb'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'tkrplot'
Packages required but not available: 'gee', 'lme4'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking: 'RUnit', 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'magrittr', 'cli', 'crayon', 'rstudioapi', 'purrr', 'tibble',
  'furniture', 'betareg', 'stringr'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'margins'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'prediction', 'data.table'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'testthat', 'ggplot2', 'gapminder', 'sandwich',
  'stargazer', 'lme4'

Packages which this enhances but not available for checking:
  'AER', 'betareg', 'ordinal', 'survey'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/TechnicalDetails.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'statmod'

Packages suggested but not available for checking:
  'cond', 'csampling', 'nlreg'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'shiny', 'shinyAce', 'markdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'xfun', 'mime'

Packages suggested but not available for checking: 'knitr', 'RCurl'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'lme4', 'R2admb', 'truncnorm', 'coda', 'numDeriv', 'expm', 'Rcpp',
  'TMB', 'optimx', 'data.table', 'knitr', 'kableExtra', 'bookdown'

Package suggested but not available for checking: 'ggplot2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'RSpectra', 'RcppEigen'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'prettydoc', 'scales'

VignetteBuilder packages required for checking but not installed:
  'knitr', 'rmarkdown'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'dplyr', 'iterators', 'doParallel', 'foreach', 'reshape2',
  'CausalImpact', 'tidyr', 'zoo', 'bsts', 'scales', 'Boom', 'utf8',
  'dtw'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'dplyr', 'magrittr', 'tidyr', 'tibble'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'ggplot2'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'yaml', 'testthat', 'httr', 'checkmate', 'lazyeval', 'rlang'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'ape', 'numDeriv', 'phangorn', 'RcppArmadillo'

Packages suggested but not available for checking:
  'knitr', 'testthat', 'markdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'igraph', 'matlab', 'expm', 'Rcpp', 'RcppParallel', 'RcppArmadillo'

Packages suggested but not available for checking:
  'knitr', 'testthat', 'diagram', 'DiagrammeR', 'msm', 'Rsolnp',
  'rmarkdown', 'ctmcd', 'bookdown', 'rticles'

Package which this enhances but not available for checking: 'etm'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'doParallel', 'optimParallel', 'foreach', 'ggplot2', 'metR'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'matrixcalc', 'gtools'

Packages suggested but not available for checking:
  'sandwich', 'SharpeR', 'testthat', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/AsymptoticMarkowitz.Rnw'
   'inst/doc/MarkowitzR.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
negbin.rel.clust: no visible global function definition for 'kmeans'
negbin.rel.clust: no visible global function definition for 'matplot'
negbin.rel.pca: no visible global function definition for 'princomp'
negbin.rel.pca: no visible global function definition for 'biplot'
pois.rel.clust: no visible global function definition for 'kmeans'
pois.rel.clust: no visible global function definition for 'matplot'
pois.rel.pca: no visible global function definition for 'princomp'
pois.rel.pca: no visible global function definition for 'biplot'
sim.negbin: no visible global function definition for 'rnbinom'
sim.pois: no visible global function definition for 'rpois'
wt.rel.negbin: no visible global function definition for 'var'
wt.rel.negbin: no visible global function definition for 'optimize'
wt.rel.negbin: no visible global function definition for 'integrate'
wt.rel.pois: no visible global function definition for 'optimize'
wt.rel.pois: no visible global function definition for 'integrate'
Undefined global functions or variables:
  biplot integrate kmeans matplot optimize princomp rnbinom rpois var
Consider adding
  importFrom("graphics", "matplot")
  importFrom("stats", "biplot", "integrate", "kmeans", "optimize",
             "princomp", "rnbinom", "rpois", "var")
to your NAMESPACE file.
Packages required but not available:
  'DBI', 'RSQLite', 'gdistance', 'geosphere', 'sp', 'raster', 'ncdf4',
  'plotrix', 'shape', 'reshape2', 'adehabitatMA', 'ggplot2'

Packages suggested but not available for checking:
  'maps', 'mapdata', 'mapproj', 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'doParallel', 'foreach'

Packages suggested but not available for checking:
  'microbenchmark', 'knitr', 'rmarkdown', 'rticles', 'ggplot2',
  'viridis', 'patchwork', 'xtable'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
'library' or 'require' call to 'MASS' which was already attached by Depends.
  Please remove these calls from your code.
mAr.pca: no visible binding for global variable 'sd'
Undefined global functions or variables:
  sd
Consider adding
  importFrom("stats", "sd")
to your NAMESPACE file.
Packages required but not available: 'neuralnet', 'earth'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'KFAS', 'mvtnorm'

