Package required but not available: ‘Rcpp’

Packages suggested but not available for checking: 'testthat', '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', 'plyr', 'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking:
  'MBSP', 'rmarkdown', 'roxygen2', 'spelling', 'testthat'
Running ‘spelling.R’ [0s/0s]
  Running ‘testthat.R’ [0s/1s]
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 checking math rendering: package 'V8' unavailable
'LazyData' is specified without a 'data' directory
Packages required but not available: 'Rcpp', 'RcppParallel', 'RcppThread'

Packages suggested but not available for checking:
  'spelling', 'testthat', 'xml2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
'LazyData' is specified without a 'data' directory
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'dplyr', 'Rcpp', 'stringr', 'tidyr'

Packages suggested but not available for checking:
  'ggfortify', 'lme4', 'patchwork', 'rmarkdown', 'testthat',
  'tidyverse'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping vignette re-building
Packages suggested but not available for checking: 'ggplot2', 'R.rsp'

VignetteBuilder package required for checking but not installed: ‘R.rsp’
Package has ‘vignettes’ subdirectory but apparently no vignettes.
Perhaps the ‘VignetteBuilder’ information is missing from the
DESCRIPTION file?
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking: 'ggplot2', 'reshape2'
Packages suggested but not available for checking:
  'PMCMRplus', 'car', 'cosinor', 'cosinor2'
Packages required but not available: 'dplyr', 'RCLabels'

Packages suggested but not available for checking:
  'covr', 'Hmisc', 'matsindf', 'rmarkdown', 'spelling', 'testthat',
  'tidyr'

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

Packages suggested but not available for checking:
  'covr', 'ggplot2', 'Hmisc', 'RCLabels', 'rmarkdown', 'spelling',
  'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'lubridate', 'tidyr', 'ggrepel'

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

Package suggested but not available for checking: ‘rmarkdown’

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: 'MCMCpack', 'dplyr'

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

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'CVXR', 'glmnet', 'intervals', 'SIHR'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘plgp’

Package suggested but not available for checking: ‘lhs’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘raster’

Package suggested but not available for checking: ‘dismo’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘miscTools’

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.
Found export directive that requires package ‘methods’:
  ‘exportClasses’
Remove all such namespace directives (if obsolete) or ensure that the
DESCRIPTION Depends or Imports field contains ‘methods’.
Packages required but not available: 'GenSA', 'GA', 'scales'

Package suggested but not available for checking: ‘rmarkdown’

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.
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.
Package required but not available: ‘nloptr’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'testthat', 'quickcheck', 'covr'
Running ‘testthat.R’ [0s/0s]
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:
  'devtools', 'digest', 'dplyr', 'lubridate', 'rvest', 'stringr',
  'xml2'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'leaflet', 'lubridate', 'MazamaCoreUtils',
  'MazamaSpatialUtils', 'readr', 'stringr', 'tidygeocoder'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'MazamaSpatialUtils', 'dplyr', 'MazamaCoreUtils', 'sf', 'tmap'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'sf', 'dplyr', 'MazamaCoreUtils', 'rmapshaper', 'stringr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'lubridate', 'MazamaCoreUtils', 'MazamaRollUtils', 'stringr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # Copyright 2017-2017 Steven E. Pav. All Rights Reserved.
  > # Author: Steven E. Pav
  > 
  > # This file is part of mazealls.
  > #
  > # mazealls is free software: you can redistribute it and/or modify
  > # it under the terms of the GNU Lesser General Public License as published by
  > # the Free Software Foundation, either version 3 of the License, or
  > # (at your option) any later version.
  > #
  > # mazealls 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 Lesser General Public License for more details.
  > #
  > # You should have received a copy of the GNU Lesser General Public License
  > # along with mazealls.  If not, see <http://www.gnu.org/licenses/>.
  > 
  > # env var:
  > # nb: 
  > # see also:
  > # todo:
  > # changelog: 
  > #
  > # Created: 2017-10-03
  > # Copyright: Steven E. Pav, 2017-2017
  > # 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
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘igraph’

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', 'rmarkdown'

VignetteBuilder package required for checking but not installed: ‘R.rsp’
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Package required but not available: ‘Rcpp’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'rmarkdown', 'emojifont', 'testthat', 'covr'
Running ‘testthat.R’ [0s/0s]
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', 'ggrepel'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/MBA.Rcheck/00install.out’ for details.
Package required but not available: ‘Rcpp’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'stringr', 'xml2', 'PKNCA', 'future', 'furrr', 'ggplot2'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
'LazyData' is specified without a 'data' directory
Packages required but not available: 'OpenMx', 'sem'

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

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'geometry', 'terra'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'testthat', 'rmarkdown'
'LazyData' is specified without a 'data' directory
Package required but not available: ‘chipPCR’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'stringr', 'ggplot2', 'caTools', 'caret', 'keras', 'Rtsne', 'dplyr',
  'e1071', 'pROC', 'readr', 'reshape2', 'reticulate', 'rgl',
  'tensorflow', 'xgboost'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'devtools', 'roxygen2'
Running ‘testthat.R’ [0s/1s]
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:
  'scales', 'dplyr', 'R2jags', 'rjags', 'igraph', 'reshape2'

Packages suggested but not available for checking:
  'overlapping', 'ggplot2', 'testthat', 'ggdist', 'netmeta',
  'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'R2jags', 'rjags', 'reshape2'

Packages suggested but not available for checking:
  'scales', 'overlapping', 'ggplot2', 'ggdist', 'igraph', 'Hmisc',
  'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'fields', 'BayesX', 'gbm', 'testthat', 'kangar00'
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘rmarkdown’
checkRd: (-1) SIGMAS.Rd:17: Lost braces; missing escapes or markup?
    17 | Sigmahat =  (Y^{T} Y)/n;
       |                ^
checkRd: (-1) SIGMAS.Rd:18: Lost braces; missing escapes or markup?
    18 | Sigmahat_fit = (Y^{T}  P_fx  Y)/n;
       |                   ^
checkRd: (-1) matpower.Rd:17: Lost braces; missing escapes or markup?
    17 | The function computes M^{power} for a symmetric matrix M. }
       |                         ^
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘ggplot2’

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

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'cowplot', 'dplyr', 'tidyr', 'scales'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'dplR', 'Rfast'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘MCMCpack’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘MCMCpack’

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'ggplot2', 'ggpubr'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Epi', 'Rcpp', 'highs', 'misty', 'copula'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘rgl’

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', 'ggrepel', 'plotly'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'mlr3', 'mlr3misc', 'mlr3pipelines', 'rmarkdown', 'glmnet'

Packages suggested but not available for checking:
  'formattable', 'tidyverse', 'PracTools', 'mlr3learners', 'mlr3oml',
  'paradox', 'ranger', 'xgboost', 'covr', 'testthat'

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

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

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

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘testthat’
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/0s]
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: 'Rglpk', 'plyr', '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: 'Rcpp', 'RcppArmadillo'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'lubridate', 'dplyr'
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
  > # * https://testthat.r-lib.org/articles/special-files.html
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘rmarkdown’
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘boot.heterogeneity’

Packages suggested but not available for checking: 'roxygen2', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) MCbound.precalc1.Rd:16: Lost braces in \itemize; meant \describe ?
checkRd: (-1) MCbound.precalc1.Rd:17: Lost braces in \itemize; meant \describe ?
checkRd: (-1) MCbound.precalc1.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) MCbound.precalc1.Rd:19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) MCbound.precalc1.Rd:20: Lost braces in \itemize; meant \describe ?
checkRd: (-1) MCbound.precalc1.Rd:21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) MCbound.precalc1.Rd:22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) MCbound.precalc1.Rd:23: Lost braces in \itemize; meant \describe ?
checkRd: (-1) MCbound.precalc1.Rd:24: Lost braces in \itemize; meant \describe ?
checkRd: (-1) MCbound.precalc1.Rd:25: Lost braces in \itemize; meant \describe ?
checkRd: (-1) MCbound.precalc1.Rd:26: Lost braces in \itemize; meant \describe ?
checkRd: (-1) MCbound.precalc1.Rd:27: Lost braces in \itemize; meant \describe ?
checkRd: (-1) MCtest.Rd:39: Escaped LaTeX specials: \#
checkRd: (-1) MCtest.Rd:40: Escaped LaTeX specials: \#
Skipping checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'dplyr', 'Rcpp', 'readr', 'stringi', 'stringr', 'tm', 'xml2'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'Rcpp', 'RcppArmadillo'

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

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 suggested but not available for checking: 'rmarkdown', 'geometry'
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking:
  'covr', 'plyr', 'testthat'
Running ‘testthat.R’ [0s/1s]
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: 'future.apply', 'progressr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ape', 'cubature'

Packages suggested but not available for checking:
  'rgl', 'MCMCpack', 'bayesm'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/MCMCpack.Rcheck/00install.out’ for details.
'LazyData' is specified without a 'data' directory
Packages required but not available: 'Rcpp', 'RcppArmadillo', 'RcppEigen'

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: 'MCMCglmm', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking:
  'covr', 'readr', 'testthat'
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available: 'Rcpp', 'RcppEigen'

Packages suggested but not available for checking:
  'dbarts', 'BayesLogit', 'spdep', 'sf', 'bayesplot', 'posterior',
  'testthat', 'roxygen2', 'rmarkdown', 'survey'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘ape’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'rstan', 'overlapping'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'survey', 'dplyr', 'lme4', 'stringr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ecr', 'grapherator', 'ggplot2', 'qgraph', 'viridis', 'igraph'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'R2jags', 'tidyverse', 'tidybayes', 'runjags', 'dplyr', 'ggplot2',
  'plyr', 'readxl', 'stringr', 'tidyr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/1s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available: 'forecast', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/1s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available: 'MCMCpack', 'plyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'testthat', 'covr'
Running ‘testthat.R’ [0s/0s]
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: 'doRNG', 'DoseFinding', 'dplyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘DoseFinding’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'shiny', 'shinydashboard', 'devEMF', 'officer', 'flextable', 'Rcpp',
  'RcppNumerical', 'RcppEigen'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'future', 'future.apply', 'rjags', 'bayesplot', 'tidybayes', 'dplyr',
  'tidyr', 'stringr', 'ggplot2', 'patchwork'

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

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.
Package required but not available: ‘SMR’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'DescTools', 'dplyr', 'formatters', 'ggplot2', 'mcr', 'pROC',
  'tidyr', 'VCA'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'testthat', 'covr'
Running ‘testthat.R’ [0s/0s]
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: ‘robslopes’

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

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) eigp.Rd:34: Escaped LaTeX specials: \&
checkRd: (-1) imcdiag.Rd:50: Escaped LaTeX specials: \&
checkRd: (-1) imcdiag.Rd:52: Escaped LaTeX specials: \&
checkRd: (-1) mc.plot.Rd:23: Escaped LaTeX specials: \&
checkRd: (-1) mc.plot.Rd:25: Escaped LaTeX specials: \&
checkRd: (-1) mctest.Rd:39: Escaped LaTeX specials: \&
checkRd: (-1) mctest.Rd:41: Escaped LaTeX specials: \&
checkRd: (-1) omcdiag.Rd:39: Escaped LaTeX specials: \&
checkRd: (-1) omcdiag.Rd:41: Escaped LaTeX specials: \&
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'dplyr', 'ggplot2', 'lubridate'

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

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

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘testthat’

Package suggested but not available for checking: ‘rmarkdown’

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

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/1s]
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 checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘testthat’
Package required but not available: ‘ggplot2’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘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:
  'ranger', 'Rcpp', 'splines2', 'RcppArmadillo'

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

Packages suggested but not available for checking:
  'ape', 'dendextend', 'rmarkdown'

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/MDFS.Rcheck/00install.out’ for details.
Packages suggested but not available for checking: 'testthat', 'spelling'
Running ‘spelling.R’ [0s/0s]
  Running ‘testthat.R’ [0s/1s]
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', 'testthat', 'psqn'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) normalizeWithMA.Rd:19: Lost braces
    19 | 	\item{expGroup}{ a \code{vector} of experimental grouping variable such as plate. The length of code{expGroup} must be same as the number of rows of \code{mD}.}
       |                                                                                                             ^
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘RGtk2’
'LazyData' is specified without a 'data' directory
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'shinydashboard', 'DT', 'leaflet', 'leaflet.extras', 'shinyjs',
  'ggplot2', 'dplyr', 'readxl', 'plotly', 'reactable', 'shinyWidgets',
  'shiny', 'htmltools', 'bslib', 'htmlwidgets'

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

Packages which this enhances but not available for checking:
  'JointAI', 'jomo', 'mice'

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

Package suggested but not available for checking: ‘rmarkdown’

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

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘gplots’

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.
checkRd: (-1) mdp_example_forest.Rd:36: Lost braces; missing escapes or markup?
    36 | Let {1, ... S} be the states of the forest. the Sth state being the oldest.
       |     ^
Skipping checking math rendering: package 'V8' unavailable
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'smacof', 'princurve', 'rgl', 'reshape'

Packages suggested but not available for checking: 'qtl', '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:
  'smacof', 'clusterSim', 'symbolicDA', 'animation', 'spdep'

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: 'shiny', 'rmarkdown', 'dplyr'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dbplyr', 'downloader', 'dplyr', 'fs', 'ggplot2', 'htmlwidgets',
  'kableExtra', 'RMariaDB', 'skimr', 'stringr', 'webshot2'

Packages suggested but not available for checking:
  'Lahman', 'leaflet', 'etl', 'macleish', 'mosaic', 'lubridate', 'sf',
  'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'cowplot', 'hrbrthemes', 'ggplot2', 'ggtext', 'ggthemes', 'tvthemes'

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

VignetteBuilder package required for checking but not installed: ‘R.rsp’
'LazyData' is specified without a 'data' directory
Package has ‘vignettes’ subdirectory but apparently no vignettes.
Perhaps the ‘VignetteBuilder’ information is missing from the
DESCRIPTION file?
Packages required but not available: 'dplyr', 'stringr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dcm2', 'dplyr', 'fs', 'posterior', 'Rcpp', 'RcppParallel', 'rstan',
  'rstantools', 'tidyr', 'RcppEigen', 'StanHeaders'

Packages suggested but not available for checking:
  'cmdstanr', 'rmarkdown', 'roxygen2', 'spelling', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
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’
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/1s]
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: ‘dplR’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dynlm', 'hdrcde'

Packages suggested but not available for checking: 'car', 'geepack', 'plm'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'latentnet', 'e1071'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'microeco', 'dplyr', 'igraph', 'reshape2', 'ggpubr', 'ggplot2'

Packages suggested but not available for checking:
  'rgexf', 'ape', 'file2meco'

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

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'microeco', 'GUniFrac', 'ggpubr', 'lmerTest', 'glmmTMB'

Package suggested but not available for checking: ‘ape’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Skipping checking math rendering: package 'V8' unavailable
checkRd: (-1) bhm.mcmc.Rd:37: Lost braces; missing escapes or markup?
    37 |   where \eqn{N_{ij}} denotes the number of times that the error profile \eqn{i} is cited on a report from hospital {j} and \eqn{y_{ij}} is the corresponding number of times that profile \eqn{i} in hospital \eqn{j} was reported with harm.
       |                                                                                                                    ^
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'stringi', 'stringr'

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

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘car’

Packages suggested but not available for checking:
  'arm', 'glmnet', 'mice', 'SuperLearner'

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

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

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:
  'Rcpp', 'RcppNumerical', 'officer', 'flextable', 'devEMF', 'shiny',
  'shinydashboard', 'shinyMatrix', 'lme4', 'lmerTest', 'pbkrtest',
  'RcppEigen'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘doRNG’

Packages suggested but not available for checking:
  'flextable', 'officer', 'rmarkdown', 'pander'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘mediation’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'learnr'
Packages required but not available: 'plyr', 'reshape2'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'rmarkdown', 'dplyr', 'ggplot2', 'testthat'
Running ‘testthat.R’ [0s/0s]
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', 'rmarkdown', 'spelling'
Running ‘spelling.R’ [0s/0s]
  Running ‘testthat.R’ [0s/0s]
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:
  'rmarkdown', 'ggplot2', 'tidyr', 'dplyr', 'tm', 'patchwork',
  'wordcloud2'
checkRd: (-1) MED.Rd:25: Lost braces
    25 | The vector of treatment assignments of length \eqn{n}. Must be coded as \eqn{\{0,1} {{0,1}}.
       |                                                                                     ^
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'dplyr', 'stringr', 'vroom', 'bib2df', 'lubridate'

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

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

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'TraMineR', 'WeightedCluster'

Package suggested but not available for checking: ‘rmarkdown’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'SKAT', 'pedgene', 'gdsfmt', 'AnnotationDbi', 'RSQLite', 'famSKATRC',
  'Rcpp'

Packages suggested but not available for checking:
  'rmarkdown', 'TxDb.Hsapiens.UCSC.hg19.knownGene', 'org.Hs.eg.db'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'igraph', 'Rcpp', 'ggplot2', 'reshape', 'fpc', 'ggrepel', 'ggraph'

Package suggested but not available for checking: ‘rmarkdown’

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: ‘ggplot2’

Package suggested but not available for checking: ‘rmarkdown’

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

Packages suggested but not available for checking:
  'covr', 'ggplot2', 'R.rsp', 'rmarkdown', 'spelling', 'testthat'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'covr', 'readr', 'testthat'
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/meltr.Rcheck/00install.out’ for details.
Packages required but not available:
  'ggplot2', 'plyr', 'dplyr', 'reticulate', 'Rcpp', 'shiny', 'shinyjs',
  'tidyr', 'leaflet', 'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'shiny', 'shinydashboard', 'shinyWidgets', 'shinyBS', 'shinyjs',
  'tidyr', 'dplyr', 'stringr', 'stringi', 'DT', 'formattable',
  'ggplot2', 'plotly', 'mem'

Packages suggested but not available for checking:
  'openxlsx', 'readxl', 'haven', 'readODS', 'magick'

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

Packages suggested but not available for checking:
  'cowplot', 'ggimage', 'rmarkdown', 'prettydoc', 'shadowtext'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'cowplot', 'shiny', 'shinycssloaders', 'shinyBS',
  'colourpicker'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ade4', 'gdistance', 'raster'

Packages suggested but not available for checking: 'adegenet', 'geosphere'

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: ‘rmarkdown’

Packages which this enhances but not available for checking:
  'AER', 'car', 'lme4', 'haven'
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'forecast', 'LongMemoryTS'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘digest’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'bookdown', 'distill', 'rmarkdown', 'rmdformats', 'usethis'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘cachem’

Packages suggested but not available for checking:
  'digest', 'aws.s3', 'covr', 'googleAuthR', 'googleCloudStorageR',
  'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘digest’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'ranger', 'cowplot', 'viridis', 'stringr', 'HH', 'tidyr'

Packages suggested but not available for checking:
  'devtools', 'kableExtra', 'rmarkdown', 'virtualPollen'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘rmarkdown’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'tidyr', 'dplyr', 'RcppRoll', 'EnvStats'

Package suggested but not available for checking: ‘magick’

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:
  'rmarkdown', 'plotly', 'ggplot2', 'iterpc', 'rjson', 'glmnet',
  'Rcpp', 'RcppArmadillo'

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:
  'Thresher', 'Rtsne', 'dendextend', 'igraph', 'umap', 'kohonen'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'lme4', 'nonnest2'

Package suggested but not available for checking: ‘mirt’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘rmarkdown’

Packages suggested but not available for checking: 'readxl', '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: 'dplyr', 'tidyr', 'stringr'

Packages suggested but not available for checking:
  'DT', 'rmarkdown', 'devtools'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # Required packages for testing
  > suppressMessages({
  +   library(testthat)
  +   library(merlin)
  +   library(nlme)
  +   library(survival)
  + })
  Error in library(testthat) : there is no package called 'testthat'
  Calls: suppressMessages -> withCallingHandlers -> library
  Execution halted
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'missForest', 'ggpubr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘OpenMx’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'arm', 'lme4', 'dplyr', 'shiny', 'ggplot2', 'blme', 'broom.mixed'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'future.apply', 'rstanarm', 'Amelia', 'DT'

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

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

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

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', 'patchwork'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'geepack', 'ggplot2', 'ggformula', 'glmnet', 'RcppArmadillo'

Packages suggested but not available for checking:
  'lme4', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'rapportools', 'stringr', 'gt'

Package suggested but not available for checking: ‘rmarkdown’

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Packages required but not available: 'shiny', 'shinyBS', 'caTools'

Package suggested but not available for checking: ‘INLA’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'shiny', 'ggvis', 'DT'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rstan’
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'Rcpp', 'bridgesampling', 'RcppParallel', 'rstan', 'rstantools',
  'RcppEigen', 'StanHeaders'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'fs', 'piggyback', 'readr', 'stringr'

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

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:
  'usethis', 'dplyr', 'ggplot2', 'ggfittext', 'ggimage', 'patchwork',
  'scales', 'stringr', 'tidyr', 'meta', 'rmarkdown'

Packages suggested but not available for checking:
  'Rd2roxygen', 'kableExtra', 'downloadthis', 'spelling'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'glmnet', 'survminer', 'rms', 'tidyr', 'ggplot2', 'dplyr'

Package suggested but not available for checking: ‘rmarkdown’

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

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'C50', 'caret', 'e1071', 'InterpretMSSpectrum', 'pcaMethods', 'plyr',
  'webchem'

Packages suggested but not available for checking:
  'mixOmics', 'ropls', 'xcms'

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: 'ggplot2', 'partitions'

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.
Packages required but not available:
  'factoextra', 'dbscan', 'dplyr', 'seqinr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'stringr', 'ggplot2', 'igraph', 'taxize', 'seqinr', 'ape', 'dplyr',
  'readr', 'ggfittext', 'cowplot', 'GA', 'Rcpp'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'phyloseq', 'traits', 'biomformat', 'DESeq2'

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

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’
Running ‘testthat.R’ [0s/0s]
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', 'shiny', 'stringr', 'tidyr'

Packages suggested but not available for checking:
  'covr', 'patchwork', 'readr', 'rio', 'rmarkdown', 'roxygen2',
  'spelling', 'testthat', 'vdiffr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'tidyr', 'dplyr', 'stringr', 'xml2', 'readxl'

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:
  'dplyr', 'ggplot2', 'tidyr', 'verification', 'spatstat.geom',
  'ggrepel', 'cowplot'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Found the following files/directories:
  ‘cycHumanBloodData.csv’ ‘cycHumanBloodDesign.csv’
  ‘cycMouseLiverProtein.txt’ ‘cycMouseLiverRNA.csv’ ‘cycSimu4h2d.csv’
  ‘cycYeastCycle.csv’ ‘example’
Packages suggested but not available for checking:
  'BiasedUrn', 'igraph', 'ape', 'testthat', 'digest', 'lme4', 'meta',
  'netmeta', 'rms'
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # to also run skip_on_cran() tests, uncomment:
  > #Sys.setenv(NOT_CRAN="true")
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘magick’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'metadynminer', 'rgl', '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: ‘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: 'caret', 'ggplot2', 'e1071', 'gbm'

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', 'plyr', 'RcppArmadillo'

Package suggested but not available for checking: ‘reshape2’

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'lme4', 'minqa', 'nloptr', 'lbfgsb3c', 'Rcgmin', 'Rvmmin',
  'CompQuadForm', 'BiasedUrn', 'Epi', 'glmmTMB', 'ape', 'R.rsp',
  'testthat', 'rmarkdown'

VignetteBuilder package required for checking but not installed: ‘R.rsp’
checkRd: (-1) conv.wald.Rd:109: Lost braces; missing escapes or markup?
   109 |       Note that the back-calculated sampling variance for study 2 is not identical in these two examples, because the CI bounds and p-value are rounded to two decimal places, which introduces some inaccuracies. Also, if both (\code{ci.lb}, \code{ci.ub}) and either \code{zval} or {pval} is available for a study, then the back-calculation of \mjseqn{v_i} via the confidence interval is preferred.
       |                                                                                                                                                                                                                                                                                         ^
Unknown packages ‘Rcgmin’, ‘Rvmmin’ in Rd xrefs
Running examples in ‘metafor-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: llplot
> ### Title: Plot of Likelihoods for Individual Studies
> ### Aliases: llplot
> ### Keywords: hplot
> 
> ### ** Examples
> 
> ### calculate log risk ratios and corresponding sampling variances
> dat <- escalc(measure="RR", ai=tpos, bi=tneg, ci=cpos, di=cneg, data=dat.bcg)
> 
> ### draw likelihoods
> llplot(measure="GEN", yi=yi, vi=vi, data=dat, lwd=1, refline=NA, xlim=c(-3,2))
> 
> ### create plot (Figure 2 in van Houwelingen, Zwinderman, & Stijnen, 1993)
> llplot(measure="OR", ai=b.xci, n1i=nci, ci=b.xti, n2i=nti, data=dat.collins1985a,
+        lwd=1, refline=NA, xlim=c(-4,4), drop00=FALSE)
Error in llplot(measure = "OR", ai = b.xci, n1i = nci, ci = b.xti, n2i = nti,  : 
  Please install the 'BiasedUrn' package to use this function.
Execution halted
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > ### to also run skip_on_cran() tests, uncomment:
  > #Sys.setenv(NOT_CRAN="true")
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package has ‘vignettes’ subdirectory but apparently no vignettes.
Perhaps the ‘VignetteBuilder’ information is missing from the
DESCRIPTION file?
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘glmnet’

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘stringr’

Packages suggested but not available for checking:
  'EBImage', 'ape', '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:
  'dplyr', 'emdbook', 'future', 'ggplot2', 'ggrepel', 'gplots', 'ks',
  'Rfast', 'stringr', 'tidyr', 'viridis'

Packages suggested but not available for checking:
  'DT', 'rmarkdown', 'tidyverse'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/1s]
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 checking math rendering: package 'V8' unavailable
'LazyData' is specified without a 'data' directory
Skipping checking math rendering: package 'V8' unavailable
checkRd: (-1) asympVar_LinReg.Rd:52: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) asympVar_LinReg.Rd:53: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) asympVar_LinReg.Rd:54: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) asympVar_LinReg.Rd:55: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) asympVar_LinReg.Rd:56: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) asympVar_LogReg.Rd:55: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) asympVar_LogReg.Rd:56: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) asympVar_LogReg.Rd:57: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) asympVar_LogReg.Rd:58: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) asympVar_LogReg.Rd:59: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get_gamma_EB.Rd:19: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get_gamma_EB.Rd:20: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get_gamma_EB.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'ggplot2', 'Rmisc', 'gplots', 'stringr', 'GEOquery', 'GEOmetadb',
  'RSQLite', 'ggpubr', 'ROCR', 'manhattanly', 'DT', 'pheatmap', 'plyr',
  'dplyr', 'reshape2', 'rmarkdown', 'AnnotationDbi', 'readr', 'plotly',
  'httpuv'

Packages suggested but not available for checking:
  'BiocStyle', 'snplist', 'magick'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dataone', 'dplyr', 'EML', 'emld', 'lubridate', 'readr', 'stringr',
  'tidyr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'igraph', 'e1071', 'spatstat.geom', 'spatstat.random', 'terra'

Package suggested but not available for checking: ‘rasterVis’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'dplyr', 'tidyr'

Packages suggested but not available for checking:
  'DescTools', 'covr', 'kableExtra', 'rmarkdown', 'readxl', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'ggplot2', 'covr', 'dplyr', 'gt', 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/1s]
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: 'reactable', 'htmltools'

Packages suggested but not available for checking:
  'table1', 'devtools', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'plyr', 'ggplot2', 'metagenomeSeq', 'DESeq2', 'edgeR'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'GEOquery', 'org.Hs.eg.db', 'annaffy', 'hgu133plus2.db',
  'hgu133a.db', 'hgu95av2.db'
Package required but not available: ‘Hmisc’

Package suggested but not available for checking: ‘testthat’

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'meta', 'lme4', 'plyr', 'dplyr', 'tidyr', 'ggplot2', 'lmerTest',
  'compositions'

Packages suggested but not available for checking:
  'testthat', 'repmis', 'rmarkdown', 'gplots', 'reshape2', 'caret',
  'tsibble'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'lme4', 'dplyr', 'plyr', 'pROC', 'ggplot2'

Packages suggested but not available for checking:
  'runjags', 'rjags', 'ggmcmc', 'logistf', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'igraph', 'dplyr', 'ggplot2', 'reshape2', 'pcutils', 'stringr'

Packages suggested but not available for checking:
  'pheatmap', 'ggrepel', 'ggpubr', 'rmarkdown', 'prettydoc', 'Hmisc',
  'ggnewscale', 'ggraph', 'networkD3', 'ggpmisc', 'ggtree', 'treeio'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'GGally', 'ggplot2', 'intergraph', 'dplyr', 'igraph', 'visNetwork',
  'ggimage'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'GGally', 'ggforce', 'ggplot2', 'ggrepel', 'lme4',
  'lmerTest', 'patchwork', 'tidyr'

Packages suggested but not available for checking:
  'DT', 'rmarkdown', 'roxygen2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'Rcpp', 'ggplot2', 'RcppArmadillo'

Package suggested but not available for checking: ‘rmarkdown’

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

Package suggested but not available for checking: ‘csv’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'fastGHQuad', 'lme4', 'Rfast', 'doRNG'

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:
  'cowplot', 'dplyr', 'ggplot2', 'tidyr', 'testthat'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘qqconf’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘metap’

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ade4', 'dendextend', 'dplyr', 'ggforce', 'ggrepel', 'reshape2',
  'stringr', 'tidyverse'

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

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'lme4', 'CompQuadForm', 'xml2', 'dplyr', 'readr', 'stringr'

Packages suggested but not available for checking:
  'BiasedUrn', 'pimeta', 'rmarkdown', 'robvis'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘meta’

Packages suggested but not available for checking:
  'lme4', 'BiasedUrn', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'rstpm2', 'meta'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘DESeq2’
checkRd: (-1) param.Rd:29: Lost braces
    29 | T. Strub, S. Giuliano, T. Ye, et al. (2011) Essential role of microphthalmia transcription factor for DNA replication, mitosis and genomic stability in melanoma. emph{Oncogene} \bold{30}:2319-32.
       |                                                                                                                                                                       ^
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘maxLik’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘OpenMx’

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

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: ‘meta’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘SKAT’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'rstan', 'rstantools', 'StanHeaders', 'RcppEigen',
  'RcppParallel'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Package required but not available: ‘htmltools’

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

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

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

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

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

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

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

Packages suggested but not available for checking: 'metaSEM', 'mice'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'nullabor', 'dplyr', 'ggpubr'

Package suggested but not available for checking: ‘rmarkdown’

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

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

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.
Package required but not available: ‘KODAMA’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘raster’

Packages suggested but not available for checking: 'sf', 'rasterVis'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'sf', 'stars', 'Rcpp', 'units', 'dplyr', 'tidyr', 'ncdfgeom',
  'ncmeta', 'lubridate', 'cubelyr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'DescTools', 'caret', 'dplyr', 'spacetime', 'gstat', 'plyr', 'units',
  'nabor', 'CAST', 'ranger', 'sf', 'sftime', 'raster', 'terra'

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: ‘rmarkdown’

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

Package suggested but not available for checking: ‘terra’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'lubridate', 'sf', 'stringr', 'tidyr', 'units', 'xml2',
  'memoise', 'cachem'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/1s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available: 'sqldf', 'dplyr'

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

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.
Package required but not available: ‘rjags’

Package suggested but not available for checking: ‘lme4’

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', 'testthat', 'covr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'ggplot2', 'scales', 'stringr', 'lubridate', 'tidyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘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: 'gplots', 'fastcluster'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'dplyr', 'tidyr', 'RSQLite', 'ggpp', 'minerva', 'energy'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'igraph', 'sf', 'viridis', 'rSPDE', 'Rcpp', 'dplyr',
  'tidyr', 'broom', 'RcppEigen'

Packages suggested but not available for checking:
  'testthat', 'INLA', 'inlabru', 'osmdata', 'plotly'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'lubridate', 'tidyr', 'googledrive', 'googlesheets4',
  'janitor', 'stringr'

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

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:
  'testthat', 'ggplot2', 'shiny', 'dplyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Package required but not available: ‘stringr’

Package suggested but not available for checking: ‘spelling’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking:
  'covr', 'spelling', 'testthat'
Running ‘spelling.R’ [0s/1s]
  Running ‘testthat.R’ [0s/0s]
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:
  'digest', 'ggplot2', 'memoise', 'plyr', 'scales', 'sf', 'stringr',
  'isoband', 'lubridate'

Packages suggested but not available for checking:
  'covr', 'pkgdown', 'reshape2', 'rmarkdown', 'testthat', 'viridis',
  'vdiffr', 'terra', 'gsignal'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'MetabolAnalyze', 'Rfast', 'shiny',
  'shinythemes', 'vroom'

Package suggested but not available for checking: ‘rmarkdown’

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

Packages suggested but not available for checking:
  'optimx', 'prodlim', 'testthat', 'rmarkdown', 'ggplot2', 'cowplot',
  'icenReg'

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

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:
  'mvPot', 'revdbayes', 'TruncatedNormal'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘ggplot2’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘lamW’

Package suggested but not available for checking: ‘rstpm2’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'broom', 'devtools', 'ggplot2', 'dplyr', 'ggpubr', 'patchwork',
  'tidyr', 'lme4', 'lmerTest', 'tidyverse'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'duckdb', 'RPostgres', 'RSQLite'

Packages suggested but not available for checking:
  'dplyr', 'dbplyr', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'ade4', 'ape', 'betapart', 'dendextend', 'FactoMineR', 'gawdis',
  'geometry', 'ggplot2', 'ggrepel', 'Hmisc', 'patchwork', 'reshape2',
  'rstatix'

Packages suggested but not available for checking:
  'dplyr', 'rmarkdown', 'stringr', 'tidyr'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'tsDyn', 'forecast'
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘ggplot2’

Packages suggested but not available for checking: '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:
  'dplyr', 'ggplot2', 'openxlsx', 'readxl', 'stringr', 'tidyr'

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: ‘ggplot2’

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

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

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

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

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Argument items with no description in Rd file 'predict.mfp.Rd':
  ‘safe’
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'reticulate', 'fs'

Packages suggested but not available for checking:
  'SIS', 'glmnet', 'pkgdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘ars’

Package suggested but not available for checking: ‘RcppArmadillo’

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

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:
  'testthat', 'devtools', 'roxygen2'
Packages suggested but not available for checking:
  'dataRetrieval', 'lmomco'
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'energy', 'raster'

Packages suggested but not available for checking:
  'testthat', 'ggplot2', 'reshape2', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'qgam', 'ggplot2', 'gamm4', 'viridis', 'GGally', 'plyr', 'shiny',
  'miniUI'

Packages suggested but not available for checking:
  'rgl', 'rmarkdown', 'testthat', 'webshot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking:
  'MGDrivE', 'rmarkdown', 'ggplot2'
checkRd: (-1) summarize_stats_CSV.Rd:81: Lost braces; missing escapes or markup?
    81 | {stage}\emph{Mean}(patchNum).csv and {stage}\emph{Quantile}(quantNum)_(patchNum).csv.
       | ^
checkRd: (-1) summarize_stats_CSV.Rd:81: Lost braces; missing escapes or markup?
    81 | {stage}\emph{Mean}(patchNum).csv and {stage}\emph{Quantile}(quantNum)_(patchNum).csv.
       |                                      ^
checkRd: (-1) summarize_stats_CSV_decoupled.Rd:84: Lost braces; missing escapes or markup?
    84 | {stage}\emph{Mean}(patchNum).csv and {stage}\emph{Quantile}(quantNum)_(patchNum).csv.
       | ^
checkRd: (-1) summarize_stats_CSV_decoupled.Rd:84: Lost braces; missing escapes or markup?
    84 | {stage}\emph{Mean}(patchNum).csv and {stage}\emph{Quantile}(quantNum)_(patchNum).csv.
       |                                      ^
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘Rcpp’

Package suggested but not available for checking: ‘rmarkdown’

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

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘rgl’

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', 'ggrepel', 'reticulate'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘mvabund’

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:
  'ggplot2', 'plyr', 'reshape2', 'testthat'
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'mvnfast', 'plyr', 'Rcpp', 'RcppArmadillo'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'glmnet', 'stringr', 'Hmisc', 'qgraph'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘MALDIquantForeign’

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘reticulate’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘reticulate’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
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 suggested but not available for checking:
  'covr', 'testthat', 'rmarkdown'
Running ‘testthat.R’ [0s/1s]
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', 'leaflet', 'ggplot2', 'sf', 'htmltools', 'nabor', 'mapview',
  'dplyr', 'caret', 'RcppEigen'

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: 'reticulate', 'stringr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘openxlsx’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'manifold', 'nloptr', 'distory', 'plyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available: 'MCMCpack', 'Rcpp'

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

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
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘structSSI’
'LazyData' is specified without a 'data' directory
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'truncreg', 'maxLik'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'imp4p', 'mice', 'stringr'

Packages suggested but not available for checking:
  'R.rsp', 'prettydoc', 'rmarkdown', 'DAPAR', 'ProteoMM'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'e1071', 'raster'

Packages suggested but not available for checking: 'rmarkdown', '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: ‘rmarkdown’
Packages required but not available: 'pcalg', 'mice', 'RBGL', 'Rfast'

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

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

Packages suggested but not available for checking:
  'BIFIEsurvey', 'blme', 'car', 'CDM', 'lme4', 'MBESS', 'MCMCglmm',
  'mdmb', 'readxl', 'sirt', 'synthpop', 'TAM'

Packages which this enhances but not available for checking:
  'Amelia', 'imputeR', 'jomo', 'micemd', 'mitml', 'simputation'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'pROC', 'rms', 'mice', 'mitml', 'dplyr', 'tidyr', 'stringr', 'car'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'micEcon', 'systemfit', 'miscTools'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'car', 'systemfit', 'micEcon', 'miscTools'

Packages suggested but not available for checking: 'maxLik', 'AER'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘sfaR’

Package suggested but not available for checking: ‘micEcon’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘miscTools’

Packages suggested but not available for checking: 'Ecdat', 'micEcon'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'miscTools', 'plm'

Packages suggested but not available for checking: 'Ecdat', 'systemfit'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'miscTools', 'systemfit'

Package suggested but not available for checking: ‘micEcon’

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:
  'rmarkdown', 'testthat', 'mice', 'ggplot2', 'UpSetR', 'dplyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'mice', 'lme4', 'jomo', 'digest', 'GJRM'

Packages suggested but not available for checking:
  'VIM', 'ggplot2', 'broom.mixed'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ranger', 'FNN', 'ggplot2', 'ggpubr', 'DescTools'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'broom', 'dplyr', 'glmnet', 'mitml', 'Rcpp', 'tidyr'

Packages suggested but not available for checking:
  'broom.mixed', 'future', 'furrr', 'haven', 'lme4', 'miceadds',
  'ranger', 'rmarkdown', 'rstan', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Package required but not available: ‘doBy’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'MVN', 'testthat', 'roxygen2', 'devtools'
Running examples in ‘micompr-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: assumptions.cmpoutput
> ### Title: Get assumptions for parametric tests performed on output
> ###   comparisons
> ### Aliases: assumptions.cmpoutput
> 
> ### ** Examples
> 
> 
> # Create a cmpoutput object from the provided datasets
> cmp <- cmpoutput("All", 0.9, pphpc_ok$data[["All"]], pphpc_ok$obs_lvls)
> 
> # Get the assumptions for the parametric tests performed in cmp
> acmp <- assumptions(cmp)
MANOVA assumptions require 'MVN' and 'biotools' packages.
Error in `*tmp*`[[i]] : subscript out of bounds
Calls: assumptions -> assumptions.cmpoutput
Execution halted
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # Copyright (c) 2016 Nuno Fachada
  > # Distributed under the MIT License (http://opensource.org/licenses/MIT)
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Error(s) in re-building vignettes:
  ...
--- re-building ‘paper.Rnw’ using knitr

Quitting from lines 341-342 [sunspot3] (paper.Rnw)
Error: processing vignette 'paper.Rnw' failed with diagnostics:
subscript out of bounds
--- failed re-building ‘paper.Rnw’

--- re-building ‘tolatex-examples.Rnw’ using knitr
--- finished re-building ‘tolatex-examples.Rnw’

SUMMARY: processing the following file failed:
  ‘paper.Rnw’

Error: Vignette re-building failed.
Execution halted
Skipping checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘ggplot2’
Packages required but not available:
  'dplyr', 'plyr', 'broom', 'phyloseq', 'ggplot2', 'ggpubr', 'DESeq2',
  'rstatix', 'tidyr', 'phangorn', 'edgeR', 'testthat'

Packages suggested but not available for checking:
  'dada2', 'rmarkdown', 'DECIPHER'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'ggrepel', 'lmerTest', 'phyloseq'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'survminer', 'glmnet', 'gplots', 'tidyr', 'dplyr',
  'microbiome'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'microseq', 'microcontax', 'dplyr', 'stringr', 'Rcpp',
  'RcppParallel', 'RcppEigen'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘microseq’

Package suggested but not available for checking: ‘microcontax.data’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘plumber’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘readr’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ape', 'dplyr', 'scales', 'ggplot2', 'reshape2', 'igraph'

Packages suggested but not available for checking:
  'GUniFrac', 'ggpubr', 'ggdendro', 'ggrepel', 'picante', 'pheatmap',
  'rgexf', 'mice', 'GGally'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'DT', 'dplyr', 'ggplot2', 'scales', 'shiny', 'shinyBS', 'tidyr',
  'shinyWidgets', 'ggiraph'

Package suggested but not available for checking: ‘rmarkdown’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'stringr', 'sf', 'spdep', 'rmapshaper', 'readxl'

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 suggested but not available for checking:
  'rmarkdown', 'testthat', 'ggplot2', 'readr', 'plumber'
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Package required but not available: ‘htmltools’

Packages suggested but not available for checking:
  'bslib', 'rmarkdown', 'shiny'

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.
Packages required but not available:
  'microseq', 'dplyr', 'stringr', 'igraph'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Hmisc', 'HH', 'flextable', 'officer', 'ggplot2', 'htmltools',
  'cowplot'

Packages suggested but not available for checking:
  'reshape2', 'latticeExtra', 'rmarkdown', 'htmlTable'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'visNetwork', 'testthat'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'devtools', 'ggplot2', 'plyr', 'readr', 'reshape2', 'shiny',
  'stringr', 'RcppArmadillo'

Packages suggested but not available for checking:
  'bookdown', 'plotly', 'shinyjs', 'shinyBS', 'rmarkdown',
  'rhandsontable', 'shinycssloaders', 'testthat'

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

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

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:
  'rmarkdown', 'testthat', 'blastula', 'emayili', 'readr'
Running ‘testthat.R’ [0s/1s]
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: 'kernlab', 'survey'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘dplyr’

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'caret', 'gbm', 'genefilter', 'pROC'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'MCMCpack', 'R2jags'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'doRNG', 'lubridate'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'shiny', 'xml2'

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

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

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

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: mice.impute.midastouch
> ### Title: Predictive Mean Matching with distance aided selection of donors
> ### Aliases: mice.impute.midastouch midastouch
> ### Keywords: mice
> 
> ### ** Examples
> 
> ## from R:: mice, slightly adapted ##
> 
> # do default multiple imputation on a numeric matrix
> library(midastouch)
> library(mice)
Error in library(mice) : there is no package called ‘mice’
Execution halted
Package required but not available: ‘Rcpp’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'ggplot2', 'kableExtra', 'mice', 'midfielddata', 'rmarkdown'

VignetteBuilder package required for checking but not installed: ‘rmarkdown’
Errors in running code in vignettes:
when running code in ‘art-010-planning.Rmd’
  ...
Error in loadVignetteBuilder(pkgdir) : 
  vignette builder 'rmarkdown' not found
Calls: <Anonymous> -> loadVignetteBuilder
Execution halted

... incomplete output.  Crash?
when running code in ‘art-040-programs.Rmd’
  ...
Error in loadVignetteBuilder(pkgdir) : 
  vignette builder 'rmarkdown' not found
Calls: <Anonymous> -> loadVignetteBuilder
Execution halted

... incomplete output.  Crash?

  ‘art-010-planning.Rmd’ using ‘UTF-8’... failed to complete the test
  ‘art-040-programs.Rmd’ using ‘UTF-8’... failed to complete the test
Package required but not available: ‘BiasedUrn’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘SMR’

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: 'paradox', 'mlr3misc', 'bbotk'

Packages suggested but not available for checking:
  'mlr3tuning', 'mlr3', 'mlr3learners', 'ranger', 'xgboost'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'gplots', 'R2jags', 'sf', 'terra'

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

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

Package suggested but not available for checking: ‘spelling’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'manynet', 'dplyr', 'ggplot2', 'igraph', 'future', 'furrr',
  'tidygraph', 'tidyr'

Packages suggested but not available for checking:
  'concaveman', 'covr', 'ggdendro', 'minMSE', 'oaqc', 'roxygen2',
  'rsconnect', 'testthat', 'xml2'

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

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'gWidgets2', 'mi', 'arm'

Package suggested but not available for checking: ‘gWidgets2tcltk’

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘mice’

Package suggested but not available for checking: ‘rmarkdown’

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:
  'caret', 'dplyr', 'e1071', 'glmnet', 'kernlab', 'MLmetrics',
  'xgboost'

Packages suggested but not available for checking:
  'doFuture', 'future', 'future.apply', 'furrr', 'ggplot2',
  'progressr', 'rmarkdown', 'rsample', 'testthat', 'tidyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Invalid NAMESPACE file, parsing gives:
Error in loadNamespace(name): there is no package called ‘testthat’

See section ‘Package namespaces’ in the ‘Writing R Extensions’ manual.
Packages required but not available:
  'dplyr', 'e1071', 'kernlab', 'pROC', 'tidyr'

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

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.
Packages required but not available:
  'glmnet', 'Rcpp', 'RcppParallel', 'RcppArmadillo'

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

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

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'caret', 'DT', 'ggplot2', 'heatmaply', 'plotly', 'pROC', 'shiny',
  'shinycssloaders', 'shinyFiles', 'shinydashboard', 'shinyjs',
  'shinyWidgets', 'survminer', 'dplyr', 'fs'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘blockmodels’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'caTools', 'dplyr', 'lubridate', 'plyr', 'readr', 'stringr',
  'dygraphs', 'shiny', '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', 'lubridate', 'openxlsx'

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

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

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.
Package required but not available: ‘ggplot2’

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: '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:
  'ComplexHeatmap', 'InteractiveComplexHeatmap', 'dplyr', 'gsignal',
  'mgc', 'mmand'

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

Packages suggested but not available for checking:
  'devtools', 'rmarkdown', 'testthat', 'covr', 'mockery', 'testthis',
  'roxygen2', 'spelling'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'htmltools', 'katex', 'rmarkdown', 'sass'

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

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: ‘testthat’
Running ‘testthat.R’ [0s/0s]
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: ‘covr’
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'meta', 'shiny', 'shinyjs', 'shinyWidgets', 'colourpicker',
  'rhandsontable', 'readxl'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘fs’

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: 'Rcpp', 'RcppArmadillo'

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: 'shiny', 'htmltools'

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.
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘Rcpp’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Package required but not available: ‘BiocParallel’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) gof.estimates.Rd:59-62: Lost braces in \itemize; meant \describe ?
checkRd: (-1) gof.estimates.Rd:63-66: Lost braces in \itemize; meant \describe ?
checkRd: (-1) gof.estimates.Rd:67-70: Lost braces in \itemize; meant \describe ?
checkRd: (-1) vcov.mipfp.Rd:63-66: Lost braces in \itemize; meant \describe ?
checkRd: (-1) vcov.mipfp.Rd:67-70: Lost braces in \itemize; meant \describe ?
checkRd: (-1) vcov.mipfp.Rd:71-74: Lost braces in \itemize; meant \describe ?
checkRd: (-1) vcov.mipfp.Rd:75-78: Lost braces in \itemize; meant \describe ?
checkRd: (-1) vcov.mipfp.Rd:89-91: Lost braces in \itemize; meant \describe ?
checkRd: (-1) vcov.mipfp.Rd:92-95: Lost braces in \itemize; meant \describe ?
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'ggplot2', 'stringr', 'tidyr', 'shinyWidgets', 'readxl',
  'shiny.i18n', 'shinyalert', 'readr', 'shiny', 'reshape', 'dplyr',
  'reshape2'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘promises’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package which this enhances but not available for checking: ‘promises’
Package required but not available: ‘arm’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'rstan', 'rstantools', 'dirichletprocess', 'cubature',
  '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:
  'dplyr', 'ggplot2', 'openxlsx', 'plotly', 'readr', 'readxl',
  'scales', 'stringr', 'textclean', 'tidyr', 'tidytext', 'topicmodels',
  'wordcloud', 'xml2'

Packages suggested but not available for checking:
  'kableExtra', 'reshape2', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'CompQuadForm', 'GUniFrac', 'lme4', 'mixtools'

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

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

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

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', 'CORElearn', 'RSpectra'

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

Package suggested but not available for checking: ‘shinythemes’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'globaltest', 'GlobalAncova'

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', 'dcurver', 'RcppArmadillo'

Packages suggested but not available for checking:
  'latticeExtra', 'shiny', 'nloptr', 'sirt', 'mirtCAT'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘mirtjml’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'mice'
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘rgl’
Running examples in ‘misc3d-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: contour3d
> ### Title: Draw an Isosurface, a Three Dimension Contour Plot
> ### Aliases: contour3d
> ### Keywords: hplot
> 
> ### ** Examples
> 
>   #Example 1: Draw a ball
>   f <- function(x, y, z)x^2+y^2+z^2
>   x <- seq(-2,2,len=20)
>   contour3d(f,4,x,x,x)
Error in loadRGL() : rgl is mot available
Calls: contour3d -> drawScene.rgl -> loadRGL
Execution halted
Packages required but not available: 'R2jags', 'MCMCpack'

Package suggested but not available for checking: ‘mixAK’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘roxygen2’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘mlogit’

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘digest’

Package suggested but not available for checking: ‘Ecdat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'mice', 'rmarkdown', 'testthat'
checkRd: (-1) cv.galasso.Rd:47: Lost braces
    47 | of \code{nlambda} and code{lambda.min.ratio}. Default is NULL}
       |                           ^
checkRd: (-1) cv.saenet.Rd:55: Lost braces
    55 | of \code{nlambda} and code{lambda.min.ratio}. Default is NULL}
       |                           ^
checkRd: (-1) galasso.Rd:45: Lost braces
    45 | of \code{nlambda} and code{lambda.min.ratio}. Default is NULL}
       |                           ^
checkRd: (-1) saenet.Rd:53: Lost braces
    53 | of \code{nlambda} and code{lambda.min.ratio}. Default is NULL}
       |                           ^
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking:
  'dplyr', 'readr', 'rmarkdown', 'spelling', 'testthat'
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/misha.Rcheck/00install.out’ for details.
Packages required but not available:
  'plotly', 'dplyr', 'highcharter', 'tidyr', 'tidyverse',
  'DirichletReg', 'patchwork', 'reshape2', 'ggplot2', 'shiny'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'e1071', 'penalized'

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

Package suggested but not available for checking: ‘ade4’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘mixtools’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Documented arguments not in \usage in Rd file 'logAdd.Rd':
  ‘x’ ‘y’

Functions with \usage entries need to have the appropriate \alias
entries, and all their arguments documented.
The \usage entries must correspond to syntactically valid R code.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
Package suggested but not available for checking: ‘testthat’
Packages required but not available:
  'Amelia', 'dplyr', 'ggdendro', 'ggplot2', 'Hmisc', 'mi', 'mice',
  'missForest', 'missMDA', 'pcaMethods', 'plyr', 'tidyr', 'VIM'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'factoextra', 'Rcpp', 'ggplot2', 'glmnet', 'sparsevar',
  'RcppArmadillo'

Package suggested but not available for checking: ‘rmarkdown’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘cobalt’

Packages suggested but not available for checking: 'mice', 'sbw'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘doRNG’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggpubr', 'ggmcmc', 'ggthemes', 'BCEA', 'ggplot2', 'bayesplot',
  'R2jags'

Package suggested but not available for checking: ‘rmarkdown’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'ggplot2', 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available:
  'ComplexHeatmap', 'Rcpp', 'RcppArmadillo'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'lightgbm', 'ggplot2', 'glmnet', 'SIS', 'plotly'

Package suggested but not available for checking: ‘e1071’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ranger', 'FNN'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'igraph', 'nloptr', 'ggplot2', 'future.apply', 'sbm',
  'RSpectra', 'RcppArmadillo'

Packages suggested but not available for checking:
  'aricode', 'blockmodels', 'future', 'testthat', 'covr', 'rmarkdown',
  'spelling'

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 suggested but not available for checking:
  'e1071', 'car', 'DoE.base', 'FrF2', 'ggplot2', 'DiceView', 'lhs',
  'fdapace', 'xgboost'
Argument items with no description in Rd file 'randomizationTest.Rd':
  ‘R’
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'e1071', 'ggplot2', 'Rcpp'

Packages suggested but not available for checking:
  'KrigInv', 'rgenoud', 'kernlab', 'rmarkdown'

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'ggplot2', 'rmarkdown', 'pinp'
Running examples in ‘mistr-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: QQplotgg
> ### Title: Implementation of Quantile-Quantile Plot with ggplot2
> ### Aliases: QQplotgg QQplotgg.default QQplotgg.dist QQnormgg
> 
> ### ** Examples
> 
> # sample vs sample
> QQplotgg(r(normdist(), 10000), r(tdist(df = 4), 10000))
Error: Package ggplot2 needed for this function to work. Please install it.
Execution halted
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'ggplot2', 'haven', 'lme4', 'readxl'

Packages suggested but not available for checking: 'patchwork', 'plyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'jomo', 'haven'

Packages suggested but not available for checking:
  'mice', 'miceadds', 'Amelia', 'lme4', 'geepack', 'glmmTMB',
  'rmarkdown'

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

Packages suggested but not available for checking:
  'clustree', 'karyoploteR', 'plotly', 'regioneR', 'rmarkdown',
  'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) PV.Rd:14: Lost braces
    14 | plausible value in turn; with code{rewrite=FALSE} a new data set is
       |                                   ^
Packages required but not available:
  'plyr', 'dplyr', 'igraph', 'stringr', 'RJSONIO', 'tidyr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'animation'
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available:
  'ggplot2', 'Hmisc', 'MCMCpack', 'tidyr'

Packages suggested but not available for checking:
  'GGally', 'mice', 'pander', 'rmarkdown', 'scales', 'spelling',
  'testthat'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'MCMCpack', 'e1071'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Documented arguments not in \usage in Rd file 'rigaussian.Rd':
  ‘mu’

Functions with \usage entries need to have the appropriate \alias
entries, and all their arguments documented.
The \usage entries must correspond to syntactically valid R code.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
Skipping checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘nloptr’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'flexsurv', 'survey', 'timereg'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'Rcpp', 'RcppArmadillo'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘FrF2’
Running examples in ‘MixedLevelRSDs-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: QualRSD
> ### Title: Second Order RSDs with qualitative factors
> ### Aliases: QualRSD
> 
> ### ** Examples
> 
> library(MixedLevelRSDs)
> QualRSD(5,2, Interaction = FALSE )
Error in loadNamespace(x) : there is no package called ‘FrF2’
Calls: QualRSD ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
Package required but not available: ‘ggplot2’

Package suggested but not available for checking: ‘rmarkdown’

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: ‘Rmpfr’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'beepr', 'lme4', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘sde’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘daewr’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package which this enhances but not available for checking: ‘oro.nifti’
checkRd: (-1) u4_cba_cor.Rd:35: Lost braces
    35 |   \code{t * 1} and \code{B} is of dimension{t * N}. Ideally, \code{fun.sim}()
       |                                            ^
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'ggplot2', 'mice', 'Rfast', 'scales', 'tidyr', 'xgboost'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Bessel', 'mixture', 'e1071'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'scran', 'Seurat', 'scuttle'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'ggplot2'
Running ‘testthat.R’ [0s/1s]
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:
  'mixOmics', 'ggplot2', 'reticulate', 'phyloseq'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘car’

Package suggested but not available for checking: ‘lme4’

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:
  'rmarkdown', 'testthat', 'covr', 'ggplot2', 'dplyr', 'spelling'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘meta’
checkRd: (-1) mixmeta-package.Rd:115: Escaped LaTeX specials: \&
checkRd: (-1) mixmeta.ml.Rd:56: Escaped LaTeX specials: \&
checkRd: (-1) ml.igls.Rd:62: Escaped LaTeX specials: \&
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'ggplot2', 'patchwork'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'dplyr', 'ggplot2', 'lhs', 'splitfngr', 'testthat'
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'Rfast', 'dplyr', 'ggplot2', 'ggrepel'

Packages suggested but not available for checking:
  'rmarkdown', 'devtools', 'testthat', 'covr', 'tidyr', 'ggfortify',
  'broom'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'rmarkdown', 'mixRasch', 'testthat'
Skipping checking math rendering: package 'V8' unavailable
Found the following significant warnings:

  Warning: 'is.R' is deprecated.
  Warning: 'is.R' is deprecated.
  Warning: 'is.R' is deprecated.
  Warning: 'is.R' is deprecated.
  Warning: 'is.R' is deprecated.
  Warning: 'is.R' is deprecated.
Deprecated functions may be defunct as soon as of the next release of
R.
See ?Deprecated.
Examples with CPU (user + system) or elapsed time > 5s
          user system elapsed
ncMcTest 8.882  0.000   9.638
kilns    6.804  0.028   7.274
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘lme4’

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘mixtools’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'R2jags', 'reshape', 'reshape2', 'MCMCpack', 'ggmcmc',
  'bayesplot'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available: 'Rcpp', 'RcppArmadillo'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘ars’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'kernlab', 'plotly', 'scales'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘Bessel’

Package suggested but not available for checking: ‘mice’

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.
Packages required but not available: 'dplyr', 'ggplot2', 'tidyr'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘ashr’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'DT', 'ggplot2', 'lubridate', 'plotly', 'readr', 'shiny',
  'stringr', 'tidyr', 'vcfR'

Package suggested but not available for checking: ‘rmarkdown’

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'covr'
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available:
  'dplyr', 'ggplot2', 'ggrepel', 'lubridate', 'plotly', 'plyr', 'Rcpp',
  'reshape2'

Packages suggested but not available for checking:
  'testthat', 'vdiffr', 'roxygen2', 'rmarkdown', 'pkgdown', 'covr',
  'spelling'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'bamlss', 'funData', 'gamm4', 'refund', 'fdapace', 'sparseFLMM',
  'MFPCA', 'Rcpp', 'RcppEigen'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Packages required but not available: 'Rcpp', 'raster'

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

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'MKdescr', 'arrangements', 'ggplot2', 'miceadds'

Packages suggested but not available for checking:
  'rmarkdown', 'Amelia', 'mice'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘saemix’

Packages suggested but not available for checking:
  'tikzDevice', 'testthat', 'rmarkdown', 'covr', 'vdiffr',
  'benchmarkme', 'readxl'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'ggplot2', 'scales'

Packages suggested but not available for checking:
  'gplots', 'Amelia', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'testthat', 'mockery', 'Rglpk', 'ROI.plugin.glpk'
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > suppressPackageStartupMessages({
  +   library(testthat)
  +   library(data.table)
  + })
  Error in library(testthat) : there is no package called 'testthat'
  Calls: suppressPackageStartupMessages -> withCallingHandlers -> library
  Execution halted
Package required but not available: ‘ComplexHeatmap’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'MKdescr', 'MKinfer', 'qqplotr'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'keras', 'reticulate', 'tensorflow', 'tfprobability'

Packages suggested but not available for checking:
  '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.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'ggplot2', 'gt', 'magick', 'scales'

Packages suggested but not available for checking:
  'dplyr', 'ggtext', 'gridtext', 'rmarkdown', 'sjmisc'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
checkRd: (-1) Texture.Rd:35: Escaped LaTeX specials: \&
checkRd: (-1) binom.diagnostics.Rd:33: Escaped LaTeX specials: \&
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'ConfusionTableR', 'dplyr', 'parsnip', 'rsample', 'recipes',
  'workflows', 'ranger', 'caret', 'OddsPlotty', 'ggplot2'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘mldr’
Package required but not available: ‘shiny’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'e1071', 'mldr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'e1071', 'ipred'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) real2canon.rd:9: Lost braces; missing escapes or markup?
     9 |       (2) All x-coordinates of R1',..,Rn' are distinct, and take values in {1,..,2n}.
       |                                                                            ^
checkRd: (-1) real2canon.rd:10: Lost braces; missing escapes or markup?
    10 |       (3) All y-coordinates of R1',..,Rn' are distinct, and take values in {1,..,2n}.
       |                                                                            ^
Packages required but not available: 'sirt', 'ggplot2', 'reshape'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) gp.list.Rd:16: Escaped LaTeX specials: \#
Packages required but not available:
  'ergm', 'stringr', 'GGally', 'ggplot2', 'cowplot', 'reshape2', 'plyr'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘ggplot2’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘kdry’

Packages suggested but not available for checking:
  'ggpubr', 'lintr', 'ParBayesianOptimization', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'kimisc', 'plyr', 'wrswoR'

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: 'fs', 'httpuv'

Packages suggested but not available for checking:
  'carrier', 'covr', 'keras', 'lintr', 'sparklyr', 'stringi',
  'testthat', 'reticulate', 'xgboost'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'fastcluster', 'FactoMineR', 'parallelDist'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'mice', 'missRanger'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'kdry', 'mlexperiments'

Packages suggested but not available for checking:
  'glmnet', 'lightgbm', 'lintr', 'ParBayesianOptimization', 'ranger',
  'testthat', 'xgboost'

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

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘ROCR’

Package suggested but not available for checking: ‘e1071’

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

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: 'bootImpute', 'testthat'
checkRd: (-1) refBasedCts.Rd:44: Lost braces
    44 | using reference based imputation as proposed by \doi{10.1080/10543406.2013.834911}{Carpenter et al (2013)}. This approach
       |                                                                                   ^
Running ‘testthat.R’ [0s/0s]
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:
  'minfi', 'GEOquery', 'rmarkdown',
  'IlluminaHumanMethylation450kmanifest'
Package required but not available: ‘sommer’

Package suggested but not available for checking: ‘rmarkdown’

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

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'openxlsx', 'Rmpfr'

Package suggested but not available for checking: ‘rmarkdown’

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

Package suggested but not available for checking: ‘rmarkdown’

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: ‘ape’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'lme4', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'quantspec', 'Rfast', 'TSclust', 'forecast', 'tsfeatures', 'e1071',
  'MTS', 'ggplot2', 'fda.usc', 'TSdist', 'DescTools', 'ClusterR',
  'AID', 'caret', 'ranger', 'igraph'

Packages suggested but not available for checking:
  'ueadata1', 'ueadata2', 'ueadata3', 'ueadata4', 'ueadata5',
  'ueadata6', 'ueadata7', 'ueadata8', 'testthat'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'BMA', 'maxLik'

Package suggested but not available for checking: ‘mlogit’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘dfidx’

Packages suggested but not available for checking:
  'car', 'AER', 'ggplot2', 'rmarkdown'

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

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: ‘C50’
Packages required but not available:
  'digest', 'ggplot2', 'WeightSVM', 'rgenoud'

Packages suggested but not available for checking:
  'lme4', 'lmerTest', 'mirt', 'rmarkdown', 'simr', 'tidyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'caret', 'FNN'

Package suggested but not available for checking: ‘CORElearn’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'batchtools', 'mlr3', 'mlr3misc'

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', 'mlr3misc'

Packages suggested but not available for checking:
  'mlr3', 'mlr3learners', 'PMCMRplus', 'testthat', 'xgboost'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'mlr3', 'fpc', 'mlr3misc', 'paradox'

Packages suggested but not available for checking:
  'dbscan', 'e1071', 'ClusterR', 'kernlab', 'apcluster', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘mlr3’
Packages required but not available: 'mlr3', 'mlr3misc'

Packages suggested but not available for checking:
  'RSQLite', 'dbplyr', 'dplyr', 'duckdb', 'future', 'future.apply',
  'future.callr', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'paradox', 'mlr3', 'mlr3misc', 'mlr3pipelines', 'mlr3learners',
  'ggplot2'

Packages suggested but not available for checking:
  'testthat', 'patchwork', 'ranger', 'mlr3viz', 'rmarkdown',
  'posterdown', 'kableExtra', 'fairml', 'iml'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'mlr3', 'mlr3misc', 'paradox'

Packages suggested but not available for checking:
  'caret', 'carSurv', 'FSelectorRcpp', 'mlr3learners', 'mlr3pipelines',
  'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'mlr3', 'bbotk', 'mlr3misc', 'paradox'

Packages suggested but not available for checking:
  'e1071', 'mlr3learners', 'mlr3pipelines', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'mlr3tuning', 'bbotk', 'mlr3', 'mlr3misc', 'paradox'

Packages suggested but not available for checking:
  'mlr3learners', 'mlr3pipelines', 'testthat', 'xgboost'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'mlr3', 'mlr3misc', 'paradox'

Packages suggested but not available for checking:
  'e1071', 'glmnet', 'kknn', 'ranger', 'rgenoud', 'rmarkdown',
  'testthat', 'xgboost'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'bbotk', 'mlr3', 'mlr3misc', 'mlr3tuning', 'paradox', 'spacefillr'

Packages suggested but not available for checking:
  'fastGHQuad', 'lhs', 'mlr3learners', 'mlr3pipelines', 'nloptr',
  'ranger', 'rgenoud', 'rmarkdown', 'stringi', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘digest’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'mlr3', 'mlr3misc', 'paradox', 'stringi'

Packages suggested but not available for checking:
  'duckdb', 'mlr3db', 'qs', 'testthat', 'xml2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'digest', 'mlr3', 'mlr3misc', 'paradox'

Packages suggested but not available for checking:
  'ggplot2', 'glmnet', 'igraph', 'lme4', 'bbotk', 'mlr3filters',
  'mlr3learners', 'nloptr', 'quanteda', 'rmarkdown', 'testthat',
  'visNetwork', 'bestNormalize', 'kernlab', 'smotefamily', 'NMF',
  'kknn', 'GenSA', 'vtreat', 'future'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'future', 'future.apply', 'mlr3misc', 'paradox'

Packages suggested but not available for checking:
  'future.callr', 'progressr', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'paradox', 'mlr3', 'mlr3misc'

Packages suggested but not available for checking:
  'animint2', 'future', 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'mlr3', 'mlr3learners', 'mlr3pipelines', 'shiny', 'shinydashboard',
  'shinyjs', 'shinyWidgets', 'shinyalert', 'DT', 'stringr', 'plyr',
  'dplyr', 'patchwork'

Packages suggested but not available for checking:
  'testthat', 'shinytest', 'devtools', 'ranger', 'e1071', 'xgboost',
  'igraph', 'readxl', 'DALEX', 'DALEXtra', 'bslib', 'haven'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'mlr3', 'mlr3misc', 'sf', 'terra'

Packages suggested but not available for checking:
  'future', 'future.callr', 'mlr3learners', 'paradox', 'ranger',
  'raster', 'rmarkdown', 'stars', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'mlr3', 'ggplot2', 'mlr3misc', 'paradox'

Packages suggested but not available for checking:
  'bbotk', 'blockCV', 'caret', 'CAST', 'ggsci', 'ggtext',
  'mlr3filters', 'mlr3pipelines', 'mlr3spatial', 'mlr3tuning',
  'patchwork', 'plotly', 'rmarkdown', 'sf', 'sperrorest', 'terra',
  'testthat', 'twosamples', 'vdiffr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'mlr3', 'paradox', 'bbotk', 'mlr3misc'

Packages suggested but not available for checking:
  'GenSA', 'mlr3learners', 'mlr3pipelines', 'nloptr', 'rmarkdown',
  'testthat', 'xgboost'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'mlr3tuning', 'mlr3', 'mlr3misc', 'paradox'

Packages suggested but not available for checking:
  'e1071', 'glmnet', 'kknn', 'mlr3learners', 'ranger', 'testthat',
  'xgboost'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'mlr3', 'bbotk', 'mlr3cluster', 'mlr3filters', 'mlr3fselect',
  'mlr3hyperband', 'mlr3learners', 'mlr3mbo', 'mlr3misc',
  'mlr3pipelines', 'mlr3tuning', 'mlr3tuningspaces', 'mlr3viz',
  'paradox'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'mlr3misc', 'scales', 'viridis'

Packages suggested but not available for checking:
  'bbotk', 'GGally', 'ggdendro', 'ggfortify', 'ggparty', 'glmnet',
  'mlr3', 'mlr3cluster', 'mlr3filters', 'mlr3learners', 'mlr3tuning',
  'paradox', 'patchwork', 'precrec', 'ranger', 'testthat', 'vdiffr',
  'xgboost'

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

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'mRMRe', 'digest', 'randomForestSRC',
  'ranger', 'Rfast', 'FSelector', 'FSelectorRcpp', 'e1071', 'FNN',
  'lintr', 'Hmisc'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'mlr3misc', 'paradox', 'lhs', 'bbotk', 'mlr3tuning'

Packages suggested but not available for checking:
  'mlr', 'testthat', 'rgenoud', 'cmaesr', 'smoof', 'mlr3',
  'mlr3learners', 'mlr3pipelines', 'mlrMBO', 'ranger'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'mlr', 'smoof', 'lhs'

Packages suggested but not available for checking:
  'cmaesr', 'ggplot2', 'GGally', 'kernlab', 'kknn', 'reshape2',
  'rmarkdown', 'rgenoud', 'testthat', 'covr'

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

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

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

Packages suggested but not available for checking:
  'adabag', 'bartMachine', 'batchtools', 'bst', 'C50', 'caret',
  'ClusterR', 'clusterSim', 'cowplot', 'crs', 'Cubist', 'e1071',
  'evtree', 'fda.usc', 'FNN', 'forecast', 'fpc', 'FSelector',
  'FSelectorRcpp', 'gbm', 'GenSA', 'ggpubr', 'glmnet', 'GPfit',
  'Hmisc', 'kernlab', 'kknn', 'klaR', 'laGP', 'LiblineaR', 'lintr',
  'memoise', 'mldr', 'mlrMBO', 'mRMRe', 'pander', 'pec', 'penalized',
  'PMCMRplus', 'ranger', 'refund', 'rgenoud', 'rmarkdown', 'ROCR',
  'RSNNS', 'rucrdtw', 'sf', 'smoof', 'survAUC', 'svglite', 'SwarmSVM',
  'testthat', 'tgp', 'tidyr', 'tsfeatures', 'vdiffr', 'xgboost'

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:
  'rmarkdown', 'spelling', '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.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
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', 'stringr', 'opalr', 'fabR', 'madshapR'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'kdry', 'mlexperiments', 'mllrnrs'

Packages suggested but not available for checking:
  'glmnet', 'lintr', 'ParBayesianOptimization', 'ranger', 'testthat',
  'xgboost'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'mlt', 'flexsurv', 'truncreg'

Packages suggested but not available for checking:
  'prodlim', 'latticeExtra', 'bshazard', 'dynsurv', 'timereg', 'AER',
  'tram', 'rms'

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: ‘testthat’
Running ‘testthat.R’ [0s/0s]
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: 'coneproj', 'nloptr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'lme4', 'arm', 'qgraph', 'dplyr', 'plyr', 'MplusAutomation',
  'graphicalVAR'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'blockmodels', 'ape'

Packages suggested but not available for checking:
  'testthat', 'covr', 'rmarkdown', 'ggplot2', 'ggforce', 'spelling',
  'cowplot', 'reshape2', 'dplyr'

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

Packages suggested but not available for checking:
  'Rcpp', 'reshape2', 'shiny'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'gplots', 'ggplot2', 'reshape2', 'TMB', 'RcppEigen'

Package suggested but not available for checking: ‘rmarkdown’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'glmnet', 'mma', 'car', 'gplots'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'mosaic', 'mosaicCalc'
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘Rcpp’

Package suggested but not available for checking: ‘covr’

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

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:
  'htmltools', 'lubridate', 'caTools', 'ggplot2', 'DT', 'dplyr',
  'leaflet', 'stringr', 'shiny', 'shinyjs', 'plotly'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'refund', 'dplyr', 'tidyr', 'cosinor', 'cosinor2', 'accelerometry',
  'ActCR', 'ActFrag', 'kableExtra', 'GGIR'

Package suggested but not available for checking: ‘rmarkdown’

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

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'devtools', 'testthat', 'covr', 'e1071', 'caret', 'rmarkdown',
  'ggplot2', 'ggpubr', 'cowplot', 'philentropy', 'Rtsne'
'LazyData' is specified without a 'data' directory
Running ‘helpers.R’ [0s/0s]
  Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
  > # * https://testthat.r-lib.org/articles/special-files.html
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'Rcpp', 'RcppArmadillo', 'testthat', 'psqn'

Packages suggested but not available for checking:
  'testthat', 'xml2', 'R.rsp', 'mets'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘Rcpp’

Packages suggested but not available for checking:
  'testthat', 'devtools', 'roxygen2', 'qtl2'

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

Packages suggested but not available for checking:
  'rmarkdown', 'simstudy', 'kableExtra', 'tidyverse'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'cubature', 'wdm'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'e1071', 'plyr', 'bigmemory'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
checkRd: (-1) mmeln.Rd:69: Lost braces; missing escapes or markup?
    69 |   \item{obj$M}{Number of total observations sum_{i=1}^N(pi)}
       |                                                 ^
Packages required but not available: 'lme4', 'stringr'

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:
  'broom', 'car', 'e1071', 'igraph', 'shiny', 'shinythemes'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘OmicsPLS’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'DT', 'restriktor', 'shiny', 'shinythemes'

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
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking: 'geepack', 'testthat'
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'Spectrum', 'igraph'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'caper', 'ape'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'adegenet', 'pegas'

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: ‘rmarkdown’
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'digest', 'Rcpp', 'RcppEigen', 'RcppGSL'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'ggplot2', 'reshape2'
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
checkRd: (-1) k2d.Rd:26: Lost braces
    26 | d_ND(x,y) = sqrt{ k(x,x) - 2k(x,y) + k(y,y)}.
       |                 ^
checkRd: (-1) k2d.Rd:34: Lost braces
    34 | d_n(x,y) = 1 - k(x,y)/sqrt{ k(x,x)k(y,y)},
       |                           ^
Package required but not available: ‘ggplot2’

Package suggested but not available for checking: ‘rmarkdown’

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.
Packages required but not available:
  'Rcpp', 'stringr', 'TMB', 'RcppEigen', 'testthat'

Packages suggested but not available for checking:
  'car', 'dplyr', 'ggplot2', 'glmmTMB', 'lme4', 'mockery', 'parsnip',
  'rmarkdown', 'sasr', 'scales', 'testthat', 'tidymodels', 'xml2'

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.
Packages required but not available: 'digest', 'rio', 'shiny'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'Rcpp', 'reshape', 'reshape2', 'ggplot2', '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: ‘testthat’
Running ‘run-all.R’ [0s/1s]
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: 'Rcpp', 'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘flexsurv’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'igraph', 'keras', 'tensorflow', 'reticulate', 'ggraph', 'ggplot2',
  'usethis'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘mlVAR’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'stringi', 'Rcpp', 'janitor'

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

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', 'rmarkdown'

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

Packages which this enhances but not available for checking:
  'aMNLFA', 'GPCMlasso', 'sirt'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'ggplot2', 'scales'
Running ‘testthat.R’ [0s/0s]
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: 'shiny', 'rmarkdown', 'e1071', 'caret'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'BiocStyle', 'covr', 'rmarkdown', 'testthat', 'caret', 'MLeval'
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/mnmer.Rcheck/00install.out’ for details.
Packages required but not available: 'ICSNP', 'SpatialNP', 'ICS'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
'LazyData' is specified without a 'data' directory
Packages required but not available: 'Rcpp', 'hpa', 'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) mom.mtruncnorm.Rd:35: Lost braces
    35 |   \item{cum}{a logical value; if  code{TRUE}  (default value), cumulants 
       |                                       ^
checkRd: (-1) mom.mtruncnorm.Rd:43: Lost braces; missing escapes or markup?
    43 | The maximal value of {d} is \code{20}. If this threshold is exceeded, \code{NA}s
       |                      ^
checkRd: (-1) mt.Rd:110: Lost braces
   110 |   and code{tvpack}, downloaded in 2005 and again in 2007 from his webpage, 
       |           ^
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/1s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available: 'dplyr', 'tidyr', 'ggplot2'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'caret', 'kableExtra', 'ggplot2', 'plyr', 'mailR'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'testthat', 'covr', 'rmarkdown'
Running ‘testthat.R’ [0s/0s]
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:
  'texmex', 'copBasic', 'ks', 'SpatialExtremes', 'copula', 'ggplot2',
  'viridis'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'doRNG', 'sommer', 'vcfR', 'biomaRt', 'optiSel', 'alstructure',
  'NAM', 'gplots', 'phylogram', 'cPCG'

Packages which this enhances but not available for checking:
  'miraculix', 'RandomFieldsUtils', 'MoBPSmaps'
checkRd: (-1) creating.phenotypic.transform.Rd:20: Lost braces
    20 | trafo <- function(x){ return(x^2)}
       |                     ^
Running examples in ‘MoBPS-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: get.dendrogram
> ### Title: Dendrogram
> ### Aliases: get.dendrogram
> 
> ### ** Examples
> 
> data(ex_pop)
> get.dendrogram(ex_pop, gen=2)
Error in get.dendrogram(ex_pop, gen = 2) : object 'geno_dend' not found
Execution halted
Packages required but not available: 'gbm', 'Rborist'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'scales', 'dplyr', 'tidyr', 'ggplot2', 'egg', 'geosphere'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'plyranges', 'dplyr', 'MultiAssayExperiment', 'stringr', 'ggbio',
  'wCorr', 'AnnotationDbi', 'GenomicFeatures', 'ensembldb', 'ggplot2',
  'ggrepel', 'qvalue', 'scales', 'tidyr', 'ggridges', 'BSgenome'

Packages suggested but not available for checking:
  'ArchR', 'RMariaDB', 'motifmatchr',
  'TxDb.Hsapiens.UCSC.hg38.refGene',
  'TxDb.Hsapiens.UCSC.hg19.knownGene', 'org.Hs.eg.db',
  'BSgenome.Hsapiens.UCSC.hg19', 'rmarkdown', 'chromVAR', 'testthat',
  'uwot', 'glmmTMB', 'lmerTest', 'lme4', 'rtracklayer', 'cowplot',
  'mixtools'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘testthat’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'covr', 'fs', 'pkgload', 'rmarkdown', 'testthat', 'usethis'
Running ‘testthat.R’ [0s/1s]
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', 'pkgload'
Running ‘testthat.R’ [0s/1s]
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: 'ggplot2', 'scales'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'genieclust', 'genio', 'ggplot2', 'partition', 'tidyr'

Package suggested but not available for checking: ‘CCA’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
checkRd: (-1) lientz.Rd:45: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) lientz.Rd:46: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) lientz.Rd:47: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) modeest-package.Rd:150: Escaped LaTeX specials: \&
checkRd: (-1) vieu.Rd:56: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Skipping checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘ggplot2’

Packages suggested but not available for checking: 'plyr', 'ggbeeswarm'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'brms', 'gamm4', 'gganimate', 'ggplot2', 'glmmTMB', 'lme4',
  'marginaleffects', 'patchwork', 'rmarkdown', 'rstanarm', 'rtdists',
  'see', 'testthat'
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > #
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package required but not available: ‘igraph’

Package suggested but not available for checking: ‘rmarkdown’

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

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’ [0s/0s]
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: ‘dplyr’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘pins’

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: 'dplyr', 'ggplot2', 'tidypredict'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'DALEX', 'auditor', 'ggplot2', 'DT', 'kableExtra', 'archivist',
  'svglite', 'devtools', 'breakDown', 'drifter'

Packages suggested but not available for checking:
  'ranger', 'testthat', 'useful'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'covr', 'testthat'
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package required but not available: ‘e1071’

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

Packages suggested but not available for checking: 'testthat', 'lme4'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘PolynomF’

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: 'coxrobust', 'Rcpp', 'RcppArmadillo'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
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 checking math rendering: package 'V8' unavailable
Packages required but not available: 'broom', 'tidyr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'DALEX', 'ingredients', 'iBreakDown', 'r2d3', 'digest'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'kableExtra', 'tables'

Packages suggested but not available for checking:
  'AER', 'Amelia', 'bookdown', 'brms', 'broom', 'broom.mixed', 'car',
  'covr', 'did', 'digest', 'DT', 'estimatr', 'fixest', 'flextable',
  'future', 'future.apply', 'ggdist', 'ggplot2', 'gt', 'gtExtras',
  'haven', 'huxtable', 'IRdisplay', 'ivreg', 'lme4', 'magick',
  'marginaleffects', 'mice', 'officer', 'openxlsx', 'rmarkdown',
  'rstanarm', 'spelling', 'survey', 'tidyverse', 'tinysnapshot'

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

Package suggested but not available for checking: ‘covr’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'modeltime', 'modeltime.resample', 'tune', 'rsample', 'yardstick',
  'workflows', 'parsnip', 'recipes', 'timetk', 'dplyr', 'tidyr',
  'stringr'

Packages suggested but not available for checking:
  'gt', 'dials', 'glmnet', 'progressr', 'roxygen2', 'testthat',
  'tidymodels', 'xgboost', 'tidyverse', 'lubridate', 'rmarkdown',
  'covr', 'qpdf'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'StanHeaders', 'timetk', 'parsnip', 'dials', 'yardstick',
  'workflows', 'plotly', 'reactable', 'gt', 'ggplot2', 'tidyr',
  'dplyr', 'stringr', 'scales', 'janitor', 'forecast', 'xgboost',
  'prophet', 'tidyverse', 'tidymodels'

Packages suggested but not available for checking:
  'rstan', 'slider', 'sparklyr', 'workflowsets', 'recipes', 'rsample',
  'tune', 'lubridate', 'testthat', 'roxygen2', 'kernlab', 'glmnet',
  'thief', 'smooth', 'greybox', 'trelliscopejs', 'rmarkdown', 'qpdf',
  'covr', 'TSrepr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'modeltime', 'tune', 'rsample', 'workflows', 'parsnip', 'recipes',
  'dials', 'yardstick', 'timetk', 'dplyr', 'tidyr', 'stringr',
  'ggplot2', 'plotly', 'progressr'

Packages suggested but not available for checking:
  'roxygen2', 'testthat', 'tidymodels', 'tidyverse', 'tidyquant',
  'glmnet', 'lubridate', 'rmarkdown', 'covr'

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’ [0s/0s]
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:
  'cowplot', 'ggplot2', 'reshape2', 'scales'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'janitor', 'broom', 'stringr', 'infer'

Packages suggested but not available for checking:
  'testthat', 'covr', 'rmarkdown', 'vdiffr', 'openintro', 'patchwork',
  'viridis', 'readr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'devtools', 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package required but not available: ‘dplyr’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'markovchain', '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: 'rhandsontable', 'shiny', 'shinyBS'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘terra’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'shiny', 'DT', 'shinydashboard', 'readxl'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'covr'
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking:
  'rmarkdown', 'survey', 'testthat'
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available: 'sf', 'terra', 'memoise'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'AER'
Running examples in ‘modmarg-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: marg.ivreg
> ### Title: Predicted Margins for 'ivreg' objects from the 'AER' package
> ### Aliases: marg.ivreg
> 
> ### ** Examples
> 
> # From ?AER::ivreg
> 
> # data
> data("CigarettesSW", package = "AER")
Error in find.package(package, lib.loc, verbose = verbose) : 
  there is no package called ‘AER’
Calls: data -> find.package
Execution halted
Running ‘testthat.R’ [0s/1s]
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 checking math rendering: package 'V8' unavailable
Package required but not available: ‘igraph’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'glmnet', 'igraph', 'lme4', 'lmerTest', 'plyr', 'qgraph',
  'reshape2', 'systemfit'

Package suggested but not available for checking: ‘arm’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘ROI.plugin.glpk’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘geometry’

Package suggested but not available for checking: ‘rgl’

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’ [0s/1s]
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: 'BioStatR', 'ggplot2'
Running examples in ‘ModStatR-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: boot.mcor.ic
> ### Title: Intervalles de confiance bootstrap pour une matrice de
> ###   corrélation de Bravais-Pearson
> ### Aliases: boot.mcor.ic
> 
> ### ** Examples
> 
> data(Mesures5,package="BioStatR")
Error in find.package(package, lib.loc, verbose = verbose) : 
  there is no package called ‘BioStatR’
Calls: data -> find.package
Execution halted
Packages required but not available:
  'DescTools', 'e1071', 'C50', 'pROC', 'relaimpo', 'car',
  'NeuralNetTools', 'AER'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'testthat', 'devtools', 'lintr', 'rmarkdown'
Package required but not available: ‘FNN’

Packages suggested but not available for checking:
  'smoof', 'testthat', 'rmarkdown', 'ggplot2', 'reshape2', 'pkgdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘mvnfast’

Packages suggested but not available for checking:
  'clustMD', 'geometry', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'readr', 'stringr', 'dplyr', 'lubridate', 'ggplot2'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘SLHD’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'RJSONIO', 'tidyr', 'stringr', 'compareDF'

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: 'GenSA', 'GPareto'

Package suggested but not available for checking: ‘lhs’

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) CHECKSUCCESS.Rd:44: Escaped LaTeX specials: \&
Packages required but not available:
  'urltools', 'dplyr', 'stringr', 'tidyr', 'MolgenisAuth', 'arrow'

Packages suggested but not available for checking:
  'stringi', 'testthat', 'webmockr', 'mockery', 'rmarkdown',
  'DSMolgenisArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘urltools’

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'igraph', 'dplyr', 'stringr', 'WGCNA', 'Rfast', 'readr', 'tidyr'

Package suggested but not available for checking: ‘rmarkdown’

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'Rcpp', 'crawl', 'doRNG', 'raster', 'RcppArmadillo'

Packages suggested but not available for checking:
  'testthat', 'splines2', 'R.rsp', 'ggplot2', 'ggmap', 'lubridate',
  'dplyr', 'moveHMM', 'extraDistr', 'data.tree', 'geosphere',
  'doFuture', 'future', 'car', 'prodlim', 'qdapRegex'

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:
  'dendextend', 'dplyr', 'geometry', 'geomorph', 'ggplot2', 'sf'

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

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

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

Package suggested but not available for checking: ‘sass’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Packages required but not available: 'rvest', 'xml2'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) year-methods.Rd:76: Lost braces; missing escapes or markup?
    76 | \code{month} returns the month \code{numeric} {1, ..., 12}.
       |                                               ^
Argument items with no description in Rd file 'as.difftime.rd':
  ‘tim’ ‘format’
Packages suggested but not available for checking: 'DT', 'shiny', 'shinyBS'
Packages required but not available: 'digest', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'spelling', 'ggplot2'
Running ‘spelling.R’ [0s/1s]
Running the tests in ‘tests/spelling.R’ failed.
Complete output:
  > spelling::spell_check_test(vignettes = TRUE, error = FALSE)
  Error in loadNamespace(x) : there is no package called 'spelling'
  Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
  Execution halted
Package suggested but not available for checking: ‘testthat’
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
checkRd: (-1) TemplateList-class.Rd:29: Lost braces in \itemize; meant \describe ?
checkRd: (-1) TemplateList-class.Rd:30: Lost braces in \itemize; meant \describe ?
checkRd: (-1) TemplateList-class.Rd:31: Lost braces in \itemize; meant \describe ?
checkRd: (-1) TemplateList-class.Rd:32: Lost braces in \itemize; meant \describe ?
checkRd: (-1) TemplateList-class.Rd:33: Lost braces in \itemize; meant \describe ?
checkRd: (-1) bindEvents.Rd:26: Lost braces in \itemize; meant \describe ?
checkRd: (-1) bindEvents.Rd:27: Lost braces in \itemize; meant \describe ?
checkRd: (-1) bindEvents.Rd:28: Lost braces in \itemize; meant \describe ?
Packages required but not available: 'shiny', 'shinydashboard'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘optimx’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'DT', 'monobin', 'shiny', 'shinydashboard', 'shinyjs', 'dplyr'