Packages suggested but not available for checking:
  'broom', 'forecast', 'Formula', 'ggplot2', 'gridExtra', 'Hmisc',
  'lme4', 'maps', 'stringr', 'tidyr', 'xtable', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'e1071', 'earth'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'AnnotationDbi', 'dplyr', 'FactoMineR', 'factoextra', 'fitdistrplus',
  'ggplot2', 'GO.db', 'GOstats', 'plyr', 'kableExtra', 'org.Hs.eg.db',
  'stringr'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'matlab', 'fBasics', 'tseries', 'stabledist', 'metRology'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'devtools', 'forestinventory', 'JoSAE', 'knitr', 'microbenchmark',
  'pkgload', 'rmarkdown', 'rprojroot', 'rsae', 'RUnit', 'R.rsp', 'sae',
  'testthat'

VignetteBuilder packages required for checking but not installed:
  'knitr', 'R.rsp'
Packages unavailable to check Rd xrefs: 'sae', 'rsae', 'JoSAE', 'forestinventory'
Running 'runit.R'
Running the tests in 'tests/runit.R' failed.
Last 13 lines of output:
      predict
  
  > if (! dir.exists(unit_dir)) {
  +     stop("Can not find RUnit test directory ", unit_dir,
  +          ". Try to (re)install the package first.")
  + }
  > setup_file <- file.path(unit_dir, "setup.R")
  > if (file.exists(setup_file)) source(setup_file)
  > package_suite <- RUnit::defineTestSuite("maSAE_unit_test",
  +                                         dirs = unit_dir,
  +                                         testFileRegexp = "^runit.*\\.[rR]",
  +                                         testFuncRegexp = "^test_+")
  Error in loadNamespace(x) : there is no package called 'RUnit'
  Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
  Execution halted
Errors in running code in vignettes:
when running code in 'maSAE.Rnw'
  ...
Error in loadVignetteBuilder(pkgdir) : vignette builder 'knitr' not found
Calls: <Anonymous> -> loadVignetteBuilder
Execution halted

... incomplete output.  Crash?

  'maSAE.Rnw' using 'UTF-8'... failed to complete the test
Packages required but not available:
  'glmnet', 'foreach', 'survey', 'dplyr', 'magrittr', 'rpms', 'Rdpack'

Packages suggested but not available for checking: 'roxygen2', 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ashr', 'assertthat', 'plyr', 'rmeta', 'Rcpp', 'mvtnorm', 'abind',
  'RcppArmadillo', 'RcppGSL'

Packages suggested but not available for checking:
  'REBayes', 'corrplot', 'testthat', 'kableExtra', 'knitr',
  'rmarkdown', 'profmem'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ks', 'np', 'plyr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'broom', 'dplyr', 'magrittr', 'purrr', 'rlang', 'tibble', 'tidyr',
  'tidyselect'

Packages suggested but not available for checking:
  'covr', 'geepack', 'knitr', 'pls', 'rmarkdown', 'roxygen2',
  'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'demoKde'

Packages suggested but not available for checking:
  'knitr', 'rmarkdown', 'patchwork', 'visreg', 'tidyverse'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'testthat'
'LazyData' is specified without a 'data' directory
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Note: found 1 marked UTF-8 string
Packages required but not available:
  'coda', 'genetics', 'gtools', 'kinship2'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'RANN', 'corrplot', 'xtable', 'repmis', 'RcppArmadillo'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'rstudioapi', 'tibble', 'readr', 'jsonlite', 'clipr', 'purrr',
  'rlang'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'ggplot2', 'mvnfast', 'rcbalance', 'Rcpp'

Packages suggested but not available for checking:
  'dplyr', 'knitr', 'optmatch', 'RItools', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking:
  'testthat', 'httr', 'jsonlite'
Packages required but not available:
  'Rcpp', 'RcppProgress', 'rJava', 'lpSolve', 'partitions',
  'RcppArmadillo'

Packages suggested but not available for checking: 'knitr', 'ggplot2'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/matching.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'rgenoud', 'rbounds'
Package unavailable to check Rd xrefs: 'rgenoud'
Running examples in 'Matching-Ex.R' failed
The error most likely occurred in:

> ### Name: GenMatch
> ### Title: Genetic Matching
> ### Aliases: GenMatch
> ### Keywords: nonparametric
> 
> ### ** Examples
> 
> data(lalonde)
> attach(lalonde)
> 
> #The covariates we want to match on
> X = cbind(age, educ, black, hisp, married, nodegr, u74, u75, re75, re74)
> 
> #The covariates we want to obtain balance on
> BalanceMat <- cbind(age, educ, black, hisp, married, nodegr, u74, u75, re75, re74,
+                     I(re74*re75))
> 
> #
> #Let's call GenMatch() to find the optimal weight to give each
> #covariate in 'X' so as we have achieved balance on the covariates in
> #'BalanceMat'. This is only an example so we want GenMatch to be quick
> #so the population size has been set to be only 16 via the 'pop.size'
> #option. This is *WAY* too small for actual problems.
> #For details see http://sekhon.berkeley.edu/papers/MatchingJSS.pdf.
> #
> genout <- GenMatch(Tr=treat, X=X, BalanceMatrix=BalanceMat, estimand="ATE", M=1,
+                    pop.size=16, max.generations=10, wait.generations=1)
Loading required namespace: rgenoud
Failed with error:  'there is no package called 'rgenoud''
Error in loadNamespace(x) : there is no package called 'rgenoud'
Calls: GenMatch ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
Running 'AbadieImbens.R'
  Comparing 'AbadieImbens.Rout' to 'AbadieImbens.Rout.save' ... OK
  Running 'DehejiaWahba.R'
  Comparing 'DehejiaWahba.Rout' to 'DehejiaWahba.Rout.save' ... OK
  Running 'GenMatch.R'
Running the tests in 'tests/GenMatch.R' failed.
Complete output:
  > suppressMessages(library(rgenoud))
  Error in library(rgenoud) : there is no package called 'rgenoud'
  Calls: suppressMessages -> withCallingHandlers -> library
  Execution halted
Packages required but not available: 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'backports', 'Rcpp', 'RcppProgress'

Packages suggested but not available for checking:
  'optmatch', 'Matching', 'rgenoud', 'CBPS', 'dbarts', 'randomForest',
  'cobalt', 'lmtest', 'sandwich', 'RcppProgress', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Hmisc', 'Matching'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'rlang', 'forcats', 'cli'

Packages suggested but not available for checking:
  'testthat', 'covr', 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'rcbsubset', 'plyr', 'coin', 'weights', 'mvtnorm', 'Hmisc'

Packages suggested but not available for checking:
  'optmatch', 'testthat', 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

Files named as vignettes but with no recognized vignette engine:
   'inst/doc/multiMatch_vignette.Rnw'
(Is a VignetteBuilder field missing?)

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'MatchIt', 'mice', 'rlang', 'survey', 'WeightIt'

Packages suggested but not available for checking:
  'Amelia', 'cobalt', 'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking: 'knitr', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'jpeg', 'magrittr', 'png', 'readbitmap', 'stringr', 'downloader',
  'imager', 'moments'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'js'
Packages required but not available:
  'purrr', 'base64enc', 'httr', 'rstudioapi', 'texPreview', 'magick'

Packages suggested but not available for checking: 'testthat', 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dfoptim', 'mvtnorm', 'seriation', 'igraph', 'gplots', 'cba'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Malformed Description field: should contain one or more complete sentences.
Found the following possibly unsafe calls:
File 'matlab/R/zzz.R':
  unlockBinding("savedTime", .MatlabNamespaceEnv)

colorbar : colorbar.EO: no visible global function definition for 'par'
colorbar : colorbar.EO: no visible global function definition for
  'axis'
colorbar : colorbar.EO: no visible global function definition for
  'axTicks'
colorbar : colorbar.EO: no visible global function definition for 'box'
colorbar : colorbar.NO: no visible global function definition for
  'axis'
colorbar : colorbar.NO: no visible global function definition for
  'axTicks'
colorbar : colorbar.NO: no visible global function definition for 'box'
imagesc : pretty.axp: no visible global function definition for 'par'
imagesc: no visible global function definition for 'axis'
imagesc: no visible global function definition for 'box'
jet.colors: no visible global function definition for 'rgb'
multiline.plot.colors : get.gca.colororder: no visible global function
  definition for 'rgb'
std: no visible global function definition for 'sd'
Undefined global functions or variables:
  axTicks axis box par rgb sd
Consider adding
  importFrom("grDevices", "rgb")
  importFrom("graphics", "axTicks", "axis", "box", "par")
  importFrom("stats", "sd")
to your NAMESPACE file.
Package required but not available: 'stringr'