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: 'dplyr', 'ggplot2', 'stringr', 'tidyr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'raster', 'rmarkdown', 'rnaturalearth', 'sf', 'terra'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘sitar’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/monomvn.Rcheck/00install.out’ for details.
Packages required but not available:
  'ape', 'phytools', 'phangorn', 'taxize'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
  > # * https://testthat.r-lib.org/articles/special-files.html
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Skipping checking math rendering: package 'V8' unavailable
checkRd: (-1) legacy.Rd:27: Lost braces in \itemize; meant \describe ?
checkRd: (-1) legacy.Rd:28: Lost braces in \itemize; meant \describe ?
checkRd: (-1) legacy.Rd:29: Lost braces in \itemize; meant \describe ?
checkRd: (-1) legacy.Rd:30: Lost braces in \itemize; meant \describe ?
checkRd: (-1) legacy.Rd:31: Lost braces in \itemize; meant \describe ?
checkRd: (-1) legacy.Rd:32: Lost braces in \itemize; meant \describe ?
checkRd: (-1) legacy.Rd:33: Lost braces in \itemize; meant \describe ?
checkRd: (-1) legacy.Rd:34: Lost braces in \itemize; meant \describe ?
checkRd: (-1) legacy.Rd:35: Lost braces in \itemize; meant \describe ?
checkRd: (-1) legacy.Rd:36: Lost braces in \itemize; meant \describe ?
checkRd: (-1) legacy.Rd:37: Lost braces in \itemize; meant \describe ?
checkRd: (-1) legacy.Rd:38: Lost braces in \itemize; meant \describe ?
checkRd: (-1) legacy.Rd:40: Lost braces in \itemize; meant \describe ?
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > ## load dependencies
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Skipping checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘reshape’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Package required but not available: ‘shiny’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'tidytext', 'ggwordcloud', 'stringr', 'scales',
  'RMariaDB', 'anytime', 'RSQLite', 'usethis', 'RPostgres'

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

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'dplyr', 'lubridate', 'readr'
Packages required but not available: 'Rcpp', 'terra'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'plyr', 'iml', 'pdp', 'vip', 'ggplot2', 'shiny', 'shinyWidgets',
  'rclipboard', 'DT', 'datamods', 'phosphoricons'

Packages suggested but not available for checking:
  'rmarkdown', 'rmdformats', 'descriptio', 'caret', 'pROC', 'dplyr',
  'e1071'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘cld2’
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/1s]
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:
  'dlr', 'memoise', 'piecemaker', 'readr', 'stringr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'devtools', 'testthat', 'roxygen2'
Running ‘testthat.R’ [0s/1s]
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:
  'Arothron', 'Rvcg', 'Morpho', 'oce', 'geometry', 'rgl', 'DescTools'

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

Packages suggested but not available for checking:
  'car', 'shapes', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'concaveman', 'ggplot2', 'automap', 'scales', 'alphahull'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ade4', 'candisc', 'car', 'heplots', 'StatMatch'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'rgl', 'reshape2', 'igraph', 'stringr'

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

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

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', 'rmarkdown', 'tidyr', 'dplyr', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'forecast', 'crch'

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

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

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

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:
  'tidyverse', 'reshape2', 'rmarkdown'

Packages which this enhances but not available for checking:
  'MortalityLaws', 'lifecontingencies'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘lubridate’

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

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

Packages suggested but not available for checking:
  'mosaic', 'ggformula', 'testthat', 'mosaicCalc'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'mosaic', 'reshape2', 'ggplot2', 'dplyr', 'tidyr', 'ggformula'
Running examples in ‘mosaicData-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: HeatX
> ### Title: Data from a heat exchanger laboratory
> ### Aliases: HeatX
> ### Keywords: datasets
> 
> ### ** Examples
> 
> # We can test for heat exchange with the environment by checking to see if the
> # heat gained by the cold water matches the heat lost by the hot water.
> C_p <- 4.182 / 60  # / 60 because measuring m in L/min
> HeatX2 <-
+   dplyr::mutate(HeatX,
+     Q.cold = m.cold * C_p * (T.cold.out - T.cold.in),
+     Q.hot  = m.hot * C_p * (T.hot.out- T.hot.in),
+     Q.env  = Q.cold + Q.hot
+   )
Error in loadNamespace(x) : there is no package called ‘dplyr’
Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
Packages required but not available:
  'mosaicCore', 'dplyr', 'caret', 'ggplot2', 'ggformula', 'testthat',
  'tidyr', 'tidyverse'

Package suggested but not available for checking: ‘mosaic’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'ggformula', 'mosaicCore', 'ggplot2', 'tidyr'

Packages suggested but not available for checking:
  'ggstance', 'ggridges', 'vdiffr', 'lubridate', 'testthat', 'rgl',
  'rmarkdown', 'covr', 'ggrepel', 'readr', 'ggdendro', 'latticeExtra',
  'broom', 'leaflet'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘nloptr’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dbscan', 'Rtsne'

Packages suggested but not available for checking:
  'annotate', 'bigparallelr', 'bigstatsr', 'future.apply',
  'scatterpie', 'ComplexHeatmap', 'fpc', 'ggplot2', 'ggpmisc',
  'ggthemes', 'rmarkdown', 'testthat', 'viridis', 'spelling'

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: ‘ggm’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'MBESS', 'ez', 'reshape'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'comat', 'philentropy', 'Rcpp', 'sf', 'stars', 'RcppArmadillo'

Packages suggested but not available for checking:
  'covr', 'dplyr', 'spdep', 'rmarkdown', 'testthat', 'terra'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'ggraph', 'igraph', 'intergraph', 'reshape2',
  'reticulate', 'scales', 'tidygraph'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ape', 'Rcpp', 'ks', 'caper'

Package suggested but not available for checking: ‘rmarkdown’

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking:
  'latticeExtra', 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
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:
  'dplyr', 'ggplot2', 'rmarkdown', 'testthat', 'V8'
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'dplyr', 'tidyr', 'ggplot2', 'scales', 'Rcpp', 'cstab',
  'fastcluster', 'fields'

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

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

Packages suggested but not available for checking:
  'digest', 'xml2', 'ggplot2', 'testthat', 'rmarkdown', 'lwgeom', 's2',
  'move', 'raster', 'lubridate', 'rnaturalearth', 'tidyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'gdistance', 'elevatr', 'raster', 'sf', 'terra'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'geosphere', 'ggplot2', 'ggmap', '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:
  'dplyr', 'ggplot2', 'igraph', 'osfr', 'scales', 'tidyr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'geosphere', 'raster', 'memoise', 'terra', 'xml2', 'Rcpp'

Packages suggested but not available for checking:
  'adehabitatHR', 'adehabitatLT', 'rmarkdown', 'ggmap', 'testthat',
  'ggplot2', 'leaflet', 'lubridate', 'ctmm', 'amt', 'bcpa', 'EMbC',
  'solartime'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘tm’
Error(s) in re-building vignettes:
  ...
--- re-building ‘movMF.Rnw’ using Sweave

Error: processing vignette 'movMF.Rnw' failed with diagnostics:
 chunk 12 
Error in library("tm") : there is no package called 'tm'

--- failed re-building 'movMF.Rnw'

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

Error: Vignette re-building failed.
Execution halted
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'glmnet', 'bst', 'WeightSVM'

Packages suggested but not available for checking:
  'zic', 'R.rsp', 'rmarkdown', 'e1071'

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:
  'dbplyr', 'dplyr', 'furrr', 'lubridate', 'RSQLite', 'tidyr'

Packages suggested but not available for checking:
  'ggplot2', 'lintr', 'progressr', 'rmarkdown', 'rvest', 'testthat',
  'vroom'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) thresh.est.Rd:16: Lost braces
    16 |   Calculates the stimulus level(s) for a probit model of a psychometric function for given levels of performance.  For a more general version, see \link[MASS]{dose.p} in pkg{MASS}.
       |                                                                                                                                                                              ^
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘car’

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

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

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

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Rd files without \alias:
  ‘MPLikelihoodWB-package.Rd’
Packages required but not available:
  'bestglm', 'doRNG', 'plyr', 'shinydashboard', 'shiny', 'glmnet',
  'ggplot2', 'reshape2', 'scales', 'dplyr', 'tidyr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'plyr', 'pander', 'digest', 'ggplot2', 'fastDummies'

Packages suggested but not available for checking:
  'rhdf5', 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'MplusAutomation', 'dplyr', 'furrr', 'future'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘MplusAutomation’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'popdemo', 'reshape', 'Rcompadre'

Packages suggested but not available for checking:
  'covr', 'ggfortify', 'Rage', 'rmarkdown', 'testthat', 'viridis'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
checkRd: (-1) apc.Rd:28: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) apc.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) apc.Rd:30: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) apc.Rd:31: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) mpn.Rd:28-29: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) mpn.Rd:30: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) mpn.Rd:31-35: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) mpn.Rd:36-40: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) mpn.Rd:41: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) mpn.Rd:42: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) mpn.Rd:43: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) mpn.Rd:44: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) mpn.Rd:45: Lost braces in \itemize; \value handles \item{}{} directly
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/1s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available:
  'stringr', 'stringi', 'partitions', 'plyr', 'ggplot2', 'tidyr'

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

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

Packages suggested but not available for checking:
  'BMA', 'bkmr', 'bws', 'infinitefactor', 'qgcomp', 'rmarkdown',
  'rstan', 'testthat', 'openxlsx'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'ggplot2', 'igraph', 'qtl'

Packages suggested but not available for checking: 'rmarkdown', '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 checking math rendering: package 'V8' unavailable
Package required but not available: ‘ape’

Package suggested but not available for checking: ‘caper’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'testthat', 'covr'
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'Rcpp', 'RcppEigen'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'tidyr', 'dplyr', 'reshape2', 'ggplot2', 'MPTinR', 'TreeBUGS',
  'runjags', 'readr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'dplyr', 'flowTraceR', 'ggplot2', 'plotly', 'stringr', 'tidyr',
  'UpSetR'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Packages required but not available: 'pch', 'Hmisc'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) F.huggins.estim.Rd:199: Escaped LaTeX specials: \$ \$
checkRd: (-1) F.huggins.estim.Rd:205: Escaped LaTeX specials: \$
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checkRd: (-1) F.huggins.estim.Rd:212: Escaped LaTeX specials: \$
checkRd: (-1) F.huggins.estim.Rd:213: Escaped LaTeX specials: \$
checkRd: (-1) F.huggins.estim.Rd:214: Escaped LaTeX specials: \$
checkRd: (-1) F.huggins.estim.Rd:215: Escaped LaTeX specials: \$
checkRd: (-1) lines.cjs.Rd:15: Escaped LaTeX specials: \$
Skipping checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'Rcpp', 'rstan', 'rstantools', 'plyr', 'RcppEigen', 'StanHeaders'

Packages suggested but not available for checking:
  'testthat', 'rjags', 'tidyverse', 'ggplot2', 'ggmcmc', 'DescTools',
  'kableExtra', 'roxygen2', 'bookdown', 'MendelianRandomization'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘keras’
Packages required but not available: 'fields', 'Rcpp'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'fda', 'fdapace', 'ggplot2', 'reshape2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘optimx’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'xml2', 'sf', 'geojsonio', 'geojson', 'geojsonsf'

Packages suggested but not available for checking:
  'roxygen2', 'testthat', 'rgdal', 'rgeos', 'rmapshaper'

Package which this enhances but not available for checking: ‘leaflet’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/1s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available:
  'Rcpp', 'dplyr', 'tidyr', 'ggplot2', 'RcppArmadillo'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'glmnet', 'plyr', 'ggplot2', 'dplyr', 'caret', 'reshape2', 'igraph'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'geometry', 'reshape2', 'Rcpp', 'RcppEigen',
  'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'forecast', 'monmlp', 'nnfor'

Package suggested but not available for checking: ‘rmarkdown’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'mrgsolve', 'dplyr', 'future', 'future.apply', 'fst'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'mrgsolve', 'dplyr', 'ggplot2', 'tidyr', 'patchwork'

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

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

Packages suggested but not available for checking:
  'testthat', 'xml2', 'rmarkdown', 'pmxTools'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘IHSEP’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘oro.nifti’

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.
Package required but not available: ‘fda’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'shiny', 'Rcpp', 'shinyjs', 'bigmemory', 'mrMLM', 'RcppEigen'

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.
Package required but not available: ‘igraph’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'compositions', 'GGally', 'fastcluster', 'Hmisc', 'mice', 'pcalg',
  'WGCNA', 'plyr'

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

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) bmi.bmi.Rd:14: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) bmi.bmi.Rd:15: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) bmi.bmi.Rd:16: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) bmi.sbp.Rd:14: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) bmi.sbp.Rd:15: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) bmi.sbp.Rd:16: Lost braces in \enumerate; meant \describe ?
Packages required but not available: 'caret', 'igraph'

Package suggested but not available for checking: ‘rmarkdown’

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’

Package which this enhances but not available for checking: ‘rstan’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘geepack’

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

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', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'rmarkdown', 'plotly', 'ggplot2', 'glmnet'

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.
Package required but not available: ‘glmnet’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
checkRd: (-1) msa-package.Rd:17: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) msa-package.Rd:19: Lost braces in \enumerate; meant \describe ?
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checkRd: (-1) msa.Rd:67: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) msa.Rd:69: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) msa.Rd:42: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) msa.Rd:43: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) msa.Rd:44: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) msa.Rd:45: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) msa.Rd:47: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) msa.Rd:48: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summary.msa.Rd:24: Lost braces in \itemize; meant \describe ?
checkRd: (-1) summary.msa.Rd:25: Lost braces in \itemize; meant \describe ?
checkRd: (-1) summary.msa.Rd:26: Lost braces in \itemize; meant \describe ?
checkRd: (-1) summary.msa.Rd:27: Lost braces in \itemize; meant \describe ?
checkRd: (-1) summary.msa.Rd:28: Lost braces in \itemize; meant \describe ?
checkRd: (-1) summary.msa.Rd:29: Lost braces in \itemize; meant \describe ?
checkRd: (-1) summary.msa.Rd:30: Lost braces in \itemize; meant \describe ?
Package suggested but not available for checking: ‘rmarkdown’
checkRd: (-1) n.Rd:46: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) n.Rd:47-48: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) n.Rd:49-50: Lost braces in \itemize; \value handles \item{}{} directly
Packages required but not available: 'ape', 'htmlwidgets'

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

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

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’
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/msBP.Rcheck/00install.out’ for details.
Packages required but not available: 'Rcpp', 'RcppParallel'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'officer', 'xml2', 'htmltools'

Package suggested but not available for checking: ‘doconv’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'cp4p', 'caret', 'e1071', 'MALDIquantForeign', 'mixOmics',
  'reshape2', 'ggplot2', 'dplyr', 'fuzzyjoin', 'metap', 'xgboost',
  'glmnet', 'performanceEstimation', 'UBL', 'car', 'vita'

Package suggested but not available for checking: ‘rmarkdown’

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

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

Packages suggested but not available for checking:
  'rgenoud', 'GenSA', 'GA', 'nloptr', 'kernlab', 'reshape', 'rmarkdown'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ape', 'kSamples'

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

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'mscsweblm4r'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'rmarkdown', 'covr', 'testthat', 'rvest', 'xml2'
Running ‘testthat.R’ [0s/0s]
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: ‘pander’

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'mscstexta4r'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Argument items with no description in Rd file 'msda.Rd':
  ‘sml’
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘Rcpp’

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

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:
  'dplyr', 'ggplot2', 'ggrepel', 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'broom', 'covr', 'DT', 'kableExtra', 'openxlsx', 'r4ss', 'readxl',
  'reshape2', 'rfishbase', 'rmarkdown', 'shiny', 'testthat', 'tidyr',
  'TMB', 'usethis'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'nnfor', 'MSGARCH', 'forecast'

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.
Found the following files/directories:
  ‘test.txt’
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking:
  'animation', 'igraph', 'rgl', 'ggplot2'
Running examples in ‘MSG-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: canabalt
> ### Title: The scores of the game Canabalt from Twitter
> ### Aliases: canabalt
> 
> ### ** Examples
> 
> library(ggplot2)
Error in library(ggplot2) : there is no package called ‘ggplot2’
Execution halted
Packages suggested but not available for checking: 'testthat', 'covr'
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/0s]
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', 'stringr', 'ggplot2', 'ggbeeswarm', 'tidyr'

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

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'do', 'rvest', 'xml2', 'set', 'plyr', 'kableExtra', 'tmcn', 'dplyr',
  'stringr', 'sqldf'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘philentropy’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'tidyr', 'plyr', 'caret', 'e1071', 'mice', 'pROC', 'ranger'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'rgl'
'LazyData' is specified without a 'data' directory
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'dplyr', 'memoise', 'readr', 'tidyjson', 'tidyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'forecast', 'plyr', 'Rssa'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
checkRd: (-1) ml_g.Rd:47: Escaped LaTeX specials: \&
Packages suggested but not available for checking:
  'minqa', 'testthat', 'flexsurv', 'covr'
Running ‘test_base.R’ [0s/1s]
Running the tests in ‘tests/test_base.R’ failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'ggplot2', 'patchwork', 'scales'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘dplyr’

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

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: 'reshape2', 'dplyr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) ms_sev.Rd:31: Escaped LaTeX specials: \_
Invalid package aliases in Rd file 'ms_sev-package.Rd':
  ‘ms_sev-package’
Packages required but not available:
  'dplyr', 'lubridate', 'stringr', 'tidyr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'ggplot2', 'rmarkdown', 'relsurv'
Running examples in ‘mstate-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: plot.Cuminc
> ### Title: Plot method for Cuminc objects
> ### Aliases: plot.Cuminc
> 
> ### ** Examples
> 
> library(ggplot2)
Error in library(ggplot2) : there is no package called ‘ggplot2’
Execution halted
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘rmarkdown’
'LazyData' is specified without a 'data' directory
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘reshape2’

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘latex2exp’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'RSQLite', 'testthat', 'rmarkdown'
Running ‘testthat.R’ [0s/0s]
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: ‘igraph’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'crul', 'shinyjs', 'shiny'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘testthat’
checkRd: (-1) multivar_joint_shannon_entropy.Rd:20: Lost braces
    20 |     {\code{table.variables}, \code{table.class}}.
       |     ^
checkRd: (-1) total_correlation.Rd:20: Lost braces
    20 |     {\code{table.variables}, \code{table.class}}.
       |     ^
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘rmarkdown’
Packages required but not available: 'igraph', 'sf'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘CompQuadForm’

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', 'ggplot2', 'scales'

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

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'ggplot2', 'car'
'LazyData' is specified without a 'data' directory
Running examples in ‘mthapower-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: mthapower
> ### Title: Power calculations - mtDNA haplogroups
> ### Aliases: mthapower
> 
> ### ** Examples
> 
> # Example 1:
> pow <- mthapower(n.cases=203, p0=0.443, Nh=13, OR.cas.ctrl=2.33, sig.level=0.05)
> 
> # Example 2:
> # Create data frames
> pow.H150 <- mthapower(n.cases=seq(50,1000,by=50), p0=0.433, Nh=11,
+                       OR.cas.ctrl=1.5, sig.level=0.05)
> pow.H175 <- mthapower(n.cases=seq(50,1000,by=50), p0=0.433, Nh=11,
+                       OR.cas.ctrl=1.75, sig.level=0.05)
> pow.H200 <- mthapower(n.cases=seq(50,1000,by=50), p0=0.433, Nh=11,
+                       OR.cas.ctrl=2, sig.level=0.05)
> pow.H250 <- mthapower(n.cases=seq(50,1000,by=50), p0=0.433, Nh=11,
+                       OR.cas.ctrl=2.5, sig.level=0.05)
> 
> # Bind the three data frames:
> bindata <- rbind(pow.H150,pow.H175,pow.H200,pow.H250)
> # Adds column OR to binded data frame:
> bindata$OR <- rep(factor(c(1.50,1.75,2,2.5)),
+               times = c(nrow(pow.H150),
+                         nrow(pow.H175),
+                         nrow(pow.H200),
+                         nrow(pow.H250)))
> # Create plot:
> # install.packages("car")
> library(car)
Error in library(car) : there is no package called ‘car’
Execution halted
Package required but not available: ‘caret’

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:
  'ggplot2', 'reshape2', 'testthat', 'vdiffr', 'covr', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'glmnet', 'e1071'

Packages suggested but not available for checking:
  'rmarkdown', 'ggplot2', 'reshape2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'e1071', 'latticeExtra'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'magick', 'imager', 'dplR', 'spatstat.geom', 'measuRing', 'shiny',
  'dplyr', 'shinydashboard', 'shinyWidgets'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'broom.mixed', 'dplyr', 'glmmTMB', 'readr', 'stringr'

Packages suggested but not available for checking:
  'shiny', 'covr', 'datamods', 'DT', 'roxygen2', 'shinyWidgets',
  'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) mkjnw.Rd:3: Escaped LaTeX specials: \&
checkRd: (-1) mkjnw.Rd:6: Escaped LaTeX specials: \&
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'Rcpp', 'RcppEigen'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'dplyr', 'ggplot2', 'janitor', 'rmarkdown', 'stringr', 'testthat',
  'tidyr'
Running ‘testthat.R’ [0s/1s]
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’ [0s/0s]
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', 'dplyr'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
'LazyData' is specified without a 'data' directory
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'DiagrammeR', 'dplyr', 'stringr'

Package suggested but not available for checking: ‘htmlwidgets’

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

Packages suggested but not available for checking:
  'tourr', 'ggdendro', 'kohonen'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Packages required but not available: 'igraph', 'rgl', 'randomcoloR'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘OpenMx’

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.
Package required but not available: ‘Rglpk’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'scales', 'geometry', 'mirt', 'Hmisc', 'car', 'gplots', 'dae'

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

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', 'tram', 'fixest', 'glmmTMB'
Found the following significant warnings:

  Warning: 'is.R' is deprecated.
Deprecated functions may be defunct as soon as of the next release of
R.
See ?Deprecated.
Error(s) in re-building vignettes:
  ...
--- re-building ‘chfls1.Rnw’ using Sweave
Loading required package: mvtnorm
Loading required package: survival
Loading required package: TH.data

Attaching package: ‘TH.data’

The following object is masked from ‘package:MASS’:

    geyser

Warning in RET$pfunction("adjusted", ...) :
  Completion with error > abseps
Warning in RET$pfunction("adjusted", ...) :
  Completion with error > abseps
Warning in RET$pfunction("adjusted", ...) :
  Completion with error > abseps
Warning in RET$pfunction("adjusted", ...) :
  Completion with error > abseps
Warning in RET$pfunction("adjusted", ...) :
  Completion with error > abseps
Warning in RET$pfunction("adjusted", ...) :
  Completion with error > abseps
--- finished re-building ‘chfls1.Rnw’

--- re-building ‘generalsiminf.Rnw’ using Sweave
Loading required package: mvtnorm
Loading required package: survival
Loading required package: TH.data
Loading required package: MASS

Attaching package: ‘TH.data’

The following object is masked from ‘package:MASS’:

    geyser


Attaching package: ‘robustbase’

The following object is masked from ‘package:survival’:

    heart


Error: processing vignette 'generalsiminf.Rnw' failed with diagnostics:
 chunk 2 (label = setup-2) 
Error in library("lme4") : there is no package called ‘lme4’

--- failed re-building ‘generalsiminf.Rnw’

--- re-building ‘multcomp-examples.Rnw’ using Sweave
Loading required package: mvtnorm
Loading required package: survival
Loading required package: TH.data
Loading required package: MASS

Attaching package: ‘TH.data’

The following object is masked from ‘package:MASS’:

    geyser

Waiting for profiling to be done...
Warning in chkdots(...) :
  Argument(s) ‘abseps’ passed to ‘...’ are ignored
--- finished re-building ‘multcomp-examples.Rnw’

SUMMARY: processing the following file failed:
  ‘generalsiminf.Rnw’

Error: Vignette re-building failed.
Execution halted
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘pgirmess’
Documented arguments not in \usage in Rd file 'plotBoxes.Rd':
  ‘lwd’ ‘T.base’ ‘font.family’ ‘fig’ ‘mar’

Documented arguments not in \usage in Rd file 'plotLetters.Rd':
  ‘width’ ‘lwd’ ‘label.groups’ ‘T.base’ ‘orientation’

Documented arguments not in \usage in Rd file 'plotTs.Rd':
  ‘font.family’ ‘fig’ ‘mar’

Functions with \usage entries need to have the appropriate \alias
entries, and all their arguments documented.
The \usage entries must correspond to syntactically valid R code.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
Package required but not available: ‘MTS’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) MultEq-package.Rd:26-27: Lost braces in \itemize; meant \describe ?
checkRd: (-1) MultEq-package.Rd:28-29: Lost braces in \itemize; meant \describe ?
checkRd: (-1) MultEq-package.Rd:30: Lost braces in \itemize; meant \describe ?
'LazyData' is specified without a 'data' directory
Packages required but not available: 'Rcpp', 'RcppArmadillo'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'DT', 'shiny', 'shinydashboard', 'shinydashboardPlus', 'ggstatsplot',
  'ggplot2', 'dplyr', 'BayesFactor', 'broom', 'car', 'highcharter',
  'reshape', 'shinycssloaders', 'PMCMRplus', 'stringr', 'waiter',
  'htmltools'

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

Packages suggested but not available for checking:
  'readxl', 'readr', 'cowplot', 'reshape2', 'sjmisc', 'stringr',
  'rmarkdown', 'bookdown', 'kableExtra'

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', 'rmarkdown', 'MCMCpack', 'ggplot2'

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

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

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

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ade4', 'car', 'lme4', 'mixlm', 'plsVarSel', 'Rcpp', 'RSpectra',
  'SSBtools', 'RcppEigen'

Packages suggested but not available for checking:
  'FactoMineR', 'RGCCA', 'r.jive', 'rmarkdown'

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

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

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/0s]
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:
  'igraph', 'plotly', 'shiny', 'shinythemes'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ranger', 'Boruta', 'caret', 'e1071', 'rdist'

Packages suggested but not available for checking:
  'switchBox', 'rmarkdown', 'BiocStyle', 'qpdf'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) dbivCMP.Rd:14: Lost braces; missing escapes or markup?
    14 | \item{bivprob}{Bivariate probabilities, {p00, p01, p10, p11}.}
       |                                         ^
Package required but not available: ‘Rcpp’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ggplot2', 'lme4', 'pcaMethods'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'glmnet', 'pROC', 'lme4', 'lmerTest'

Packages suggested but not available for checking:
  'rmarkdown', 'overlapping', 'rio'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'funData', 'MFPCA', 'sparseFLMM'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'GFDmcv', 'fda'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'ez', 'stringr', 'reshape2', 'ggplot2', 'BayesFactor',
  'broom'

Packages suggested but not available for checking:
  'fastDummies', 'tidyr', 'plyr', 'ggraph', 'testthat', 'cowplot',
  'covr', 'rmarkdown'

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: 'qgraph', 'rmarkdown'

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

Packages suggested but not available for checking:
  'ggplot2', 'tidyr', 'patchwork', 'car'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/1s]
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: 'glmnet', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available:
  'ggplot2', 'cowplot', 'plsgenomics', 'gplots', 'ggrepel', 'qgraph',
  'mgm'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Documented arguments not in \usage in Rd file 'Trace.Rd':
  ‘x’

Documented arguments not in \usage in Rd file 'iteraite_fun_Iter.Rd':
  ‘The’

Documented arguments not in \usage in Rd file 'prepare_data.Rd':
  ‘The’

Documented arguments not in \usage in Rd file 'project.Rd':
  ‘x’

Documented arguments not in \usage in Rd file 'select_initial_Iter.Rd':
  ‘X’ ‘parametrs’

Documented arguments not in \usage in Rd file 'similarity_function.Rd':
  ‘x’

Documented arguments not in \usage in Rd file 'similarity_noncum.Rd':
  ‘x’

Functions with \usage entries need to have the appropriate \alias
entries, and all their arguments documented.
The \usage entries must correspond to syntactically valid R code.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
Packages required but not available: 'OpenMx', 'hommel'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Packages required but not available: 'ape', 'igraph'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'compositions', 'brms', 'ggplot2', 'doFuture'

Packages suggested but not available for checking:
  'testthat', 'covr', 'rmarkdown', 'lme4', 'cmdstanr'

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

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

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

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'lme4', 'lmerTest', 'JWileymisc', 'cowplot', 'ggplot2'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘usethis’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'igraph', 'RecordLinkage', 'Rcpp', 'geosphere', 'stringr',
  'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'prodlim', 'raster'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘ks’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'lubridate', 'stringr', 'tidyr', 'sqldf'

Package suggested but not available for checking: ‘rmarkdown’

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

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

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

Packages suggested but not available for checking:
  'sand', 'statnet', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'RcppParallel', 'rstan', 'rstantools', 'dplyr', 'copula',
  'tidyr', 'stringr', 'igraph', 'ggraph', 'ggplot2', 'ggdist',
  'bayesplot', 'RcppEigen', 'StanHeaders'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'R.rsp', 'tidygraph', 'pkgdown', 'splines2',
  'flexsurv', 'rstpm2'

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', 'ggplot2', 'RcppArmadillo'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available:
  'cobalt', 'dplyr', 'optmatch', 'matchMulti', 'fields', 'plyr',
  'rcbalance', 'rlemon'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘interp’

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

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

Packages suggested but not available for checking:
  'ComplexHeatmap', 'roxygen2', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'meta', 'HardyWeinberg'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'RcppParallel', 'rstan', 'rstantools', 'RcppEigen',
  'StanHeaders'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'dplyr', 'ROI.plugin.glpk', 'ompr', 'ompr.roi'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/1s]
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 checking math rendering: package 'V8' unavailable
checkRd: (-1) nullestimation.Rd:17: Lost braces; missing escapes or markup?
    17 |           \code{U}        \tab The common latent space vectors. U in R^{n x d}\cr
       |                                                                        ^
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking: 'rmarkdown', 'qpdf'
Package required but not available: ‘pROC’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘SuppDists’
Packages suggested but not available for checking: 'dplyr', 'ggplot2'
Package required but not available: ‘lme4’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'terra', 'Rcpp', 'raster', 'dplyr', 'shiny', 'rgl', 'RcppArmadillo'

Packages suggested but not available for checking:
  'rmarkdown', 'tmap', 'cowplot', 'magick'

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: ‘sensitivity’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'AROC', 'lme4', 'lmerTest', 'logistf', 'pROC'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'lme4', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘kohonen’

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

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘arrangements’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘psd’
Packages required but not available:
  'DiagrammeR', 'dplyr', 'flextable', 'furrr', 'future', 'ggdist',
  'ggplot2', 'stringr', 'tidyr', 'lme4'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘gplots’

Package suggested but not available for checking: ‘CCA’

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

Package suggested but not available for checking: ‘rmarkdown’

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', 'ggplot2', 'reshape2', 'glmnet', 'RcppArmadillo'

Package suggested but not available for checking: ‘rmarkdown’

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

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

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.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'dplyr', 'tidyr', 'future.apply'

Packages suggested but not available for checking:
  'ggplot2', 'testthat', 'rmarkdown', 'covr', 'broom', 'gganimate',
  'stringr', 'cowplot', 'tidybayes', 'stringi', 'modelr', 'styler',
  'future'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘ICSNP’

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', 'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘MultivariateRandomForest’

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', 'gamm4', 'geepack'

Packages which this enhances but not available for checking:
  'caper', 'cplm', 'logistf', 'MCMCglmm', 'spatialreg', 'splm',
  'unmarked'
Skipping checking math rendering: package 'V8' unavailable
checkRd: (-1) metricUnfolding.Rd:69-70: Lost braces in \itemize; meant \describe ?
checkRd: (-1) metricUnfolding.Rd:71-72: Lost braces in \itemize; meant \describe ?
checkRd: (-1) metricUnfolding.Rd:73-74: Lost braces in \itemize; meant \describe ?
checkRd: (-1) metricUnfolding.Rd:75-79: Lost braces in \itemize; meant \describe ?
checkRd: (-1) metricUnfolding.Rd:80-86: Lost braces in \itemize; meant \describe ?
Packages suggested but not available for checking: 'rmarkdown', 'flextable'
checkRd: (-1) plotLociHC.Rd:55: Lost braces; missing escapes or markup?
    55 | If \code{value} is one of {0.2,0.4,0.6,0.8,1,2,3,4,5,6,7,8,9,10}
       |                           ^
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking: 'ggplot2', 'testthat'
Documented arguments not in \usage in Rd file 'check_mnsl.Rd':
  ‘fix’

Documented arguments not in \usage in Rd file 'text_colour.Rd':
  ‘a’

Functions with \usage entries need to have the appropriate \alias
entries, and all their arguments documented.
The \usage entries must correspond to syntactically valid R code.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
Running examples in ‘munsell-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: chroma_slice
> ### Title: Plot all colours with the same chroma
> ### Aliases: chroma_slice
> 
> ### ** Examples
> 
> chroma_slice(2)
Error: ggplot2 needed for this function to work. Please install it.
Execution halted
Running ‘testthat.R’ [0s/1s]
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’

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’ [0s/1s]
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:
  'FNN', 'ggplot2', 'plyr', 'reshape2', 'umap'

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

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'DescTools', 'pander'
Packages suggested but not available for checking: 'covr', 'testthat'
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages suggested but not available for checking: 'qvalue', 'testthat'
Running examples in ‘mutoss-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: Qvalue
> ### Title: Storey's (2001) q-value Procedure...
> ### Aliases: Qvalue
> 
> ### ** Examples
> pval <- c(runif(50), runif(50, 0, 0.01))
> result <- Qvalue(pval)
Loading required package: qvalue
Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE,  :
  there is no package called ‘qvalue’
Package qvalue is required - should we install it?
Error in requireLibrary("qvalue") : 
  Required package qvalue should not be installed
Calls: Qvalue -> requireLibrary
Execution halted
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Package required but not available: ‘ggplot2’

Packages suggested but not available for checking:
  'dplyr', 'reshape2', 'kableExtra', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘runner’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
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 suggested but not available for checking: 'RLRsim', 'ape', 'sem'
Skipping checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'MNM', 'SpatialNP'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘RobPer’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'multiverse', 'dplyr', 'tidyr', 'stringr', 'broom', 'igraph',
  'ggraph', 'ggplot2', 'cowplot'

Packages suggested but not available for checking:
  'tidyverse', 'scales', 'testthat', 'pkgdown', 'covr', 'rmarkdown',
  'kableExtra'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'WeightIt', 'cobalt', 'geometry', 'gbm', 'CBPS'

Packages suggested but not available for checking:
  'testthat', 'dagitty', 'ggdag', 'dplyr', 'rmarkdown', 'ggplot2'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rfast', 'Rfast2'

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

Packages suggested but not available for checking:
  'rmarkdown', 'ggplot2', 'patchwork', 'rgl', 'dplyr'

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’
Package has ‘vignettes’ subdirectory but apparently no vignettes.
Perhaps the ‘VignetteBuilder’ information is missing from the
DESCRIPTION file?
Package required but not available: ‘CompQuadForm’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'mvLSW', 'imputeTS'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘fields’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'CompQuadForm', 'dplyr', 'Rcpp', 'tidyr', 'RcppArmadillo',
  'RcppParallel', 'RcppSpdlog', 'testthat'

Packages suggested but not available for checking:
  'GGally', 'ggplot2', 'ggrepel', 'kableExtra', 'RcppAlgos',
  'rmarkdown', 'testthat'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘meta’
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘lme4’

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

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

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

Package suggested but not available for checking: ‘car’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘plyr’

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

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:
  'rmarkdown', 'testthat', 'plyr'

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

Package suggested but not available for checking: ‘mice’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘copula’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'plyr', 'energy', 'car'

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

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

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

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) pkb.Rd:14: Escaped LaTeX specials: \# \# \#
Packages required but not available: 'libstable4u', 'cubature'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘gmp’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'mpoly', 'Rcpp', 'partitions', 'digest', 'disordR'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'maxLik', 'bayesm', 'miscTools'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rgl', 'rmarkdown'
Running examples in ‘mvQuad-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: plot (plot.NIGrid)
> ### Title: plots an NIGrid-object
> ### Aliases: 'plot (plot.NIGrid)' plot.NIGrid
> 
> ### ** Examples
> 
> myGrid <- createNIGrid(dim=4, type=c("GHe", "cNC1", "GLe", "oNC1"),
+                        level=c(3,4,5,6))
> plot(myGrid) ## dimension 1-min(3,dim(myGrid)) are plotted
Error in plot.NIGrid(myGrid) : 
  wrong dimensions stated to be plotted (no 'rgl'-package for 3d-plot)
Calls: plot -> plot.NIGrid
Execution halted
Skipping checking math rendering: package 'V8' unavailable
'LazyData' is specified without a 'data' directory
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/MVR.Rcheck/00install.out’ for details.
Packages required but not available: 'Rcpp', 'RcppArmadillo', 'RcppThread'

Packages suggested but not available for checking:
  'dplyr', 'furrr', 'rmarkdown', 'stringr', 'testthat', 'textmineR',
  'tidytext', 'spelling'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ape', 'PCMBase'

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

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘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: ‘MCMCpack’

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

Package suggested but not available for checking: ‘plotly’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘rrcov’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘cem’

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

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

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘cubature’

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

Packages suggested but not available for checking:
  'rmarkdown', 'ggplot2', 'visNetwork', 'htmlwidgets'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'nnTensor', 'ccTensor', 'iTensor', '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: ‘OpenMx’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'lme4', 'Rfast', 'visNetwork', 'energy', 'geepack', 'dplyr',
  'bigmemory', 'Rfast2', 'Hmisc'

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', 'fda', 'reticulate', 'caret', 'e1071', 'ggplot2', 'tidyr',
  'uwot', 'lme4', 'stringr', 'kSamples'

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

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/1s]
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:
  'stringr', 'lubridate', 'dplyr', 'tidyr', 'ggplot2', 'ggforce',
  'viridis', 'plotly', 'vroom'

Packages suggested but not available for checking:
  'rmarkdown', 'kableExtra', 'rTubeDB', '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’ [0s/1s]
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: 'rmarkdown', 'testthat'
Package required but not available: ‘car’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'dplyr', 'taxize', 'reshape2', 'ggplot2', 'readr', 'scales',
  'edgeR', 'RcppArmadillo'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
checkRd: (-1) mzipmed_data.Rd:22: Lost braces; missing escapes or markup?
    22 | @source {Simulated to serve as an example}
       |         ^
Packages required but not available: 'Rcpp', 'RcppArmadillo'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘rvest’

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

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

Packages suggested but not available for checking:
  'devtools', 'testthat', 'xml2', 'rmarkdown', 'roxygen2', 'rvest'

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', 'RANN'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'ggforce', 'ggrepel', 'rmarkdown', 'shiny', 'shinyWidgets'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'testthat', 'igraph'
Running examples in ‘NAC-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: SCORE
> ### Title: Spectral Clustering On Ratios-of-Eigenvectors.
> ### Aliases: SCORE
> 
> ### ** Examples
> 
> 
> # Simulate the Network
> n = 10; K = 2;
> theta = 0.4 + (0.45-0.05)*(seq(1:n)/n)^2; Theta = diag(theta);
> P  = matrix(c(0.8, 0.2, 0.2, 0.8), byrow = TRUE, nrow = K)
> set.seed(2022)
> l = sample(1:K, n, replace=TRUE); # node labels
> Pi = matrix(0, n, K) # label matrix
> for (k in 1:K){
+   Pi[l == k, k] = 1
+ }
> Omega = Theta %*% Pi %*% P %*% t(Pi) %*% Theta;
> Adj = matrix(runif(n*n, 0, 1), nrow = n);
> Adj = Omega - Adj;
> Adj = 1*(Adj >= 0)
> diag(Adj) = 0
> Adj[lower.tri(Adj)] = t(Adj)[lower.tri(Adj)]
> library(igraph)
Error in library(igraph) : there is no package called ‘igraph’
Execution halted
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'EnvStats', 'survminer'

Packages suggested but not available for checking:
  'rmarkdown', 'bestglm', 'car', 'rms'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'mlr3', 'mlr3pipelines', 'paradox', 'missForest', 'missMDA',
  'testthat', 'mlr3learners', 'glmnet', 'Amelia', 'VIM', 'missRanger',
  'mice'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) M36NT2PM.dat.Rd:37: Lost braces in \itemize; meant \describe ?
checkRd: (-1) M36NT2PM.dat.Rd:38: Lost braces in \itemize; meant \describe ?
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/1s]
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: 'sf', 'stringi'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'igraph', 'ggraph', 'ggplot2', 'dplyr', 'RcppArmadillo'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'ggplot2', 'readr', 'lubridate', 'imputeTS', 'scales', 'greybox',
  'Rfast', 'fastDummies', 'philentropy'

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 suggested but not available for checking:
  'testthat', 'covr', 'rmarkdown'
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available:
  'bib2df', 'dplyr', 'htmltools', 'lubridate', 'readr', 'stringr'

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

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

Packages suggested but not available for checking: 'rmarkdown', '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: ‘udpipe’

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'autothresholdr', 'detrendr', 'dplyr', 'filesstrings', 'ggplot2',
  'ijtiff', 'Rcpp', 'reshape2', 'stringr', 'viridis'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'tidyr', 'visdat', 'viridis', 'UpSetR'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'covr', 'wakefield', 'vdiffr',
  'simputation', 'imputeTS', 'Hmisc', 'spelling'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'arrow', 'testthat'
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/nanoarrow.Rcheck/00install.out’ for details.
Packages required but not available: 'ccaPP', 'dplyr', 'tidyr'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/1s]
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: ‘lubridate’

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

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.
Packages required but not available: 'Rcpp', 'stringr'

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

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

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'crul', 'lubridate', 'readr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'testthat', 'roxygen2'
Running ‘testthat.R’ [0s/0s]
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: 'rdist', 'beepr'

Packages suggested but not available for checking:
  'ppclust', 'spatialClust', 'ggplot2'

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', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘usethis’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'rgl', 'nat', 'nabor', 'plyr', 'spam'

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

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’ [0s/1s]
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 checking math rendering: package 'V8' unavailable
Package required but not available: ‘ggplot2’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'rgl', 'nabor', 'igraph', 'filehash', 'digest', 'plyr'

Packages suggested but not available for checking:
  'Rvcg', 'testthat', 'rmarkdown', 'alphashape3d', 'webshot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘crul’

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: 'caret', 'Rglpk', 'plyr', 'ggplot2'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'DT', 'stringr', 'covr', 'gurobi'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'nat', 'rgl', 'digest', 'igraph', 'memoise', 'Morpho'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'shiny', 'shinyWidgets', 'dplyr', 'stringr', 'raster',
  'shinydashboard', 'leaflet', 'leaflet.extras', 'tidytext',
  'fasterize', 'sf', 'htmltools', 'tm', 'stringi'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'rgeos', 'rgdal', 'rnaturalearth', 'lwgeom',
  'shinyLP', 'maptools'

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

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘issue-1.R’ [0s/1s]
  Running ‘issue-2.R’ [0s/0s]
  Running ‘issue-3.R’ [0s/0s]
  Running ‘spec.R’ [0s/0s]
Running the tests in ‘tests/issue-1.R’ failed.
Complete output:
  > stopifnot(require(testthat))
  Loading required package: testthat
  Error: require(testthat) is not TRUE
  In addition: Warning message:
  In library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE,  :
    there is no package called 'testthat'
  Execution halted
Running the tests in ‘tests/issue-2.R’ failed.
Complete output:
  > stopifnot(require(testthat))
  Loading required package: testthat
  Error: require(testthat) is not TRUE
  In addition: Warning message:
  In library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE,  :
    there is no package called 'testthat'
  Execution halted
Running the tests in ‘tests/issue-3.R’ failed.
Complete output:
  > stopifnot(require(testthat))
  Loading required package: testthat
  Error: require(testthat) is not TRUE
  In addition: Warning message:
  In library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE,  :
    there is no package called 'testthat'
  Execution halted
Running the tests in ‘tests/spec.R’ failed.
Complete output:
  > stopifnot(require(testthat))
  Loading required package: testthat
  Error: require(testthat) is not TRUE
  In addition: Warning message:
  In library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE,  :
    there is no package called 'testthat'
  Execution halted
Package suggested but not available for checking: ‘rmarkdown’
Packages suggested but not available for checking:
  'testthat', 'roxygen2', 'covr'
Running ‘testthat.R’ [0s/0s]
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:
  'plotly', 'simts', 'leaflet', 'Rcpp', 'RcppArmadillo'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘stickyr’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available: 'dplyr', 'tidyr'

Packages suggested but not available for checking:
  'rmarkdown', 'ggplot2', 'plyr', 'rvest', 'stringr', 'xml2'

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

Package suggested but not available for checking: ‘ggplot2’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘gplots’

Package suggested but not available for checking: ‘DEXSeq’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘shiny’

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

Package which this enhances but not available for checking: ‘openVA’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) NbClust.Rd:50: Lost braces; missing escapes or markup?
    50 |       \item \bold{Average} : The distance \eqn{D_{ij}}{D_ij} between two clusters \eqn{C_{i}}{C_i} and \eqn{C_{j}}{C_j} is the mean of the distances between the pair of points {x} and {y}, where \eqn{x \in C_{i}, y \in C_{j}}{x in C_i, y in C_j}.
       |                                                                                                                                                                                 ^
checkRd: (-1) NbClust.Rd:50: Lost braces; missing escapes or markup?
    50 |       \item \bold{Average} : The distance \eqn{D_{ij}}{D_ij} between two clusters \eqn{C_{i}}{C_i} and \eqn{C_{j}}{C_j} is the mean of the distances between the pair of points {x} and {y}, where \eqn{x \in C_{i}, y \in C_{j}}{x in C_i, y in C_j}.
       |                                                                                                                                                                                         ^
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘testthat’
checkRd: (-1) nbconvert.Rd:49: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) nbconvert.Rd:50: Lost braces in \enumerate; meant \describe ?
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
'LazyData' is specified without a 'data' directory
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘dplyr’
Packages required but not available:
  'Rcpp', 'rrpack', 'glmnet', 'RcppParallel', 'mpath', 'RcppArmadillo'

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

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

Package suggested but not available for checking: ‘sSeq’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'dplyr', 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package required but not available: ‘Hmisc’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘qvalue’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Packages required but not available:
  'shiny', 'rmarkdown', 'dplyr', 'caret', 'e1071', 'rhandsontable'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'shiny', 'rmarkdown', 'dplyr', 'caret', 'e1071', 'rhandsontable'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'shiny', 'rmarkdown', 'dplyr', 'caret', 'e1071', 'rhandsontable'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'caret', 'lubridate', 'poisbinom', 'tidyr'

Packages suggested but not available for checking:
  'ggplot2', 'Hmisc', 'igraph', 'pheatmap', 'rmarkdown', 'testthat'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'scales', 'reshape2', 'dplyr', 'readr', 'PopED', 'rmarkdown',
  'tidyr', 'ggplot2', 'bookdown'

Package suggested but not available for checking: ‘testthat’

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

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'RBesT', 'rjags', 'ggplot2', 'lmerTest', 'spaMM', 'magick'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/1s]
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:
  'ncmeta', 'sf', 'dplyr', 'stars', 'areal'

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

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

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: 'dplyr', 'tidyr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘rhoR’

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

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

Package suggested but not available for checking: ‘rmarkdown’

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 suggested but not available for checking:
  'testthat', 're2', 'stringi', 'ggplot2', 'tidyr', 'reshape2',
  'rmarkdown', 'covr', 'arrow'
Package required but not available: ‘yaImpute’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘copula’

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

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'ashr', 'rmarkdown'
checkRd: (-1) cv.ncvreg.Rd:153: Lost braces
   153 | c("\\Sexpr[results=rd]{tools:::Rd_expr_doi(\"#1\")}",
       |                       ^
checkRd: (-1) ncvreg.Rd:207: Lost braces
   207 | c("\\Sexpr[results=rd]{tools:::Rd_expr_doi(\"#1\")}",
       |                       ^
checkRd: (-1) ncvsurv.Rd:178: Lost braces
   178 | \strong{5}: 232-253.  c("\\Sexpr[results=rd]{tools:::Rd_expr_doi(\"#1\")}",
       |                                             ^
checkRd: (-1) ncvsurv.Rd:184: Lost braces
   184 | c("\\Sexpr[results=rd]{tools:::Rd_expr_doi(\"#1\")}",
       |                       ^
checkRd: (-1) plot.cv.ncvreg.Rd:81: Lost braces
    81 | c("\\Sexpr[results=rd]{tools:::Rd_expr_doi(\"#1\")}",
       |                       ^
checkRd: (-1) plot.ncvreg.Rd:40: Lost braces
    40 | c("\\Sexpr[results=rd]{tools:::Rd_expr_doi(\"#1\")}",
       |                       ^
checkRd: (-1) predict.ncvreg.Rd:92: Lost braces
    92 | c("\\Sexpr[results=rd]{tools:::Rd_expr_doi(\"#1\")}",
       |                       ^
checkRd: (-1) predict.ncvsurv.Rd:88: Lost braces
    88 | \strong{5}: 232-253.  c("\\Sexpr[results=rd]{tools:::Rd_expr_doi(\"#1\")}",
       |                                             ^
checkRd: (-1) summary.cv.ncvreg.Rd:64: Lost braces
    64 | c("\\Sexpr[results=rd]{tools:::Rd_expr_doi(\"#1\")}",
       |                       ^
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'energy', 'igraph', 'visNetwork'

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

Packages suggested but not available for checking:
  'DescTools', 'ggplot2', 'testthat', 'tigris', 'R.rsp', 'spelling',
  'usethis'

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’

Package suggested but not available for checking: ‘covr’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'shiny', 'rmarkdown'

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

Packages suggested but not available for checking:
  'tergm', 'ergm', 'tsna', 'testthat', 'htmlwidgets'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'igraph', 'heatmaply', 'ggplot2', 'dplyr'

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: ‘igraph’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'viridis', 'pROC', 'MBESS', 'car', 'ez', 'BayesFactor', 'ggplot2',
  'ggpubr'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'nloptr', 'RSpectra', 'Rfast', 'doFuture', 'future', 'doRNG',
  'RcppEigen'

Package suggested but not available for checking: ‘rmarkdown’

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

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: ‘roxygen2’
Packages required but not available:
  'DescTools', 'WRS2', 'ggplot2', 'dplyr', 'fungible', 'rockchalk',
  'MBESS', 'tidyr', 'e1071'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'testthat', 'rmarkdown'
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘rmarkdown’
Package required but not available: ‘ergm’

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

Package suggested but not available for checking: ‘rmarkdown’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'runjags', 'rjags'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'lubridate', 'neonUtilities', 'rhdf5', 'caret', 'ggplot2'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'testthat', 'neonUtilities'
Running ‘testthat.R’ [0s/0s]
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:
  'neonUtilities', 'ggplot2', 'dtplyr', 'dplyr', 'sf', 'stringr',
  'tidyr', 'ggpubr'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'duckdb', 'thor', 'vroom', 'duckdbfs', 'memoise', 'cachem'

Packages suggested but not available for checking:
  'testthat', 'covr', 'xml2', 'spelling', 'neonUtilities', 'rhdf5',
  'digest', 'arrow', 'dplyr', 'storr'

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

Packages suggested but not available for checking:
  'rhdf5', 'terra', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'sf', 'geojsonsf', 'lubridate', 'dplyr', 'leaflet', 'mapview',
  'stringr', 'wk', 'tidyr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'igraph', 'PairedData'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'reticulate', 'ggplot2', 'plotly', 'htmlwidgets'

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

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', 'testthat'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'caret', 'ggplot2', 'glmnet', 'pROC', 'Rfast'

Packages suggested but not available for checking:
  'Boruta', 'CORElearn', 'fastshap', 'gbm', 'ggbeeswarm', 'ggpubr',
  'hsstan', 'ranger', 'RcppEigen', 'rmarkdown', 'SuperLearner'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'broom', 'car', 'dplyr', 'effects', 'stringr'

Packages suggested but not available for checking:
  'geomtextpath', 'ggplot2', 'lobstr', 'rmarkdown', 'scales',
  'spelling', 'testthat', 'tidyr'

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'fontawesome', 'htmltools', 'htmlwidgets', 'jquerylib', 'shiny'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'parsnip', 'recipes', 'rsample', 'stringr',
  'tidyr'

Packages suggested but not available for checking:
  'broom', 'covr', 'ggrepel', 'glmnet', 'patchwork', 'rmarkdown',
  'roxygen2', 'testthat', 'tune', 'vdiffr', 'workflows'

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.
Package required but not available: ‘pROC’

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', 'Rcpp'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/1s]
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:
  'BiocStyle', 'ggplot2', 'igraph', 'rmarkdown', 'roxygen2', 'testthat'
Running examples in ‘net4pg-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: plot_cc
> ### Title: Plot peptide-to-protein mapping graph
> ### Aliases: plot_cc
> 
> ### ** Examples
> 
> library(igraph)
Error in library(igraph) : there is no package called ‘igraph’
Execution halted
Packages required but not available: 'igraph', 'infotheo', 'huge'

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

Packages suggested but not available for checking:
  '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: 'Rcpp', 'RcppArmadillo'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'rD3plot', 'igraph', 'haven'

Packages suggested but not available for checking:
  'rmarkdown', 'shiny', 'htmltools', 'openxlsx', 'readr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'igraph', 'optimx', 'GenSA', 'ggfortify', 'ggplot2',
  'ggraph', 'reshape2'

Packages suggested but not available for checking: 'rmarkdown', '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.
Packages required but not available:
  'dplyr', 'igraph', 'pcalg', 'tidygraph'

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

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

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: ‘rmarkdown’
Packages required but not available:
  'Rcpp', 'networkDynamic', 'MatchIt', 'igraph', 'RcppArmadillo'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'arrangements', 'dplyr', 'igraph', 'ggplot2', 'ggraph', 'patchwork',
  'picante', 'Rfast', 'tidygraph', 'tidyr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'lhs', 'ggplot2', 'igraph', '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:
  'AnnotationDbi', 'dplyr', 'genefilter', 'graphite', 'glmnet',
  'igraph', 'msigdbr', 'org.Hs.eg.db', 'RCy3', 'reshape2', 'Rcpp',
  'RcppEigen'

Package suggested but not available for checking: ‘rmarkdown’

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

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'quickPlot', 'terra'

Packages suggested but not available for checking:
  'covr', 'fastshp', 'raster', 'rmarkdown', 'sf', 'SpaDES.core',
  'SpaDES.tools', 'testthat'

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'btergm', 'ergm', 'RSiena', 'ergMargins', 'plyr', 'lme4', 'plm',
  'intergraph'

Packages suggested but not available for checking: 'igraph', 'statnet'

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

Packages suggested but not available for checking:
  'rgl', 'igraph', 'cccp', '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:
  'devtools', 'dplyr', 'readr', 'seqinr', 'stringr'

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

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

Packages suggested but not available for checking:
  'ergm', 'ggplot2', 'scales'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'igraph', 'Hmisc', 'plyr', 'dplyr'

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

Packages suggested but not available for checking:
  'rmarkdown', 'intergraph', 'ggraph', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'igraph', 'Rcpp', 'RcppArmadillo'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘knitcitations’
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'Rcpp', 'RcppArmadillo'

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

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'igraph', 'wTO', 'dplyr', 'Rfast', 'cubature'

Package suggested but not available for checking: ‘CoDiNA’

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'DiagrammeR', 'DiagrammeRsvg', 'htmlwidgets', 'svglite'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'shinyBS', 'shiny', 'shinydashboard', 'colourpicker', 'DT', 'future',
  'future.callr', 'ggplot2', 'ggVennDiagram', 'igraph', 'ipc',
  'netgwas', 'plotly', 'promises', 'readxl', 'shinycssloaders',
  'shinyjs', 'shinyscreenshot', 'shinyWidgets', 'visNetwork'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'rmarkdown', 'shiny', 'shinybusy', 'future.apply', 'scales',
  'future', 'RSQLite', 'plotly', 'shinyjs', 'shinyWidgets'

Packages suggested but not available for checking: 'crch', '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.
Package required but not available: ‘igraph’

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', 'rmarkdown', 'igraph', 'ggplot2', 'dplyr', 'tidyr',
  'mixtools', 'EnvStats', 'RSpectra'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'tidyr', 'usethis', 'xml2', 'rvest'

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

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
checkRd: (-1) rc.plot.ideogram.Rd:20: Lost braces; missing escapes or markup?
    20 |  \item{las}{numeric in {0,1,2,3}; the style of chromosome labels. 0, always parallel to the track [default]; 1, always horizontal; 2, always perpendicular to the track; 3, always vertical.}
       |                        ^
Packages suggested but not available for checking: 'ggplot2', 'rmarkdown'
Packages required but not available:
  'MCMCpack', 'ggplot2', 'Rmpfr', 'tidyr', 'igraph', 'qgraph',
  'reshape', 'ggrepel', 'GGally', 'ggvis'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'reshape2', 'qgraph', 'networktools', 'IsingFit'

Packages suggested but not available for checking:
  'bootnet', 'IsingSampler', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'qgraph', 'igraph', 'reshape2', 'networktools'

Package suggested but not available for checking: ‘testthat’

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

Package suggested but not available for checking: ‘htmltools’

Package which this enhances but not available for checking: ‘shiny’

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

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘networkDynamic’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘networkLite’

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'broom', 'dplyr', 'ggplot2', 'igraph', 'scales', 'tidyr', 'patchwork'

Packages suggested but not available for checking:
  'rmarkdown', 'pkgdown', 'testthat', '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: 'Rcpp', 'ggplot2', 'ggrepel'

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

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

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: 'testthat', 'covr'
Running ‘general.tests.R’ [0s/1s]
  Running ‘general.tests2.R’ [0s/0s]
  Running ‘list.attribute.tests.R’ [0s/0s]
  Running ‘network.access.test.R’ [0s/0s]
  Running ‘network.battery.R’ [0s/1s]
  Running ‘pathological.tests.R’ [0s/0s]
  Running ‘plotflo.R’ [0s/0s]
  Running ‘speedTests.R’ [0s/0s]
  Running ‘testthat.R’ [0s/0s]
  Running ‘vignette.R’ [2s/2s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available: 'ggplot2', 'dplyr'

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

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.
Packages required but not available:
  'Rcpp', 'RcppParallel', 'rstan', 'rstantools', 'RcppEigen',
  'StanHeaders'

Package suggested but not available for checking: ‘rmarkdown’

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

Package suggested but not available for checking: ‘googledrive’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'qgraph', 'igraph', 'reshape2', 'ggplot2', 'smacof', 'wordcloud'

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

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'tensorflow', 'keras', 'ggplot2', 'reticulate'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/0s]
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', 'reshape2', 'scales', 'tidyr'

Packages suggested but not available for checking:
  'caret', 'RSNNS', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'NeuralNetTools', 'reshape2', 'caret', 'fastDummies',
  'stringr', 'Hmisc', 'ggforce', 'scales', 'ggnewscale', 'ggrepel',
  'ggbreak', 'dplyr'

Packages suggested but not available for checking:
  'RSNNS', 'plotly', 'e1071'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'oro.nifti', 'RNifti'

Packages suggested but not available for checking:
  'testthat', 'ggplot2', 'rmarkdown', 'dplyr', 'reshape2', 'covr',
  'brainR'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘devtools’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'e1071', 'ggplot2', 'scales', 'stringr', 'tidyr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'digest', 'xml2', 'aws.s3'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'stringr', 'yaImpute', 'Rcpp', 'readr', 'rgl'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'BayesLogit', 'ggplot2', 'dplyr', 'tidyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'oro.nifti', 'fslr'