Package suggested but not available for checking: 'covr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'xtable', 'rgl', 'car'

Packages suggested but not available for checking:
  'knitr', 'rglwidget', 'rmarkdown', 'carData'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'shiny', 'data.table', 'dplyr', 'tidyr', 'tidyverse', 'plotly', 'DT',
  'shinydashboard', 'shinyWidgets', 'forecast', 'ISOweek'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages suggested but not available for checking: 'bigmemory', 'gputools'
'library' or 'require' call to 'bigmemory' in package code.
  Please use :: or requireNamespace() instead.
  See section 'Suggested packages' in the 'Writing R Extensions' manual.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'rlang', 'ggplot2', 'reshape2'

Packages suggested but not available for checking:
  'testthat', 'knitr', 'rmarkdown', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'plotrix', 'pracma', 'progress', 'RSpectra', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'Rcpp'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'scatterplot3d'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'Rcpp', 'plyr', 'glasso', 'RcppArmadillo'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'mvtnorm'

Packages suggested but not available for checking:
  'formatR', 'knitr', 'LaplacesDemon', 'matrixcalc', 'matrixsampling',
  'MBSP', 'rmarkdown', 'roxygen2', 'sessioninfo', 'spelling',
  'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'TTR', 'zoo', 'fftw', 'signal'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'checkmate', 'Rcpp', 'RcppParallel', 'RcppProgress', 'RcppThread'

Packages suggested but not available for checking:
  'testthat', 'debugme', 'spelling'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package suggested but not available for checking: 'expm'

Packages which this enhances but not available for checking:
  'MatrixModels', 'graph', 'SparseM', 'sfsmisc', 'igraph', 'maptools',
  'sp', 'spdep'
Packages unavailable to check Rd xrefs: 'SparseM', 'spdep', 'expm', 'graph', 'igraph', 'sfsmisc', 'MatrixModels', 'maptools', 'sp'
Package required but not available: 'keep'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'base64enc', 'ggplot2', 'knitr', 'microbenchmark', 'R.devices',
  'R.rsp'

VignetteBuilder package required for checking but not installed: 'R.rsp'
Packages suggested but not available for checking: 'ggplot2', 'reshape2'
Package required but not available: 'matrixStats'

Packages suggested but not available for checking:
  'testthat', 'moments', 'car', 'cosinor', 'cosinor2', 'PMCMR'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'grr'

Package suggested but not available for checking: 'testthat'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'MGRASTer', 'BIOM.utils'

Packages suggested but not available for checking:
  'RJSONIO', 'qvalue', 'ecodist', 'gplots', 'scatterplot3d'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'assertthat', 'dplyr', 'Hmisc', 'magrittr', 'purrr', 'rlang',
  'stringi', 'tibble'

Packages suggested but not available for checking:
  'covr', 'knitr', 'matsindf', 'rmarkdown', 'testthat', 'tidyr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'magrittr', 'matsbyname', 'purrr', 'rlang', 'tibble',
  'tidyr'

Packages suggested but not available for checking:
  'ggplot2', 'knitr', 'rmarkdown', 'testthat', 'covr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'lubridate', 'tidyr', 'magrittr', 'ggrepel'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'data.table', 'gtools', 'stringr', 'igraph', 'RColorBrewer',
  'ggplot2', 'Rdpack'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'beastier', 'curl', 'stringr'

Packages suggested but not available for checking:
  'beautier', 'knitr', 'rmarkdown', 'testit', 'testthat'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'Rcpp', 'mda', 'RcppArmadillo'

Package suggested but not available for checking: 'knitr'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'shiny', 'shinyAce', 'metafor', 'MAc', 'MAd', 'quantreg', 'ggplot2',
  'compute.es', 'SCMA', 'SCRT', 'irr', 'shinyBS', 'weightr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'corpcor', 'foreach', 'multcomp', 'randomForest'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Package required but not available: 'mnormt'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'aucm', 'Rsolnp', 'Hmisc'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available:
  'magrittr', 'purrr', 'rlang', 'mstate', 'MCMCpack', 'dplyr',
  'mvtnorm'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.
Packages required but not available: 'ggplot2', 'raster'

Packages suggested but not available for checking: 'knitr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: 'knitr'

See section 'The DESCRIPTION file' in the 'Writing R Extensions'
manual.