Packages suggested but not available for checking:
  'rmarkdown', 'ANTsR', 'ITKR', 'extrantsr', 'MNITemplate', 'RAVEL',
  'neurodata'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'scales', 'ggpmisc', 'cowplot'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'igraph', 'Rcpp', 'tidyr', 'dplyr', 'ggplot2', 'flipr', 'umap',
  'furrr', 'rgeomstats', 'RcppArmadillo'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Skipping checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking:
  'rmarkdown', 'roxygen2', 'testthat'
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
  > # * https://testthat.r-lib.org/articles/special-files.html
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘ctgt’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
checkRd: (-1) 03-MixOf3Beta-class.Rd:35: Lost braces; missing escapes or markup?
    35 |       parameters \code{L} and {M} (in that order).}
       |                               ^
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'devtools', 'tidyr', 'xml2', 'lubridate'

Packages suggested but not available for checking:
  'dplyr', 'rmarkdown', 'robotstxt', 'rvest', 'stringr', 'testthat',
  'mockery', 'tidytext', 'textdata'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘tidyRSS’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'quanteda', 'quanteda.textstats', 'stringi'

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:
  'lintr', 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/1s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available: 'shiny', 'htmltools'

Packages suggested but not available for checking:
  'rmarkdown', 'r2dictionary', 'r2resize', 'r2social'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'igraph', 'rmarkdown', 'svglite', 'tinysnapshot'
Running examples in ‘nexus-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: as_graph
> ### Title: Graph of Log-ratios
> ### Aliases: as_graph as_graph-method as_graph,LR-method
> ###   as_graph,ALR-method as_graph,ILR-method
> 
> ### ** Examples
> 
> library(igraph)
Error in library(igraph) : there is no package called ‘igraph’
Execution halted
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘testthat’
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘rgenoud’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
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', 'janitor', 'nflfastR', 'nflreadr', 'stringr', 'tidyr',
  'xgboost'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'fastrmodels', 'furrr', 'future', 'janitor', 'nflreadr',
  'progressr', 'stringr', 'tidyr', 'xgboost'

Packages suggested but not available for checking:
  'DT', 'gsisdecoder', 'nflseedR', 'qs', 'rmarkdown', 'RSQLite',
  'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'cachem', 'ggpath', 'ggplot2', 'magick', 'memoise', 'nflreadr',
  'scales'

Packages suggested but not available for checking:
  'covr', 'dplyr', 'ggtext', 'gridtext', 'gt', 'rmarkdown', 'sjmisc',
  'testthat', 'vdiffr', 'webshot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'cachem', 'memoise'

Packages suggested but not available for checking:
  'arrow', 'covr', 'DT', 'fs', 'piggyback', 'progressr', 'qs',
  'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'furrr', 'future', 'nflreadr', 'progressr', 'tidyr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘nflfastR’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'nfl4th', 'nflfastR', 'nflplotR', 'nflreadr', 'nflseedR'

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 suggested but not available for checking: ‘lamW’
'LazyData' is specified without a 'data' directory
Packages required but not available: 'reticulate', 'dplyr', 'forecast'

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

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.
Packages required but not available: 'digest', 'htmltools'

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

Packages which this enhances but not available for checking:
  'NGCHMDemoData', 'NGCHMSupportFiles'

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

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'tidyr', 'rjson', 'stringr', 'ggplot2', 'scales', 'xml2'

Package suggested but not available for checking: ‘testthat’

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

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

Packages suggested but not available for checking:
  'odbc', 'rmarkdown', 'survey', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘mosaic’
checkRd: (-1) NHANES.Rd:278: Lost braces
   278 | \code{AgeFirstMarij}{Age participant first tried marijuana. Reported for participants aged 18 to 59 years.}
       |                     ^
Packages required but not available:
  'hydroloom', 'dataRetrieval', 'dplyr', 'sf', 'units', 'xml2',
  'tidyr', 'maptiles', 'mapsf', 'fst', 'arrow'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'ggmap', 'ggplot2', 'lwgeom', 'leaflet',
  'httptest', 'future'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'sf', 'rvest', 'xml2', 'ggplot2', 'dplyr', 'units', 'stringr',
  'memoise', 'digest'

Packages suggested but not available for checking:
  'rmarkdown', 'wikilake', 'testthat', 'covr', 'crul', 'lwgeom', 's2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'testthat', 'roxygen2', 'rmarkdown'
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/0s]
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: ‘maxLik’

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.
checkRd: (-1) init.theta.MSAR.Rd:56: Lost braces
    56 | with \eqn{Z} the covariate and eqn{d_Z} its dimension (number of covariates)
       |                                   ^
checkRd: (-1) test.model.MSAR.Rd:47: Lost braces
    47 | 	Marginal distribution: {\deqn{ S = \int_{-\infty}^{\infty} \left| F_n(x)-F(x) \right| dx} } 
       |                                ^
checkRd: (-1) test.model.MSAR.Rd:49: Lost braces
    49 | 	Marginal distribution, based on Anderson Darling statistic: {\deqn{ S = \int_{-\infty}^{\infty} \left| \frac{F_n(x)-F(x)}{F(x)(1-F(x))} \right| dx} } 
       |                                                                     ^
checkRd: (-1) test.model.MSAR.Rd:51: Lost braces
    51 | 		Correlation function: {\deqn{ S = \int_0^L\left|C_n(l)-C(l)\right|dl} } 
       |                                       ^
Invalid package aliases in Rd file 'NH-MSAR-package.Rd':
  ‘NH-MSAR-package’
Argument items with no description in Rd file 'ENu_graph.Rd':
  ‘N.s.data’
Argument items with no description in Rd file 'Estep.MSAR.VM.Rd':
  ‘verbose’
Auto-generated content requiring editing in Rd file 'NH-MSAR-package.Rd':
  \details: ‘...the package, including the most important ~~ ~~ functions ~~’
Argument items with no description in Rd file 'init.theta.MSAR.Rd':
  ‘\dots’
Argument items with no description in Rd file 'init.theta.MSAR.VM.Rd':
  ‘\dots’
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘car’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'xml2', 'dplyr', 'rvest', 'stringr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/1s]
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:
  'dplyr', 'caret', 'e1071', 'readr', 'rsample', 'ggplot2', 'lme4',
  'ModelMetrics', 'rmarkdown', 'scales', 'ggrepel', 'lubridate',
  'tidyr', 'janitor', 'stringi', 'synthpop'
Running examples in ‘NHSRdatasets-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: ae_attendances
> ### Title: NHS England Accident & Emergency Attendances and Admissions
> ### Aliases: ae_attendances
> ### Keywords: a&e datasets hospital
> 
> ### ** Examples
> 
> data(ae_attendances)
> library(dplyr)
Error in library(dplyr) : there is no package called ‘dplyr’
Execution halted
Packages required but not available: 'ggplot2', 'scales', 'dplyr'

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

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

Package suggested but not available for checking: ‘rmarkdown’

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:
  'ape', 'dismo', 'e1071', 'pROC', 'raster', 'spider'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'ape', 'castor', 'geiger', 'stringr', 'terra'

Package suggested but not available for checking: ‘phytools’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'rmarkdown', 'ggplot2', 'tidyr'
Packages suggested but not available for checking: 'testthat', 'covr'
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'dplyr', 'ggplot2', 'scales', 'shiny', 'shinyjs', 'shinythemes',
  'thematic', 'tidyr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'plotly', 'tidyr', 'bipartite', 'dplyr', 'ggplot2', 'igraph',
  'skimr', 'bnstruct', 'fpc', 'mice', 'missMDA', 'networkD3', 'scales',
  'tidytext', 'visNetwork'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'ggthemes', 'scales', 'dplyr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘nimble’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'nimble', 'rcarbon'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘nimble’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘nimble’

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘nimble’

Package suggested but not available for checking: ‘rmarkdown’

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: ‘nimble’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘nimble’

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: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
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: ‘bbw’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘sf’

Packages which this enhances but not available for checking:
  'kokudosuuchi', 'estatapi', 'jpndistrict', 'jpmesh'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘Rsamtools’

Package suggested but not available for checking: ‘pander’

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.
Malformed Description field: should contain one or more complete sentences.
Package required but not available: ‘car’

Packages suggested but not available for checking:
  'rmarkdown', 'plyr', 'reshape2', 'ggplot2', 'scales', 'rsq'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘bpcp’

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: 'sf', 'dplyr'

Package suggested but not available for checking: ‘rmarkdown’

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

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

Package suggested but not available for checking: ‘rmarkdown’

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'a4Core', 'MLInterfaces', 'ROCR', 'ipred', 'e1071', 'kernlab'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'ggplot2', 'Rfast', 'Rfast2'

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 suggested but not available for checking: 'covr', 'testthat'
Running ‘testthat.R’ [0s/0s]
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', 'sqldf', 'ggplot2', 'saemix', 'Rmisc', 'sitar'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘Hmisc’
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking:
  'reshape', 'roxygen2', 'testthat'
Running ‘Pwr1.R’ [0s/0s]
  Running ‘Pwr2.R’ [1s/1s]
  Running ‘logLik1.R’ [1s/1s]
  Running ‘missPat.R’ [0s/1s]
  Running ‘roxygen.R’ [0s/0s]
  Running ‘runScript.R’ [0s/1s]
  Running ‘simY.R’ [2s/2s]
Running the tests in ‘tests/Pwr1.R’ failed.
Complete output:
  > date()
  [1] "Mon Feb  5 13:42:28 2024"
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Running the tests in ‘tests/missPat.R’ failed.
Complete output:
  > library(nlmeU)
  
  Attaching package: 'nlmeU'
  
  The following object is masked from 'package:stats':
  
      sigma
  
  > dtf <- subset(armd.wide, select = c(visual12, visual24, visual52))
  > res <-  missPat(dtf, symbols = c("?","+"))
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Running the tests in ‘tests/roxygen.R’ failed.
Complete output:
  > library(roxygen2)
  Error in library(roxygen2) : there is no package called 'roxygen2'
  Execution halted
Packages required but not available:
  'Hmisc', 'optimx', 'ggplot2', 'Rcpp', 'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'lbfgsb3c', 'minqa', 'n1qn1', 'Rcpp', 'rxode2', 'symengine',
  'RcppArmadillo', 'rxode2parse', 'rxode2random'

Packages suggested but not available for checking:
  'broom.mixed', 'devtools', 'digest', 'dplyr', 'nloptr', 'qs',
  'testthat', 'xgxr', 'rxode2parse', 'rxode2random'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'digest', 'ggplot2', 'ggtext', 'nlmixr2est', 'Rcpp', 'rxode2',
  'symengine', 'RcppArmadillo'

Packages suggested but not available for checking:
  'brms', 'testthat', 'dplyr', 'devtools', 'rxode2parse'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'nlmixr2est', 'rxode2'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'nlmixr2est', 'nlmixr2extra', 'rxode2', 'vpc', 'xgxr'

Packages suggested but not available for checking:
  'testthat', 'dplyr', 'rxode2parse'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'nlmixr2est', 'nlmixr2extra', 'rxode2', 'nlmixr2plot'

Packages suggested but not available for checking:
  'rmarkdown', 'devtools', 'ggplot2', 'testthat', 'n1qn1',
  'rxode2parse'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'flextable', 'ggforce', 'ggpubr', 'ggplot2', 'stringr',
  'nlmixr2', 'nlmixr2extra', 'onbrand', 'rxode2', 'xpose',
  'xpose.nlmixr2'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'optimx', 'Rvmmin', 'Rcgmin'
Error(s) in re-building vignettes:
  ...
--- re-building ‘nlmrt-vignette.Rnw’ using Sweave
Loading required package: nlmrt
Error in nlsModel(formula, mf, start, wts, scaleOffset = scOff, nDcentral = nDcntr) : 
  singular gradient matrix at initial parameter estimates
Error in nls(regmod, start = huetstart, trace = FALSE, data = pastured) : 
  singular gradient
Loading required package: optimx
Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE,  :
  there is no package called ‘optimx’

Error: processing vignette 'nlmrt-vignette.Rnw' failed with diagnostics:
 chunk 10 (label = chunk10) 
Error in optimx(st, shobbs.f, shobbs.g, control = list(all.methods = TRUE)) : 
  could not find function "optimx"

--- failed re-building ‘nlmrt-vignette.Rnw’

SUMMARY: processing the following file failed:
  ‘nlmrt-vignette.Rnw’

Error: Vignette re-building failed.
Execution halted
Packages required but not available: 'ROCR', 'igraph', 'e1071'

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.
Package required but not available: ‘testthat’

Packages suggested but not available for checking:
  'rmarkdown', 'xml2', 'testthat', 'covr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages which this enhances but not available for checking:
  'udpipe', 'spacyr', 'cleanNLP'
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'SuperLearner', 'cvAUC', 'ROCR', 'bde', 'np'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'prettydoc', 'ranger', 'xgboost', 'glmnet'

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'OpenMx', 'ggplot2', 'dplyr', 'tidyr', 'stringr', 'readr'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘qdap’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'car', 'ggplot2', 'rmarkdown'
Skipping checking math rendering: package 'V8' unavailable
checkRd: (-1) Dmean.Rd:62: Escaped LaTeX specials: \&
checkRd: (-1) Dvar.Rd:63: Escaped LaTeX specials: \&
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'rms', 'Hmisc'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'lhs', 'sensitivity', 'dplyr', 'readr', 'furrr', 'GenSA', 'raster',
  'sf', 'tidyr', 'igraph', 'stringr', 'progressr', 'EasyABC'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘lhs’
checkRd: (-1) anova.Rd:19: Lost braces
    19 |   Returns an object of class code{anova}.  These objects represent
       |                                  ^
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘nloptr’

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘digest’

Packages suggested but not available for checking:
  'optimx', 'rmarkdown', 'Ryacas', 'ggplot2'

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.
Packages suggested but not available for checking: 'rmarkdown', 'rticles'
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking:
  'covr', 'devtools', 'dplyr', 'spelling', 'ggplot2', 'rmarkdown',
  'scales', 'testthat'
Running ‘spelling.R’ [0s/0s]
  Comparing ‘spelling.Rout’ to ‘spelling.Rout.save’ ...3,8c3,6
< > if (requireNamespace("spelling", quietly = TRUE)) {
< +   spelling::spell_check_test(
< +     vignettes = TRUE, error = FALSE,
< +     skip_on_cran = TRUE
< +   )
< + }
---
> > if(requireNamespace('spelling', quietly = TRUE))
> +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
> +                              skip_on_cran = TRUE)
> All Done!
  Running ‘testthat.R’ [0s/1s]
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 checking math rendering: package 'V8' unavailable
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/nltm.Rcheck/00install.out’ for details.
checkRd: (-1) fwtnpperm.Rd:34: Lost braces
    34 | Given \eqn{n} points on a line, \env{input}, each with a corresponding env{f} value this algorithm computes a lifting transform of the (\env{input},\env{f}) data. If lengths are inputted (\env{inputtype="lengths"}), then the gridpoints are taken to be the left endpoints of the intervals defined by the lengths inputted. 
       |                                                                           ^
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘ape’

Packages suggested but not available for checking:
  'TreeSim', 'DDD', 'ggplot2', 'Hmisc', 'lintr', 'plyr', 'reshape2',
  'rmarkdown', 'TESS', 'testthat', 'DAISIE'

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

Packages suggested but not available for checking: 'netmeta', 'V8'

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

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: 'INLA', 'testthat'
Running ‘testthat.R’ [0s/0s]
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:
  'netmeta', 'meta', 'reshape2', 'ggplot2'

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', 'svglite'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'meta', 'netmeta', 'dplyr', 'data.tree', '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', 'stringr'

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

Package suggested but not available for checking: ‘rmarkdown’

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'rngtools', 'stringr', 'digest', 'ggplot2', 'reshape2'

Packages suggested but not available for checking:
  'bigmemory', 'synchronicity', 'devtools', 'mail'

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

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'lava', 'nloptr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'Rglpk', 'openxlsx', 'readxl'
Running examples in ‘NMOF-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: minMAD
> ### Title: Compute Minimum Mean-Absolute-Deviation Portfolios
> ### Aliases: minMAD
> 
> ### ** Examples
> 
> na <- 10
> ns <- 1000
> R <- randomReturns(na = na, ns = ns,
+                    sd = 0.01, rho = 0.8, mean = 0.0005)
> 
> minMAD(R = R)
Error in loadNamespace(x) : there is no package called ‘Rglpk’
Calls: minMAD ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
Error(s) in re-building vignettes:
  ...
--- re-building ‘An_overview.Rnw’ using Sweave
found several files...
--- finished re-building ‘An_overview.Rnw’

--- re-building ‘DEnss.Rnw’ using Sweave
Loading required package: NMOF
--- finished re-building ‘DEnss.Rnw’

--- re-building ‘LSqueens.Rnw’ using Sweave
--- finished re-building ‘LSqueens.Rnw’

--- re-building ‘LSselect.Rnw’ using Sweave
Loading required package: NMOF
--- finished re-building ‘LSselect.Rnw’

--- re-building ‘PSlms.Rnw’ using Sweave
--- finished re-building ‘PSlms.Rnw’

--- re-building ‘TAportfolio.Rnw’ using Sweave
Loading required package: NMOF
Error in solve.QP(Dmat = covMatrix, dvec = rep(0, na), Amat = t(rbind(A,  : 
  matrix D in quadratic function is not positive definite!
--- finished re-building ‘TAportfolio.Rnw’

--- re-building ‘portfolio.Rnw’ using Sweave
Loading required namespace: Rglpk
Failed with error:  'there is no package called 'Rglpk''
Package 'Rglpk' not available

Error: processing vignette 'portfolio.Rnw' failed with diagnostics:
 chunk 15 (label = minMAD) 
Error in loadNamespace(x) : there is no package called 'Rglpk'

--- failed re-building 'portfolio.Rnw'

--- re-building ‘qTableEx.Rnw’ using Sweave
Loading required package: NMOF
--- finished re-building ‘qTableEx.Rnw’

--- re-building ‘repair.Rnw’ using Sweave
--- finished re-building ‘repair.Rnw’

--- re-building ‘vectorise.Rnw’ using Sweave
Loading required package: NMOF
--- finished re-building ‘vectorise.Rnw’

SUMMARY: processing the following file failed:
  ‘portfolio.Rnw’

Error: Vignette re-building failed.
Execution halted
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking: 'rmarkdown', 'ggpubr'
Packages required but not available: 'DescTools', 'ggplot2', 'tidyr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'NMdata', 'fst'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'dplyr', 'ggplot2', 'patchwork', 'tracee',
  'tidyr', 'tidyvpc'

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

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

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

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:
  'keras', 'tensorflow', 'reticulate', 'luz', 'torch', 'cowplot',
  'ggplot2', 'patchwork', 'testthat', 'vdiffr', 'rmarkdown'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'furrr', 'tidyr', 'igraph', 'ggplot2'

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

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

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', 'glmnet', 'tsutils'

Package suggested but not available for checking: ‘thief’

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'sf', 'nabor', 'units'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
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.
Skipping checking math rendering: package 'V8' unavailable
'LazyData' is specified without a 'data' directory
Package required but not available: ‘pcds’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'caret', 'meboot', 'Rcpp', 'RcppParallel', 'Rfast', 'rgl', 'stringr'

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

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

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

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available: 'rvest', 'xml2'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'choroplethr', 'dplyr', 'ggplot2', 'hurricaneexposure', 'lubridate',
  'plyr', 'stringr', 'tidyr', 'viridis'

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

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

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', 'rjags'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘paws’

Packages suggested but not available for checking:
  'arrow', 'dplyr', 'dbplyr', 'testthat', 'vroom', 'covr', 'rmarkdown',
  'jsonify'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'stringi', 'V8'

Packages suggested but not available for checking:
  'sofa', 'elastic', 'RSQLite', 'duckdb', 'RPostgres', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'igraph', 'word2vec', 'dplyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'ape', 'phangorn', 'DDD', 'Rmpfr', 'phylobase', 'geiger',
  'beautier', 'beastier', 'tracerer', 'stringr'

Packages suggested but not available for checking:
  'testthat', 'TreeSim', 'dplyr', 'rmarkdown', 'ggplot2', 'tidyr',
  'nLTT', 'RPANDA'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'picante', 'raster', 'ape'

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: 'testthat', 'dplyr'
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
checkRd: (-1) simulatePop.Rd:40: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulatePop.Rd:41: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulatePop.Rd:42: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulatePop.Rd:43: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulatePop.Rd:44: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulatePop.Rd:45: Lost braces in \itemize; meant \describe ?
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'caret', 'e1071', 'FNN', 'classInt', 'ggplot2', 'ExtDist', 'stringr',
  'RSNNS', 'C50'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Auto-generated content requiring editing in Rd file 'noise-package.Rd':
  \details: ‘...the package, including the most important ~~ ~~ functions ~~’
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘testthat’
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available:
  'dplyr', 'ggplot2', 'Rsamtools', 'philentropy'

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

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

Package suggested but not available for checking: ‘rmarkdown’

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.
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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.
Packages required but not available: 'dplyr', 'sf'

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

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

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'tidyr', 'ggplot2', 'scales', 'readr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'htmlwidgets', 'webshot2'

Packages suggested but not available for checking:
  'V8', 'rmarkdown', 'testthat', 'shinytest', 'covr', 'spelling'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘rms’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Documented arguments not in \usage in Rd file 'get_max_stat.Rd':
  ‘statfunc’

Functions with \usage entries need to have the appropriate \alias
entries, and all their arguments documented.
The \usage entries must correspond to syntactically valid R code.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
Skipping checking math rendering: package 'V8' unavailable
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.
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See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'caret', 'dplyr', 'ggplot2', 'glmnet', 'tidyverse', 'e1071', 'pROC'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'CondIndTests', 'data.tree', 'caTools'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rfast', 'rdrobust', 'rddensity', 'lpdensity', 'lpcde', 'copula'

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

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', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'latticeExtra', 'splines2', 'reshape2'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'digest', 'dparser', 'Rcpp', 'rxode2', 'qs', 'xml2', 'ggplot2',
  'ggforce', 'rxode2parse'

Packages suggested but not available for checking:
  'devtools', 'testthat', 'nonmemica', 'NMdata', 'nonmem2R', 'dplyr',
  'xgxr', 'vdiffr', 'rmarkdown', 'spelling'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'tidyr', 'xml2', 'csv', 'spec', 'metaplot'

Packages suggested but not available for checking:
  'pander', 'wrangle', 'rmarkdown'

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: ‘CompQuadForm’

Packages suggested but not available for checking:
  'mirt', 'OpenMx', 'tidySEM', 'AER', 'faraway', 'mlogit', 'rmarkdown',
  'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘cubature’

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'caret', 'e1071', 'glmnet'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/nopaco.Rcheck/00install.out’ for details.
Package required but not available: ‘MCMCglmm’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘mlogit’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘copula’
Skipping checking math rendering: package 'V8' unavailable
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:
  'dplyr', 'DT', 'ggplot2', 'rio', 'shiny', 'shinyalert', 'shinyBS',
  'stringi', 'stringr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘HadamardR’
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Skipping checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘shiny’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) mle_parameters.Rd:36: Lost braces in \itemize; meant \describe ?
checkRd: (-1) mle_parameters.Rd:37: Lost braces in \itemize; meant \describe ?
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'LazyData' is specified without a 'data' directory
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'car', 'doBy', 'dplyr', 'openxlsx'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'tidyr', 'dplyr', 'emojifont', 'rio', 'ggplot2', 'ggthemes',
  'badger', 'stringr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/nortestARMA.Rcheck/00install.out’ for details.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'forecast', 'ggplot2', 'cowplot'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Auto-generated content requiring editing in Rd file 'nose-package.Rd':
  \details: ‘...the package, including the most important ~~ ~~ functions ~~’
Package required but not available: ‘raster’

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'igraph', 'tidyverse', 'ggplot2',
  'ggnetwork', 'intergraph', 'viridis', 'gganimate', 'ape', 'tidytree',
  'treeio', 'ggtree', 'dplyr', 'covr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Package required but not available: ‘dplyr’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking: 'brms', 'testthat'
Running ‘testthat.R’ [0s/0s]
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: 'readxl', 'ggplot2', 'ggpattern'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘NoviceDeveloperResources’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘devtools’

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'Rcpp', 'reshape2', 'ggplot2', 'dplyr', 'bayesplot'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'npboottprm', 'restriktor'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'DT', 'ggplot2', 'MKinfer', 'shiny', 'shinythemes'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Benchmarking', 'np', 'Rglpk'

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

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.
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘copula’
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'smotefamily', 'caret', 'dplyr', 'ggplot2', 'tidyr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘DescTools’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'scales', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/1s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available:
  'Rcpp', 'fastcluster', 'ggplot2', 'pheatmap', 'reshape2', 'GGally',
  'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) DiscHazRateAuxFunctions.Rd:46: Lost braces in \itemize; meant \describe ?
checkRd: (-1) DiscHazRateAuxFunctions.Rd:47: Lost braces in \itemize; meant \describe ?
checkRd: (-1) DiscHazRateAuxFunctions.Rd:48: Lost braces in \itemize; meant \describe ?
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Package suggested but not available for checking: ‘rmarkdown’
checkRd: (-1) n2pwr.NPH.Rd:59-61: Lost braces
    59 | Default: function(x) {
       |                      ^
checkRd: (-1) pwr2n.NPH.Rd:60-62: Lost braces
    60 | Default: function(x) {
       |                      ^
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘ggplot2’

Packages suggested but not available for checking:
  'shiny', 'shinycssloaders', 'styler', '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', 'testthat', 'dplyr', 'cowplot', 'survminer'

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

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

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

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) nplr.Rd:48-51: Lost braces in \itemize; meant \describe ?
checkRd: (-1) nplr.Rd:52-55: Lost braces in \itemize; meant \describe ?
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checkRd: (-1) nplr.Rd:81: Lost braces in \itemize; meant \describe ?
checkRd: (-1) nplr.Rd:82: Lost braces in \itemize; meant \describe ?
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'dplyr', 'tidyr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘testthat’
Skipping checking math rendering: package 'V8' unavailable
checkRd: (-1) nppbib.Rd:28: Escaped LaTeX specials: \#
Packages required but not available: 'terra', 'ks', 'lubridate'

Packages suggested but not available for checking: 'leaflet', 'sf'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘cubature’

Package suggested but not available for checking: ‘ks’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'SPEI', 'WASP', 'ggplot2', 'testthat', 'bookdown', 'rmarkdown'
Running ‘testthat.R’ [0s/1s]
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 checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'shiny', 'shinyjs', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘SuppDists’
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'Rcpp', 'ggplot2', 'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'glmnet', 'e1071', 'ROCR'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/1s]
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 checking math rendering: package 'V8' unavailable
Package required but not available: ‘Rcpp’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘plyr’

Packages suggested but not available for checking:
  'devtools', 'profileR', 'car', 'dplyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'infotheo', 'gmp'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking:
  'rmarkdown', 'tidyverse', 'ggplot2'
'LazyData' is specified without a 'data' directory
Skipping checking math rendering: package 'V8' unavailable
checkRd: (-1) np.reg.test.Rd:148: Lost braces
   148 | ter Braak, C. J. F. (1992). Permutation versus bootstrap significance tests in multiple regression and ANOVA. In K. H. J\"{o}ckel, G. Rothe, & W. Sendler (Eds.), Bootstrapping and related techniques. lecture notes in economics and mathematical systems, vol 376 (pp. 79-86). Springer.
       |                                                                                                                           ^
checkRd: (-1) nptest-package.Rd:73: Lost braces
    73 | ter Braak, C. J. F. (1992). Permutation versus bootstrap significance tests in multiple regression and ANOVA. In K. H. J\"{o}ckel, G. Rothe, & W. Sendler (Eds.), Bootstrapping and related techniques. lecture notes in economics and mathematical systems, vol 376 (pp. 79-86). Springer.
       |                                                                                                                           ^
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'Rcpp', 'readr', 'RcppArmadillo'

Packages suggested but not available for checking:
  'devtools', 'dplyr', 'rmarkdown', 'spelling', 'testthat', 'tidyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'broom', 'dplyr', 'srvyr', 'survey', 'svrep', 'tidyr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘covr’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘StepwiseTest’

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
checkRd: (-1) NSAE.Rd:14: Lost braces; missing escapes or markup?
    14 | {Maintainer}: Saurav Guha \email{saurav.iasri@gmail.com}
       | ^
'LazyData' is specified without a 'data' directory
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking:
  'CCA', 'glmnet', 'roxygen2', 'testthat', 'V8'
Skipping checking math rendering: package 'V8' unavailable
checkRd: (-1) NScluster-package.Rd:30-34: Lost braces in \itemize; meant \describe ?
checkRd: (-1) NScluster-package.Rd:35-43: Lost braces in \itemize; meant \describe ?
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checkRd: (-1) NScluster-package.Rd:49-53: Lost braces in \itemize; meant \describe ?
checkRd: (-1) mple.cppm.Rd:44-66: Lost braces in \itemize; meant \describe ?
checkRd: (-1) mple.cppm.Rd:69-110: Lost braces in \itemize; meant \describe ?
checkRd: (-1) mple.cppm.Rd:113-155: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sim.cppm.Rd:36-87: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sim.cppm.Rd:90-120: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sim.cppm.Rd:123-148: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sim.cppm.Rd:151-192: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sim.cppm.Rd:195-211: Lost braces in \itemize; meant \describe ?
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'Rcpp', 'mcmcse', 'np'

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', 'rvest', 'stringr', 'dplyr', 'lubridate', 'reticulate',
  'xml2'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'reshape2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'testthat', 'roxygen2', 'plyr', 'stringr', 'covr'
Running ‘testthat.R’ [0s/0s]
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: 'mlr', 'rPref', 'xgboost'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘NSM3’
Packages required but not available:
  'partitions', 'BSDA', 'Hmisc', 'np', 'SuppDists'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking: 'testthat', 'roxygen2'
Skipping checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘sde’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ape', 'bigmemory', 'iCAMP', 'DirichletReg'

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

Packages suggested but not available for checking:
  'dplyr', 'ggplot2', 'nngeo', 'readr', 'stringr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'testthat', 'spelling'
Running ‘spelling.R’ [0s/1s]
  Running ‘testthat.R’ [0s/0s]
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', 'lubridate', 'readxl', 'rvest', 'tidyr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘testthat’
checkRd: (-1) MSM.fit.Rd:21: Lost braces
    21 | \code{MSM.fit} returns an object of class code{MSM.lm} or \code{MSM.glm}, depending on the input model.
       |                                               ^
checkRd: (-1) SMC.Smooth.Rd:25: Lost braces; missing escapes or markup?
    25 | observation at current time step. It should return {xx} (the samples xt) and
       |                                                    ^
checkRd: (-1) SMC.Smooth.Rd:26: Lost braces; missing escapes or markup?
    26 | {logww} (their corresponding log weight).}
       | ^
Packages required but not available:
  'spatstat', 'spatstat.random', 'spatstat.geom', 'spatstat.model',
  'spatstat.explore', 'ks', 'GET'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'EBImage', 'bioimagetools', 'fields', 'stringr'

Packages suggested but not available for checking: 'rmarkdown', '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
Package suggested but not available for checking: ‘R.rsp’

VignetteBuilder package required for checking but not installed: ‘R.rsp’
'LazyData' is specified without a 'data' directory
Package has ‘vignettes’ subdirectory but apparently no vignettes.
Perhaps the ‘VignetteBuilder’ information is missing from the
DESCRIPTION file?
Packages required but not available: 'Rcpp', 'tidyr', 'testthat'

Packages suggested but not available for checking: 'testthat', 'xml2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'fpc', 'tsibble', 'forecast', 'ggplot2', 'dplyr', 'tidyr', 'viridis'

Package suggested but not available for checking: ‘reshape2’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ape', 'caTools', 'dendextend', 'dplyr', 'ggplot2', 'ggraph',
  'ggtree', 'igraph', 'parallelDist', 'patchwork', 'pryr', 'Rcpp',
  'scales', 'scistreer', 'stringr', 'tidygraph', 'tidyr', 'vcfR',
  'RcppArmadillo', 'roptim'

Packages suggested but not available for checking:
  'ggrastr', 'ggrepel', 'testthat'

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

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

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 suggested but not available for checking: ‘gmp’
Running examples in ‘numbers-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: Bernoulli numbers
> ### Title: Bernoulli Numbers
> ### Aliases: bernoulli_numbers
> 
> ### ** Examples
> 
> bernoulli_numbers(3); bernoulli_numbers(3, big=TRUE)
     [,1] [,2]
[1,]    1    1
[2,]    1    2
[3,]    1    6
[4,]    0    1
Error: Package 'gmp' needed: Please install separately.
Execution halted
Skipping checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/0s]
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
'LazyData' is specified without a 'data' directory
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'ggplot2', 'shiny'

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

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

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

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'bookdown', 'covr', 'geosphere', 'rmarkdown', 'spelling', 'testthat'
checkRd: (-1) xyz2R.Rd:31: Lost braces
    31 |    \item Finally, code{T} is rotated an angle \code{z} about its NEWEST z-axis.
       |                       ^
'LazyData' is specified without a 'data' directory
Running ‘spelling.R’ [0s/1s]
  Running ‘testthat.R’ [0s/1s]
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: 'copula', 'pcaPP'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘dplyr’
Packages suggested but not available for checking:
  'testthat', 'dplyr', 'tidyr', 'rmarkdown', 'ggplot2', 'scales',
  'ggthemes', 'GGally'
Running examples in ‘nzelect-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: GE2014
> ### Title: General Election Results 2014
> ### Aliases: GE2014
> ### Keywords: datasets
> 
> ### ** Examples
> 
> # the following matches the results published at
> # http://www.electionresults.govt.nz/electionresults_2014/e9/html/e9_part1.html
> library(tidyr)
Error in library(tidyr) : there is no package called ‘tidyr’
Execution halted
Running ‘testthat.R’ [0s/1s]
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: 'stringi', 'tidyr', 'xml2'

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

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.
Packages required but not available:
  'Rcpp', 'dplyr', 'ggplot2', 'ggrepel', 'RcppArmadillo'

Package suggested but not available for checking: ‘rmarkdown’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'xml2', 'plyr', 'stringr'

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

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 suggested but not available for checking: 'igraph', 'rmarkdown'
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/oaqc.Rcheck/00install.out’ for details.
Packages required but not available: 'spdep', 'sf', 'lwgeom'

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', 'reshape2'

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: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘cubature’

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

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'ggplot2', 'patchwork', 'covr'
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(data.table)
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'shiny', 'miniUI'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'dplyr', 'ggplot2', 'rmarkdown', 'testthat', 'vdiffr'

VignetteBuilder package required for checking but not installed: ‘rmarkdown’
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Errors in running code in vignettes:
when running code in ‘oblicubes.Rmd’
  ...
Error in loadVignetteBuilder(pkgdir) : 
  vignette builder 'rmarkdown' not found
Calls: <Anonymous> -> loadVignetteBuilder
Execution halted

... incomplete output.  Crash?

  ‘oblicubes.Rmd’ using ‘UTF-8’... failed to complete the test
Packages required but not available:
  'Rcpp', 'pec', 'missForest', 'glmnet', 'dplyr', 'prodlim',
  'ggthemes', 'tidyr', 'ggplot2', 'scales', 'RcppArmadillo'

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

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) OBMb.Rd:28: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) OBMb.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) OBMb.Rd:30: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) OBMb.Rd:31: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) OBMb.Rd:32: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) OBMb.Rd:33: Lost braces in \itemize; \value handles \item{}{} directly
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘rmarkdown’
Packages required but not available: 'bazar', 'dplyr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'bib2df', 'BIEN', 'dplyr', 'lubridate', 'rgbif', 'taxize', 'stringr',
  'leaflet', 'htmltools', 'ggplot2', 'tidyr', 'viridis', 'waffle'

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

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘jagsUI’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘ggplot2’
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'digest', 'shiny', 'stringr', 'text2vec', 'tm'

Packages suggested but not available for checking:
  'plumber', 'devtools', 'shinytest2', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) ChangepointDetector.Rd:93: Lost braces; missing escapes or markup?
    93 | \code{'sparse'}, then only (S^{diag}, S^{off,d})
       |                               ^
checkRd: (-1) ChangepointDetector.Rd:93: Lost braces; missing escapes or markup?
    93 | \code{'sparse'}, then only (S^{diag}, S^{off,d})
       |                                         ^
checkRd: (-1) ChangepointDetector.Rd:94: Lost braces; missing escapes or markup?
    94 | and (S^{diag}, S^{off,s}) are included in \code{stat} respectively.);
       |        ^
checkRd: (-1) ChangepointDetector.Rd:94: Lost braces; missing escapes or markup?
    94 | and (S^{diag}, S^{off,s}) are included in \code{stat} respectively.);
       |                  ^
Packages required but not available:
  'stars', 'shiny', 'ggplot2', 'sf', 'waiter', 'bslib', 'thematic',
  'shinyFeedback', 'miniUI', 'DT', 'fs', 'shinyjs', 'ncmeta', 'dplyr'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'shiny', 'shinyBS', 'classInt', 'sf', 'shinyjs', 'shinythemes', 'DT',
  'stringr', 'leaflet', 'leaflet.extras', 'ggplot2', 'dplyr', 'lwgeom',
  'htmlwidgets'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'raster', 'reshape2', 'fields', 'lubridate', 'ggplot2', 'ggedit',
  'sf', 'plotly'

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

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'testthat', 'rmarkdown'
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > 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’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Package required but not available: ‘Rcpp’

Packages suggested but not available for checking:
  'automap', 'interp', 'lubridate', 'rmarkdown', 'RSQLite', 'sf',
  'terra', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'stringr', 'orf', 'glmnet', 'ranger', 'RcppEigen'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'mixture', 'dbscan'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'fields', 'spam', 'rgl', 'igraph', 'Rcpp', 'adespatial', 'spdep',
  'terra'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘bayesm’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'testthat', 'rmarkdown'
checkRd: (-1) onlineCPD.Rd:35: Lost braces
    35 |  function(x, lambda){const_hazard(x, lambda=100)}
       |                     ^
Running ‘testthat.R’ [0s/0s]
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’
checkRd: (-1) ocsApiUserProvisioningManager.Rd:87: Lost braces
    87 |  \item{code{addToGroup(userid, groupid)}}{
       |            ^
Running ‘test-all.R’ [0s/1s]
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: ‘usethis’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'bslib', 'dplyr', 'DT', 'janitor', 'rio', 'shiny', 'shinyAce',
  'shinyjs'

Packages suggested but not available for checking:
  'odbc', 'readr', 'rmarkdown', 'RPostgres', 'RSQLite', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'covr', 'lubridate', 'spelling', 'testthat'
Running examples in ‘octopusR-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: get_products
> ### Title: Return a list of energy products
> ### Aliases: get_products
> 
> ### ** Examples
> 
> get_products(is_green = TRUE)
Error in httr2::resp_body_json(resp, simplifyVector = TRUE) : 
  The package "jsonlite" is required.
Calls: get_products -> octopus_api -> <Anonymous> -> check_installed
Execution halted
Running ‘spelling.R’ [0s/0s]
  Running ‘testthat.R’ [0s/1s]
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: ‘rmarkdown’
Package required but not available: ‘Rcpp’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'fs', 'haven', 'piggyback', 'sf', 'usethis'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'fable', 'fabletools', 'igraph', 'lookout', 'pcaPP',
  'tidyr', 'tsibble'

Packages suggested but not available for checking:
  'DDoutlier', 'feasts', 'rmarkdown'

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

Packages suggested but not available for checking:
  'ggplot2', 'ggrepel', 'gt', 'progressr', 'qs', 'Rcpp',
  'RcppParallel', 'rmarkdown', 'RSQLite', 'stringi', 'stringr',
  'testthat', 'usethis', 'xml2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/0s]
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: ‘rmarkdown’
Packages required but not available:
  'caret', 'ggplot2', 'ggthemes', 'e1071', 'tidymodels', 'rmarkdown'

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: ‘ggplot2’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'pcaPP', 'ggplot2', 'ks', 'RcppRoll', 'reshape', 'dplyr', 'tidyr',
  'kernlab'

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

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

Package suggested but not available for checking: ‘morse’

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 suggested but not available for checking: 'testthat', 'rmarkdown'
'LazyData' is specified without a 'data' directory
Package required but not available: ‘sensitivity’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘ppclust’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘digest’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'gsheet', 'openxlsx'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'geosphere', 'ggplot2', 'ggmap', 'ggrepel'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'mockery', 'digest'
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'Rcpp', 'forecast', '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: ‘sfheaders’

Packages suggested but not available for checking:
  'sf', 'rmarkdown', 'covr', 'lwgeom'

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:
  'rmarkdown', 'spelling', 'testthat'

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

VignetteBuilder package required for checking but not installed: ‘rmarkdown’
Errors in running code in vignettes:
when running code in ‘odr.Rmd’
  ...
Error in loadVignetteBuilder(pkgdir) : 
  vignette builder 'rmarkdown' not found
Calls: <Anonymous> -> loadVignetteBuilder
Execution halted

... incomplete output.  Crash?

  ‘odr.Rmd’ using ‘UTF-8’... failed to complete the test
Package required but not available: ‘cubature’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'readsdmx', 'xml2'

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

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.
Packages required but not available:
  'benchmarkme', 'ggplot2', 'hexSticker', 'latex2exp', 'Rcpp',
  'usethis', 'RcppArmadillo', 'testthat'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'xml2'

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

Package suggested but not available for checking: ‘rmarkdown’

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

Package suggested but not available for checking: ‘rmarkdown’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'broom', 'dplyr', 'estimatr', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'rmarkdown', 'officer', 'xml2', 'memoise', 'rvg'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'xml2', 'ragg'

Packages suggested but not available for checking:
  'testthat', 'devEMF', 'ggplot2', 'rmarkdown', 'doconv', '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: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'parsnip', 'poissonreg'

Packages suggested but not available for checking:
  'glmnet', 'recipes', 'testthat', 'tune', 'workflows'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘CompQuadForm’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'ade4', 'testthat'
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Package required but not available: ‘maxLik’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'tigger', 'alakazam', 'stringr', 'tidyr',
  'ComplexHeatmap', 'bookdown', 'scales'

Package suggested but not available for checking: ‘rmarkdown’

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

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'cvms', 'ggmcmc', 'ggplot2', 'scales'

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: ‘covr’

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: 'geojsonsf', 'readr', 'sf'

Packages suggested but not available for checking:
  'dplyr', 'ggplot2', 'httptest', 'janitor', 'mapview',
  'nominatimlite', 'osmdata', 'rmarkdown', 'spelling', 'testthat',
  'tmaptools', 'tidyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'warbleR', 'sf', 'igraph', 'ggplot2'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'rapportools', 'Deducer'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'rvest', 'tidyr', 'urltools', 'xml2'

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

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.
Packages required but not available: 'websocket', 'digest'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘RSpectra’

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:
  'broom', 'car', 'dplyr', 'ggplot2', 'ggpubr', 'ggrepel', 'lme4',
  'lmerTest', 'readxl', 'rstatix', 'stringr', 'tidyr'

Packages suggested but not available for checking:
  'arrow', 'clusterProfiler', 'FSA', 'ggplotify', 'kableExtra',
  'msigdbr', 'pheatmap', 'rmarkdown', 'scales', 'systemfonts',
  'testthat', 'umap', 'vdiffr'

VignetteBuilder package required for checking but not installed: ‘kableExtra’

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’ [0s/1s]
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 checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘plyr’

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

Packages suggested but not available for checking:
  'covr', 'descriptr', 'rmarkdown', 'testthat', 'vdiffr', 'xplorerr'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'golem', 'shiny', 'shinybusy', 'shinythemes',
  'summarytools'

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 suggested but not available for checking:
  'faviconPlease', 'ggplot2', 'opencpu', 'plotly', 'UpSetR'
Error(s) in re-building vignettes:
  ...
--- re-building ‘OmicNavigatorAPI.Rnw’ using Sweave
OmicNavigator R package version: 1.13.13
The app is not installed. Install it with installApp()
Installing study "ABC" in /tmp/Rtmp86Irxf/file16d19f62ba0f62
Exporting study "ABC" as an R package
Note: No maintainer email was specified. Using the placeholder: Unknown <unknown@unknown>
Calculating pairwise overlaps. This may take a while...
Exported study to /tmp/Rtmp86Irxf/ONstudyABC

Error: processing vignette 'OmicNavigatorAPI.Rnw' failed with diagnostics:
 chunk 3 (label = test-data) 
Error in utils::install.packages(tmpPkgDir, lib = library, repos = NULL,  : 
  (converted from warning) installation of package ‘/tmp/Rtmp86Irxf/ONstudyABC’ had non-zero exit status

--- failed re-building ‘OmicNavigatorAPI.Rnw’

--- re-building ‘OmicNavigatorUsersGuide.Rnw’ using Sweave
OmicNavigator R package version: 1.13.13
The app is not installed. Install it with installApp()
Installing study "vignetteExample" in /tmp/RtmpxvjC2E/file16d65936f40fe
Exporting study "vignetteExample" as an R package
Note: No maintainer email was specified. Using the placeholder: Unknown <unknown@unknown>
Calculating pairwise overlaps. This may take a while...
Exported study to /tmp/RtmpxvjC2E/ONstudyvignetteExample
Success!

Error: processing vignette 'OmicNavigatorUsersGuide.Rnw' failed with diagnostics:
 chunk 37 (label = cellTypeBoxGg) 
Error in library(ggplot2) : there is no package called ‘ggplot2’

--- failed re-building ‘OmicNavigatorUsersGuide.Rnw’

SUMMARY: processing the following files failed:
  ‘OmicNavigatorAPI.Rnw’ ‘OmicNavigatorUsersGuide.Rnw’

Error: Vignette re-building failed.
Execution halted
Packages required but not available: 'ggplot2', 'kernlab'

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

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:
  'testthat', 'rmarkdown', 'gplots'

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

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'bs4Dash', 'dplyr', 'DT', 'golem', 'readr', 'shiny'

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:
  'broom', 'dplyr', 'ff', 'glmnet', 'tidyr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘copula’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dbplyr', 'dplyr', 'snakecase', 'stringr', 'tidyr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘fastmap’

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: ‘ompr’

Packages suggested but not available for checking:
  'testthat', 'ROI.plugin.glpk'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'gt', 'htmltools', 'sass', 'xml2'

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:
  'plyr', 'dplyr', 'stringr', 'ggfortify', 'ggplot2', 'tidyr', 'broom',
  'FSA', 'rstatix', 'caret'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘lme4’
Error(s) in re-building vignettes:
  ...
--- re-building ‘RoeDeerMass-simulation.Rnw’ using Sweave

Error: processing vignette 'RoeDeerMass-simulation.Rnw' failed with diagnostics:
 chunk 6 (label = testTF) 
Error in loadNamespace(x) : there is no package called ‘lme4’

--- failed re-building ‘RoeDeerMass-simulation.Rnw’

SUMMARY: processing the following file failed:
  ‘RoeDeerMass-simulation.Rnw’

Error: Vignette re-building failed.
Execution halted
Packages suggested but not available for checking: 'dplyr', 'ggplot2'
Running examples in ‘onbabynames-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: onbabynames
> ### Title: Names of babies in Ontario Between 1917 and 2018
> ### Aliases: onbabynames
> ### Keywords: datasets
> 
> ### ** Examples
> 
> 
>   library(dplyr)
Error in library(dplyr) : there is no package called ‘dplyr’
Execution halted
Packages required but not available:
  'dplyr', 'lubridate', 'plyr', 'tidyr', 'stringr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'digest', 'dplyr', 'flextable', 'ggplot2', 'officer', 'stringr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'anytime', 'humanize', 'lubridate', 'stringi', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'RcppParallel', 'rstan', 'rstantools', 'posterior',
  'bayesplot', 'ggplot2', 'dplyr', 'tidyr', 'scales', 'RcppEigen',
  'StanHeaders'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'RcppNumerical', 'rstan', 'dplyr', 'tidyr', 'furrr',
  'stringr', 'ggplot2', 'rstantools', 'RcppEigen', 'StanHeaders',
  'RcppParallel'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'patchwork', 'bhmbasket', 'vdiffr',
  'DiagrammeR', 'future', 'doFuture', 'doRNG', 'rjags'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'car', 'glmnet', 'sva', 'GenomicFeatures', 'genefilter', 'tidyverse',
  'readxl', 'org.Hs.eg.db', 'TxDb.Hsapiens.UCSC.hg19.knownGene'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) oncotree.fit.Rd:63: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) oncotree.fit.Rd:64: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) oncotree.fit.Rd:65: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) oncotree.fit.Rd:66: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) oncotree.fit.Rd:67: Lost braces in \itemize; \value handles \item{}{} directly
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'dplyr', 'xgboost', 'pROC', 'ggplot2', 'caret', 'DALEX', 'readr',
  'formattable', 'sparkline', 'e1071', 'pdp', 'fs', 'scales', 'tidyr',
  'htmltools', 'rjson'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'readr', 'rhdf5', 'Rcpp', 'dplyr'

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:
  'shiny', 'dplyr', 'digest', 'ckanr', 'openxlsx', 'lexicon', 'readr',
  'readxl', 'aws.s3'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'DT', 'shinythemes', 'shinyWidgets',
  'bs4Dash', 'shinyjs', 'listviewer', 'stringr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'flexsurv', 'IPDfromKM'

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

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

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

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'ggplot2', 'plotly', 'reshape2', 'Rcpp', 'smacof', 'princurve',
  'dplyr', 'tidyr', 'htmlwidgets', 'ggpubr', 'dendextend', 'vcfR'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'stringr', 'tidyr', 'future', 'furrr'

Packages suggested but not available for checking:
  'rmarkdown', 'sf', 'rgdal', 'googlePolylines'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'dplyr', 'ggplot2', 'survminer'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘ivreg’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Packages suggested but not available for checking:
  'covr', 'devtools', 'doctest', 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
checkRd: (-1) one_sample.Rd:40: Lost braces; missing escapes or markup?
    40 | In two sided or one sided interval estimation of \code{sigma^2} of one normal sample, {side} is a parameter used to control whether to compute two sided or one sided interval estimation. When computing the one sided upper limit, input \code{side = -1}; when computing the one sided lower limit, input \code{side = 1}; when computing the two sided limits, input \code{side = 0} (default).
       |                                                                                       ^
Packages required but not available: 'car', 'ggplot2'

Package suggested but not available for checking: ‘AID’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'testthat', 'rmarkdown'
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Package required but not available: ‘VIM’

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

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

Packages suggested but not available for checking:
  'rmarkdown', 'R.rsp', 'testthat', 'plotly'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'dplyr', 'readxl', 'sf', 'stringr'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘reticulate’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'spatstat.explore', 'spatstat.geom', 'spatstat.random'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘readr’

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

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:
  'shiny', 'visNetwork', 'shinydashboard', 'stringr', 'dplyr', 'plyr',
  'sunburstR', 'usethis'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'readr', 'stringr', 'tidyr', 'rdflib', 'fuzzyjoin', 'beepr'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Package suggested but not available for checking: ‘rmarkdown’
Rd files without \alias:
  ‘ontologyPlot-package.Rd’
Package required but not available: ‘Rcpp’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'tidyr', 'ggplot2', 'ape', 'phytools'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'mlr', 'ranger'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'keyATM', 'shiny', 'digest', 'quanteda', 'ggplot2', 'cowplot'

Packages suggested but not available for checking:
  'testthat', 'text2vec', 'BTM', 'dplyr', 'topicmodels', 'stm',
  'seededlda', 'covr', 'stringr', 'rmarkdown', 'fs',
  'quanteda.textmodels', 'shinytest2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'devtools', 'testthat'
Running ‘testthat.R’ [0s/0s]
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', 'dplyr', 'forecast', 'furrr', 'future', 'ggplot2', 'glmnet',
  'imputeTS', 'lubridate', 'tidyr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘BiocParallel’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'covr'
Running ‘testthat.R’ [0s/1s]
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', 'labelled'

Packages suggested but not available for checking:
  'e1071', 'knitrBootstrap', 'rmarkdown', '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.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/0s]
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: 'caTools', 'twosamples', 'benchmarkme'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘gmp’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'testthat', 'covr'
Running ‘testthat.R’ [0s/0s]
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', 'ggmap', 'ggplot2', 'ggtext', 'leaflet', 'lubridate',
  'openair', 'sf', 'stringr', 'tidyr'

Package suggested but not available for checking: ‘worldmet’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'latticeExtra', 'lubridate', 'Rcpp', 'readr', 'tidyr'

Package suggested but not available for checking: ‘spelling’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'testthat', 'covr'
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
  > # * https://testthat.r-lib.org/articles/special-files.html
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages suggested but not available for checking:
  'testthat', 'dplyr', 'rmarkdown', 'tidyr', 'ggplot2', 'covr'
Running ‘testthat.R’ [0s/0s]
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'

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

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
License stub is invalid DCF.
GNU make is a SystemRequirements.
Packages required but not available: 'httpuv', 'protolite'

Packages suggested but not available for checking:
  'arrow', 'haven', 'pander', 'R.rsp', 'svglite'

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:
  'secr', 'plyr', 'Rcpp', 'RcppParallel', 'stringr'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'R2ucare', 'secrlinear'

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: 'ckanr', 'readxl', 'sf', 'xml2'

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

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

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', 'rmarkdown', 'testthat', 'tidyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'lubridate', 'sf', 'IRdisplay', 'htmltools'

Packages suggested but not available for checking:
  'testthat', 'stars', 'pkgdown', 'rmarkdown', 'kableExtra', 'DT',
  'terra'

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

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: 'ggplot2', 'readr', 'rmarkdown'

Packages suggested but not available for checking:
  'broom', 'dplyr', 'lubridate', 'scales', 'testthat', 'tidyr',
  'tidytext'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'tidyr', 'ggplot2', 'networkD3', 'raster'

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

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

Package suggested but not available for checking: ‘httptest’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'plumber', 'shiny', 'testthat'
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/1s]
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: 'digest', 'stringi', 'memoise'

Packages suggested but not available for checking:
  'testthat', 'mlr', 'xml2', 'farff', '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: 'MSEtool', 'DLMtool', 'SAMtool'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'digest', 'Rcpp', 'RcppParallel', 'RcppEigen', 'StanHeaders', 'rpf'

Packages suggested but not available for checking:
  'roxygen2', 'rpf', 'lme4', 'covr', 'testthat', 'umx', 'ifaTools',
  'rmarkdown', 'reshape2', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘openNLPmodels.en’
Packages required but not available:
  'shiny', 'shinyjs', 'shinyBS', 'shinythemes', 'shinyWidgets',
  'shinydashboard', 'shinydashboardPlus', 'shinycssloaders',
  'shinyFeedback', 'rintrojs', 'formattable', 'openxlsx', 'DT',
  'dplyr', 'stringr', 'reshape2', 'scales', 'igraph', 'tidyr',
  'tidyverse'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'plyr', 'stringr', 'rgl', 'openxlsx', 'tidyr', 'dplyr', 'scales',
  'igraph'

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

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.
Packages required but not available:
  'xml2', 'ggmap', 'ggplot2', 'magick', 'dbscan'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'osfr', 'caTools', 'hyperSpec', 'imager', 'plotly', 'digest',
  'glmnet', 'shiny'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'qs', 'shinyjs', 'shinyWidgets', 'bs4Dash',
  'dplyr', 'ggplot2', 'DT', 'aws.s3'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'testthat', 'digest', 'rmarkdown'
Running examples in ‘openssl-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: hashing
> ### Title: Vectorized hash/hmac functions
> ### Aliases: hashing sha1 hash hmac mac sha224 sha256 sha384 sha512 sha2
> ###   sha3 md4 md5 blake2b blake2s ripemd160 multihash
> 
> ### ** Examples
> 
> # Support both strings and binary
> md5(c("foo", "bar"))
[1] "acbd18db4cc2f85cedef654fccc4a4d8" "37b51d194a7513e45b56f6524f2d51f2"
> md5("foo", key = "secret")
[1] "ba19fbc606a960051b60244e9a5ed3d2"
> 
> hash <- md5(charToRaw("foo"))
> as.character(hash, sep = ":")
[1] "ac:bd:18:db:4c:c2:f8:5c:ed:ef:65:4f:cc:c4:a4:d8"
> 
> # Compare to digest
> digest::digest("foo", "md5", serialize = FALSE)
Error in loadNamespace(x) : there is no package called ‘digest’
Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
Running ‘engine.R’ [0s/0s]
  Comparing ‘engine.Rout’ to ‘engine.Rout.save’ ...4d3
< Linking to: OpenSSL 3.1.4 24 Oct 2023
  Running ‘testthat.R’ [0s/1s]
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', 'raster'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ape', 'geiger', 'knitcitations', 'paleotree', 'plyr', 'rotl',
  'stringr', 'taxize', 'treebase', 'usethis'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'googlePolylines', 'rjson', 'RcppSimdJson', 'progressr', 'sf',
  'sfheaders'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'InterVA5', 'InSilicoVA', 'ggplot2'

Packages suggested but not available for checking:
  'covr', 'nbc4va', '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: 'Rcpp', 'stringi'

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

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

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

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/1s]
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’ [0s/0s]
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:
  'AdaptGauss', 'DataVisualizations', 'DistributionOptimization',
  'mixtools', 'ggplot2', 'caTools', 'dplyr', 'mixAK', 'multimode',
  'ClusterR'

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.
Packages required but not available:
  'ggplot2', 'tidytext', 'dplyr', 'stringr', 'tidyr', 'likert', 'tm',
  'wordcloud2', 'cowplot'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'hopbyhop', 'endtoend'
checkRd: (-1) MonteCarlo.Rd:23: Lost braces
    23 | N is computed from \code{p} length. M is code{10^4} by default.
       |                                              ^
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'ape', 'tidytree', 'ggplot2', 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'testthat', 'roxygen2', 'rmarkdown', 'gurobi', 'Rsymphony', 'ggtree',
  'lpsymphony', 'shiny', 'rhandsontable', 'tidyr'

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: ‘LambertW’

Package suggested but not available for checking: ‘rmarkdown’

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

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', 'ipred', 'rgl'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Ckmeans.1d.dp', 'Rcpp', 'reshape2'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘MCMCpack’

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

Packages suggested but not available for checking:
  'testthat', 'mockery', 'tidyverse', 'DT', 'shinydashboard',
  'shinyalert', 'plotly', 'hrbrthemes', 'shinyjs'

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: ‘ranger’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) drawdesign.Rd:39: Lost braces in \itemize; meant \describe ?
checkRd: (-1) drawdesign.Rd:40: Lost braces in \itemize; meant \describe ?
checkRd: (-1) drawdesign.Rd:41: Lost braces in \itemize; meant \describe ?
checkRd: (-1) drawdesign.Rd:42: Lost braces in \itemize; meant \describe ?
checkRd: (-1) drawdesign.Rd:43: Lost braces in \itemize; meant \describe ?
checkRd: (-1) drawdesign.Rd:44: Lost braces in \itemize; meant \describe ?
Packages required but not available:
  'did', 'dplyr', 'future.apply', 'tidyr'

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

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

Packages suggested but not available for checking:
  'amap', 'dbscan', 'cowplot', 'fpc', 'ggrepel', 'plyr', 'reshape2',
  'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) lorenz.Rd:82: Lost braces; missing escapes or markup?
    82 | L_i = sum_{j=1}^{i} x_j * n_j / sum_{j=1}^{n} x_j * n_j.
       |           ^
checkRd: (-1) lorenz.Rd:82: Lost braces; missing escapes or markup?
    82 | L_i = sum_{j=1}^{i} x_j * n_j / sum_{j=1}^{n} x_j * n_j.
       |                 ^
checkRd: (-1) lorenz.Rd:82: Lost braces; missing escapes or markup?
    82 | L_i = sum_{j=1}^{i} x_j * n_j / sum_{j=1}^{n} x_j * n_j.
       |                                     ^
checkRd: (-1) lorenz.Rd:82: Lost braces; missing escapes or markup?
    82 | L_i = sum_{j=1}^{i} x_j * n_j / sum_{j=1}^{n} x_j * n_j.
       |                                           ^
checkRd: (-1) lorenz.Rd:83: Lost braces; missing escapes or markup?
    83 | where x_i are indexed in non-decreasing order (x_i <= x_{i+1}).
       |                                                         ^
Package required but not available: ‘stringi’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'plyr', 'rgl'

Package which this enhances but not available for checking: ‘gurobi’

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

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'covr', 'future.apply'

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

Packages suggested but not available for checking:
  'bslib', 'DiagrammeR', 'DT', 'rmarkdown', 'shiny', 'shinytest',
  'survey', 'testthat'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ars', 'rjags'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'DepthProc', 'fields', 'nloptr', 'spam', 'stringr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Packages suggested but not available for checking: 'testthat', 'rmarkdown'
Running ‘testthat.R’ [0s/0s]
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: 'lhs', 'stringr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
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.
Package required but not available: ‘oeli’

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

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

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'R.rsp', 'roxygen2', 'spam', 'testthat', 'ggplot2', 'lbfgsb3c'

VignetteBuilder package required for checking but not installed: ‘R.rsp’
Running ‘run-all.R’ [0s/0s]
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 has ‘vignettes’ subdirectory but apparently no vignettes.
Perhaps the ‘VignetteBuilder’ information is missing from the
DESCRIPTION file?
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘rmarkdown’
Packages required but not available: 'shiny', 'cubature'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘mvabund’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘nloptr’

Packages suggested but not available for checking:
  'rmarkdown', 'minqa', 'lbfgsb3c', 'lbfgs', '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: ‘rmarkdown’
Packages suggested but not available for checking:
  'rmarkdown', 'roxygen2', 'rcmdcheck', 'pkgload', 'testthat'
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package suggested but not available for checking: ‘rmarkdown’
'LazyData' is specified without a 'data' directory
Found export directive that requires package ‘methods’:
  ‘exportClasses’
Remove all such namespace directives (if obsolete) or ensure that the
DESCRIPTION Depends or Imports field contains ‘methods’.
Packages required but not available:
  'keras', 'tsutils', 'readxl', 'tensorflow', 'forecast', 'dplyr',
  'caretForecast', 'kknn', 'FactoMineR', 'factoextra'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'shapes', 'cccp', 'nloptr', 'plyr', 'stringr', 'Rcpp'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'tidyverse', 'shiny', 'shinydashboard'
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available: 'Rcpp', 'dplyr', 'rlemon'

Packages suggested but not available for checking:
  'RItools', 'survey', 'testthat', 'roxygen2', 'arm', 'rmarkdown',
  'pander', 'rrelaxiv'

Packages which this enhances but not available for checking:
  'CBPS', 'haven'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘SiZer’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'stringr', 'testthat'
Running ‘run-all.R’ [0s/1s]
  Running ‘test_help.R’ [0s/0s]
  Comparing ‘test_help.Rout’ to ‘test_help.Rout.save’ ... OK
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: ‘labdsv’

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: 'Rglpk', 'ggplot2'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘RSpectra’

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

Packages suggested but not available for checking: 'cobalt', 'twang'

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', 'tidyr', 'readr', 'plyr', 'reshape2', 'stringr', 'openxlsx',
  'rvest', 'xml2'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
  > # * https://testthat.r-lib.org/articles/special-files.html
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/orca.Rcheck/00install.out’ for details.
Packages required but not available:
  'bookdown', 'latticeExtra', 'Rcpp', 'sf', 'terra'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'brms', 'transformr', 'dplyr', 'ggplot2', 'gganimate', 'tidyr'

Packages suggested but not available for checking:
  'rmarkdown', 'gt', 'modelsummary', 'marginaleffects', 'haven',
  'stringr', 'Hmisc', 'collapse', 'ggthemes', 'glmmTMB', 'mice'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘rms’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/0s]
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: 'RSQLite', 'digest', 'fs'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
checkRd: (-1) internal.Rd:26-27: Lost braces in \itemize; meant \describe ?
checkRd: (-1) internal.Rd:29-31: Lost braces in \itemize; meant \describe ?
checkRd: (-1) internal.Rd:33: Lost braces in \itemize; meant \describe ?
checkRd: (-1) internal.Rd:35: Lost braces in \itemize; meant \describe ?
checkRd: (-1) internal.Rd:37-38: Lost braces in \itemize; meant \describe ?
checkRd: (-1) internal.Rd:40-41: Lost braces in \itemize; meant \describe ?
checkRd: (-1) internal.Rd:43-44: Lost braces in \itemize; meant \describe ?
checkRd: (-1) internal.Rd:46: Lost braces in \itemize; meant \describe ?
checkRd: (-1) internal.Rd:48: Lost braces in \itemize; meant \describe ?
checkRd: (-1) internal.Rd:50: Lost braces in \itemize; meant \describe ?
checkRd: (-1) internal.Rd:52: Lost braces in \itemize; meant \describe ?
checkRd: (-1) internal.Rd:54: Lost braces in \itemize; meant \describe ?
checkRd: (-1) internal.Rd:56-57: Lost braces in \itemize; meant \describe ?
checkRd: (-1) internal.Rd:59-60: Lost braces in \itemize; meant \describe ?
checkRd: (-1) internal.Rd:62-63: Lost braces in \itemize; meant \describe ?
checkRd: (-1) internal.Rd:65-66: Lost braces in \itemize; meant \describe ?
checkRd: (-1) internal.Rd:68: Lost braces in \itemize; meant \describe ?
checkRd: (-1) internal.Rd:70: Lost braces in \itemize; meant \describe ?
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘testthat’
Packages required but not available:
  'DESeq2', 'devtools', 'dclone', 'runjags'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'Rcpp', 'verification'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘reshape2’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'testthat', 'glmnet', 'penalized', 'rms'
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking: 'lme4', 'testthat'
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘rjags’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) minK.Rd:11: Lost braces in \itemize; meant \describe ?
checkRd: (-1) minK.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) minK.Rd:15: Lost braces in \itemize; meant \describe ?
Skipping checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘RLRsim’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'stringr', 'scales', 'tidyr', 'dplyr', 'ggrepel'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘covr’
Packages suggested but not available for checking: 'testthat', 'rmarkdown'
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/0s]
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', 'tidyr', 'ggplot2', 'stringr', 'openxlsx'

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

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

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

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

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: ‘rmarkdown’
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking: 'testthat', 'rmarkdown'
Running ‘testthat.R’ [0s/0s]
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:
  'ggthemes', 'ggplot2', 'lubridate', 'stringr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Found the following files/directories:
  ‘cluster of fitted mean data.eps’ ‘cluster of fitted mean data.txt’
  ‘cluster of raw data.txt’
Package suggested but not available for checking: ‘rgl’
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'future', 'future.apply'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'dplyr', 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > testthat::test_check("origin")
  Error in loadNamespace(x) : there is no package called 'testthat'
  Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
  Execution halted
Packages required but not available: 'e1071', 'rmarkdown', 'igraph'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package required but not available: ‘orloca’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘rmarkdown’

Packages suggested but not available for checking: 'orloca.es', 'testthat'

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

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘oro.nifti’

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘RNifti’

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

Packages which this enhances but not available for checking:
  'fmri', 'oro.dicom'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'oro.dicom', 'oro.nifti'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'covr'
Packages required but not available: 'Rcpp', 'rgl', 'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘spelling’
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking: 'testthat', 'rmarkdown'
Running ‘testthat.R’ [0s/1s]
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 checking math rendering: package 'V8' unavailable
checkRd: (-1) polynomial.derivatives.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) polynomial.derivatives.Rd:19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) polynomial.derivatives.Rd:21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) polynomial.integrals.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) polynomial.integrals.Rd:19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) polynomial.integrals.Rd:21: Lost braces in \itemize; meant \describe ?
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'googleAuthR', 'googleCloudVisionR'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'stringr', 'tm', 'tidytext', 'topicmodels', 'rmarkdown'

Packages suggested but not available for checking: 'reshape2', 'qpdf'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package required but not available: ‘pROC’

Packages suggested but not available for checking:
  'ePCR', 'glmnet', 'rmarkdown'

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

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘mc2d’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'geojsonsf', 'geos'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘JADE’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'Rcpp', 'lhs', 'twinning', 'dplyr', 'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'crul', 'stringi', 'fs', 'memoise'

Packages suggested but not available for checking:
  'dplyr', 'testthat', 'rmarkdown', 'lintr', 'covr', 'spelling', 'vcr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'covr'
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking: 'covr', 'testthat'
Running ‘testthat.R’ [0s/0s]
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:
  'Luminescence', 'ggplot2', 'scales', 'ggpubr', 'rmarkdown'

Package suggested but not available for checking: ‘kableExtra’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'lubridate', 'Rcpp', 'rvest', 'xml2'

Packages suggested but not available for checking:
  'httptest2', 'raster', 'rmarkdown', 'sf', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘sf’

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: 'OpenStreetMap', 'sf'

Package suggested but not available for checking: ‘testthat’

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

Package suggested but not available for checking: ‘rmarkdown’

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:
  'RcppSimdJson', 'mapiso', 'googlePolylines', 'sf'

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

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'netmeta'
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/0s]
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: 'hypervolume', 'ggplot2', 'viridis'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ranger', 'pec', 'prodlim'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ghql', 'janitor', 'ggiraphExtra', 'dplyr', 'ggplot2', 'ggrepel',
  'stringr', '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: 'Rcpp', 'ggplot2'

Packages suggested but not available for checking:
  'rmarkdown', 'umap', 'HDclust', 'dbscan'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rglpk', 'transport'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'testthat', 'covr'
Running ‘testthat.R’ [0s/1s]
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:
  'geojsonsf', 'janitor', 'sf', 'urltools', 'dplyr'

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', 'mice', 'missMDA', 'plyr', 'FactoMineR', 'StatMatch',
  'rdist', 'ROI.plugin.glpk', 'ompr', 'ompr.roi'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘rgenoud’

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ggplot2', 'latex2exp'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'bookdown', 'dplyr', 'fs', 'readr', 'rmarkdown', 'rvest', 'stringr',
  'xml2'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘testthat’

Packages suggested but not available for checking:
  'IRdisplay', 'mockery', 'rmarkdown', 'stringr', 'IRkernel'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘reshape2’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘ape’
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'Rcpp', 'ape', 'ggplot2', 'visNetwork'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'testthat', 'covr', 'ape', 'incidence'
Running examples in ‘outbreaks-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: nipah_malaysia
> ### Title: Nipah in Malaysia and Sinagapore, 1997-1999
> ### Aliases: nipah_malaysia
> ### Keywords: datasets
> 
> ### ** Examples
> 
> ## show first few weeks of Dengue incidence
> head(nipah_malaysia)
        date perak negeri_sembilan selangor singapore
1 1997-01-04     0               0        0         0
2 1997-01-11     1               0        0         0
3 1997-01-18     0               0        0         0
4 1997-01-25     1               0        0         0
5 1997-02-01     1               0        0         0
6 1997-02-08     0               0        0         0
> 
> ## convert data to incidence object and plot epicurve using the incidence package
> library(incidence)
Error in library(incidence) : there is no package called ‘incidence’
Execution halted
Running ‘testthat.R’ [0s/0s]
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:
  'dplyr', 'ggplot2', 'testthat', 'tidyr', 'covr', 'rmarkdown',
  'spelling', 'stringr'
checkRd: (-1) fmat.Rd:15: Lost braces; missing escapes or markup?
    15 | \item outcome: codes {I, P, R, NC, O, UH, UO, eUH, eUO, NE}
       |                      ^
checkRd: (-1) fmat.Rd:24: Lost braces; missing escapes or markup?
    24 | The input parameters given by the user are {I, P, R, NC, O, UH, UO} and
       |                                            ^
checkRd: (-1) fmat.Rd:25: Lost braces; missing escapes or markup?
    25 | the parameter 'e'. The parameter e is multiplied by {UH, UO} internally so as to
       |                                                     ^
checkRd: (-1) fmat.Rd:26: Lost braces; missing escapes or markup?
    26 | produce {eUH, eUO}.
       |         ^
checkRd: (-1) middleearth.Rd:14: Lost braces; missing escapes or markup?
    14 | \item \strong{code:} one of the outcome codes {I, P, R, NC, O, UH, UO, UH, UO, NE}
       |                                               ^
Running ‘testthat.R’ [0s/1s]
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: skipping ‘intro-to-outcomerate.Rmd’ due to unavailable dependencies:
  'dplyr', 'ggplot2', 'tidyr', 'stringr'
Packages required but not available: 'Rcpp', 'RcppArmadillo'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'FNN', 'ranger', 'missRanger'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'airt', 'EstCRM', 'apcluster'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'dplyr', 'tidyr', 'HDoutliers', 'FastPCS', 'cellWise',
  'GGally'

Package suggested but not available for checking: ‘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:
  'rmarkdown', 'kableExtra'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ape', 'nloptr', 'geiger', 'igraph', 'phytools', 'paleotree',
  'phangorn', 'lhs', 'interp', 'phylolm'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'ggplot2', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘spatstat.geom’

Package suggested but not available for checking: ‘sf’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘suntools’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘bigmemory’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'ggrepel', 'ggvenn', 'tidyr'

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

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘ks’

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'twang', 'Amelia', 'EnvStats', 'devtools', 'dplyr', 'ggplot2',
  'ggrepel', 'metR', 'survey'

Package suggested but not available for checking: ‘rmarkdown’

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: ‘shiny’

Package suggested but not available for checking: ‘rmarkdown’

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

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

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

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

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'geometa', 'sf', 'terra'

Package suggested but not available for checking: ‘testthat’

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'dplyr', 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(ox)
  > testthat::test_check("ox")
  Error in loadNamespace(x) : there is no package called 'testthat'
  Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
  Execution halted
Note: skipping ‘ox-examples.Rmd’ due to unavailable dependencies: 'dplyr'
Packages required but not available: 'dplyr', 'rjson', 'stringr', 'tidyr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘sf’

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'pander', 'formattable', 'stringr', 'lubridate', 'tidyr',
  'htmlTable', 'shiny', 'reactable', 'shinyjs', 'shinybusy'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'memoise', 'rversions', 'sugrrants'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'fakemake', 'fs', 'pkgload', 'rcmdcheck', 'rhub'

Packages suggested but not available for checking:
  'cleanr', 'covr', 'devtools', 'digest', 'document', 'lintr',
  'rasciidoc', 'rmarkdown', 'roxygen2', 'spelling', 'testthat',
  'usethis'

VignetteBuilder package required for checking but not installed: ‘rasciidoc’

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'readxl', 'stringr', 'reshape2', 'lme4', 'flexsurv', 'survminer',
  'systemfit', 'IPDFileCheck', 'valueEQ5D', 'car', 'ggplot2', 'broom',
  'effects', 'relaimpo', 'tm', 'tidyverse', 'dplyr', 'tidyr', 'haven'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'fs', 'usethis', 'roxygen2', 'htmlwidgets'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'ade4', 'pROC', 'FactoMineR'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'devtools', 'mockery', 'rmarkdown', 'testthat'
Running ‘test-cranlike-repositories.R’ [3s/4s]
  Running ‘testthat.R’ [0s/0s]
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: ‘penalized’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Packages required but not available: 'ape', '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: 'Rcpp', 'ggplot2', 'RcppArmadillo'

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', 'igraph', 'infotheo', 'dplyr', 'Rtsne', 'ggplot2', 'ggrepel'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'memoise', 'xml2', 'stringi'

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

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', 'GenomicAlignments'

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: ‘covr’
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'Rcpp', 'dplyr', 'lubridate'

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

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

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

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'rmarkdown', 'bookdown', 'htmltools', 'later', 'servr', 'httpuv',
  'websocket'

Packages suggested but not available for checking:
  'promises', 'xaringan', 'pdftools', 'revealjs', 'covr', 'xml2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘htmlwidgets’

Packages suggested but not available for checking:
  'shiny', 'rmarkdown', 'devtools'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'ggplot2', 'rmarkdown', 'testthat'
Running examples in ‘pagenum-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: pagenum
> ### Title: Put Page Numbers on Graphics
> ### Aliases: pagenum setPagenum getPagenum
> 
> ### ** Examples
> 
> # base graphics
> setPagenum(1)
> plot(Sepal.Length~Sepal.Width, data=iris, col=Species, pch=19)
> pagenum()
> 
> # lattice, date
> setPagenum(getPagenum()+1) # Manual increment
> require(lattice)
Loading required package: lattice
> xyplot(Sepal.Length~Sepal.Width, data=iris, groups=Species)
> pagenum(date=TRUE)
> 
> # ggplot2, top-right
> require(ggplot2)
Loading required package: ggplot2
Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE,  :
  there is no package called ‘ggplot2’
> ggplot(iris, aes(x=Sepal.Width, y=Sepal.Length,
+   color=Species)) + geom_point() + theme_classic()
Error in ggplot(iris, aes(x = Sepal.Width, y = Sepal.Length, color = Species)) : 
  could not find function "ggplot"
Execution halted
Running ‘testthat.R’ [0s/0s]
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:
  'igraph', 'fastcluster', 'N2R', 'plyr', 'Rcpp', 'rjson', 'Rtsne',
  'sccore', 'urltools', 'RcppArmadillo', 'RcppEigen'

Packages suggested but not available for checking:
  'AnnotationDbi', 'BiocParallel', 'dbscan', 'dplyr', 'ggplot2',
  'GO.db', 'org.Dr.eg.db', 'org.Hs.eg.db', 'org.Mm.eg.db',
  'pcaMethods', 'pheatmap', 'rgl', 'rmarkdown', 'scde', 'testthat',
  'uwot'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'reshape2', 'shinyWidgets', 'shinydashboard', 'DT',
  'plotly', 'heatmaply', 'dendextend', 'ggfortify', 'shiny'

Packages suggested but not available for checking:
  'micropan', 'patchwork', 'ape', 'phangorn', 'pegas', 'DECIPHER',
  'rhierbaps', 'rmarkdown', 'testthat', 'covr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'spelling', 'testthat'
Package required but not available: ‘ggplot2’

Packages suggested but not available for checking:
  'patchwork', 'spelling', 'rmarkdown'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'rmarkdown', 'igraph', 'scales', 'alr4'
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'MCPAN', 'mcprofile'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘dplyr’

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.
Packages required but not available: 'DT', 'htmltools'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) MICS2014Ch.Rd:296: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) MICS2014Ch.Rd:297: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) MICS2014HH.Rd:214: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) MICS2014HH.Rd:215: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) MICS2014HL.Rd:109: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) MICS2014HL.Rd:110: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) MICS2014Wm.Rd:336: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) MICS2014Wm.Rd:337: Lost braces in \enumerate; meant \describe ?
Skipping vignette re-building
Packages suggested but not available for checking: 'testthat', 'R.rsp'

VignetteBuilder package required for checking but not installed: ‘R.rsp’
checkRd: (-1) PakPMICS2018bh.Rd:88: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) PakPMICS2018bh.Rd:89: Lost braces in \enumerate; meant \describe ?
Package has ‘vignettes’ subdirectory but apparently no vignettes.
Perhaps the ‘VignetteBuilder’ information is missing from the
DESCRIPTION file?
Skipping vignette re-building
Packages suggested but not available for checking: 'testthat', 'R.rsp'

VignetteBuilder package required for checking but not installed: ‘R.rsp’
checkRd: (-1) PakPMICS2018fs.Rd:308: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) PakPMICS2018fs.Rd:309: Lost braces in \enumerate; meant \describe ?
Package has ‘vignettes’ subdirectory but apparently no vignettes.
Perhaps the ‘VignetteBuilder’ information is missing from the
DESCRIPTION file?
Skipping vignette re-building
Packages suggested but not available for checking: 'testthat', 'R.rsp'

VignetteBuilder package required for checking but not installed: ‘R.rsp’
checkRd: (-1) PakPMICS2018hh.Rd:362: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) PakPMICS2018hh.Rd:363: Lost braces in \enumerate; meant \describe ?
Package has ‘vignettes’ subdirectory but apparently no vignettes.
Perhaps the ‘VignetteBuilder’ information is missing from the
DESCRIPTION file?
Skipping vignette re-building
Packages suggested but not available for checking: 'testthat', 'R.rsp'

VignetteBuilder package required for checking but not installed: ‘R.rsp’
checkRd: (-1) PakPMICS2018mm.Rd:69: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) PakPMICS2018mm.Rd:70: Lost braces in \enumerate; meant \describe ?
Package has ‘vignettes’ subdirectory but apparently no vignettes.
Perhaps the ‘VignetteBuilder’ information is missing from the
DESCRIPTION file?
Skipping vignette re-building
Packages suggested but not available for checking: 'testthat', 'R.rsp'

VignetteBuilder package required for checking but not installed: ‘R.rsp’
checkRd: (-1) PakPMICS2018mn.Rd:243: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) PakPMICS2018mn.Rd:244: Lost braces in \enumerate; meant \describe ?
Package has ‘vignettes’ subdirectory but apparently no vignettes.
Perhaps the ‘VignetteBuilder’ information is missing from the
DESCRIPTION file?
Skipping vignette re-building
Packages suggested but not available for checking: 'testthat', 'R.rsp'

VignetteBuilder package required for checking but not installed: ‘R.rsp’
checkRd: (-1) PakPMICS2018bh.Rd:90: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) PakPMICS2018ch.Rd:454: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) PakPMICS2018fs.Rd:310: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) PakPMICS2018hh.Rd:364: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) PakPMICS2018hl.Rd:132: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) PakPMICS2018mm.Rd:71: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) PakPMICS2018mn.Rd:245: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) PakPMICS2018wm.Rd:448: Lost braces in \enumerate; meant \describe ?
'LazyData' is specified without a 'data' directory
Package has ‘vignettes’ subdirectory but apparently no vignettes.
Perhaps the ‘VignetteBuilder’ information is missing from the
DESCRIPTION file?
Packages suggested but not available for checking:
  'covr', 'mockery', 'testthat'
Packages required but not available:
  'rioja', 'dplyr', 'ggplot2', 'assertr', 'ggrepel', 'tidyr'

Packages suggested but not available for checking:
  'units', 'rmarkdown', 'gstat', 'sf', 'analogue', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ape', 'sf', 'geosphere', 'h3jsr'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'vdiffr', 'paleotree', 'phytools', 'covr'

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

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

Packages which this enhances but not available for checking:
  'ashr', 'CorShrink', 'pROC', 'edgeR'

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.
Packages suggested but not available for checking: 'ape', 'rmarkdown'
Running examples in ‘paleobuddy-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: find.lineages
> ### Title: Separate a paleobuddy simulation into monophyletic clades
> ### Aliases: find.lineages
> 
> ### ** Examples
> 
> ###
> # first, we run a simple simulation with one starting species
> 
> # set seed
> set.seed(1)
> 
> # run simulation with a minimum of 20 species
> sim <- bd.sim(n0 = 3, lambda = 0.1, mu = 0.1, tMax = 10, 
+               nFinal = c(20, Inf))
> 
> # get a simulation object with the clade originating from species 2
> clades <- find.lineages(sim, S = 2)
> 
> # now we can check to make sure the subclade was correctly separated
> 
> # change NA to 0 on the clade's TE
> clades[[1]]$sim$TE[clades[[1]]$sim$EXTANT] <- 0
> 
> # plot the phylogeny
> if (requireNamespace("ape", quietly = TRUE)) {
+   plot <- ape::plot.phylo(
+     make.phylo(clades[[1]]$sim),
+     main = "red: extinction events \n blue: speciation events");
+   ape::axisPhylo()
+ }
> 
> # check speciation times
> for (j in 2:length(clades[[1]]$sim$TS)) {
+   # the subtraction is just to adjust the wt with the plot scale
+   lines(x = c(
+     sort(clades[[1]]$sim$TS, decreasing = TRUE)[2] -
+        clades[[1]]$sim$TS[j],
+     sort(clades[[1]]$sim$TS, decreasing = TRUE)[2] -
+        clades[[1]]$sim$TS[j]),
+     y = c(plot$y.lim[1], plot$y.lim[2]), lwd = 2, col = "blue")
+ }
Error in plot$y.lim : object of type 'closure' is not subsettable
Calls: lines -> lines.default -> plot.xy -> xy.coords
Execution halted
Packages suggested but not available for checking: 'testthat', 'rgl'
'LazyData' is specified without a 'data' directory
Running examples in ‘paleomorph-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: plotSpecimens
> ### Title: Plot an array of specimen landmark data in an interactive 3D
> ###   frame
> ### Aliases: plotSpecimens
> 
> ### ** Examples
> 
> A <- array(rep(rnorm(3 * 20, sd = 30), by = 6) + rnorm(6 * 20 * 3), 
+        dim = c(20, 3, 6))
> plotSpecimens(A)
Error: Package rgl needed for this function to work. Please install it with install.packages('rgl').
Execution halted
Running ‘test-all.R’ [0s/0s]
Running the tests in ‘tests/test-all.R’ failed.
Complete output:
  > Sys.setenv("R_TESTS" = "")
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'ape', 'phangorn', 'phytools'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘prismatic’

Packages suggested but not available for checking:
  'covr', 'ggplot2', 'ggthemes', 'harrypotter', 'rmarkdown', 'scico',
  'testthat', 'vdiffr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Packages required but not available:
  'prismatic', 'farver', 'ggplot2', 'scales'

Packages suggested but not available for checking:
  'pkgdown', 'testthat', 'dplyr', 'rmarkdown', 'gt', 'biscale', 'sf',
  'patchwork', 'MetBrewer', 'nord', 'covr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘ggplot2’
Running examples in ‘palettetown-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: scale_colour_poke
> ### Title: Add a pokemon palette to a ggplot2 colour or fill scale.
> ### Aliases: scale_color_poke scale_colour_poke scale_fill_poke
> 
> ### ** Examples
> 
> library(ggplot2)
Error in library(ggplot2) : there is no package called ‘ggplot2’
Execution halted
Packages suggested but not available for checking:
  'rmarkdown', 'ggplot2', 'dplyr', 'tidyr', 'recipes'
Packages required but not available: 'Rcpp', 'minqa'

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:
  'rmarkdown', 'raster', 'testthat', 'covr', 'stars', 'viridis'
Running ‘testthat.R’ [0s/0s]
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:
  'classInt', 'ggplot2', 'latticeExtra', 'reshape2', 'rgl',
  'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
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', 'dplyr'

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’
Packages required but not available:
  'readxl', 'readmoRe', 'plyr', 'robustHD'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'dplyr', 'RcppRoll', 'PamBinaries', 'RSQLite',
  'lubridate', 'rerddap', 'xml2', 'hoardr', 'geosphere', 'scales',
  'suncalc', 'rjson'

Package suggested but not available for checking: ‘testthat’

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

Package suggested but not available for checking: ‘rgl’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'tidyr', 'ggplot2', 'dplyr', 'pec'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'PamBinaries', 'PAMmisc', 'dplyr', 'RSQLite', 'stringr', 'tidyr',
  'ggplot2', 'xml2', 'reticulate', 'lubridate', 'geosphere'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
S3 methods shown with full name in Rd file 'pamr.internal.Rd':
  ‘print.nsc’ ‘print.nsccv’

The \usage entries for S3 methods should use the \method markup and not
their full name.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'lubridate', 'scales', 'tidyr', 'readr',
  'geosphere', 'sf', 'hoardr', 'PAMmisc'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'org.Hs.eg.db', 'igraph', 'reshape2'

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

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.
'LazyData' is specified without a 'data' directory
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'digest', 'Rcpp'

Packages suggested but not available for checking:
  'ggplot2', 'rmarkdown', 'tables', 'reshape', 'Epi', 'rms', 'forecast'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘fs’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'openxlsx', 'readODS', 'readr', 'readxl'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) btsdemo.Rd:22: Escaped LaTeX specials: \_
checkRd: (-1) btsdemo.Rd:23: Escaped LaTeX specials: \_
checkRd: (-1) btsdemo.Rd:24: Escaped LaTeX specials: \_
checkRd: (-1) btsdemo.Rd:25: Escaped LaTeX specials: \_
checkRd: (-1) btsdemo.Rd:26: Escaped LaTeX specials: \_
checkRd: (-1) btsdemo.Rd:30: Escaped LaTeX specials: \_
Packages required but not available: 'Rcpp', 'RcppArmadillo'

Package suggested but not available for checking: ‘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: 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'ggplot2', 'CBPS', 'igraph', 'RcppArmadillo', 'RcppEigen'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘pomp’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'lme4', 'dplyr', 'ggplot2', 'jtools', 'lmerTest', 'stringr', 'tidyr'

Packages suggested but not available for checking:
  'brms', 'broom.mixed', 'car', 'geepack', 'plm', 'skimr', 'testthat',
  'covr', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'fixest', 'kableExtra', 'modelsummary', 'stringr'

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

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

Package suggested but not available for checking: ‘rmarkdown’

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

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

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'crul', 'xml2', 'oai', 'hoardr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) hvidovre.Rd:11: Lost braces
    11 |     \item{\code{roof_tile}}{a numeric vector, roof_tile}{dummy, roof made out of tiles =1}
       |                                                         ^
checkRd: (-1) hvidovre.Rd:25: Lost braces
    25 |     \item{\code{railways}}{a numeric vector, railways}{distance to nearest railway in meters}
       |                                                       ^
checkRd: (-1) hvidovre.Rd:26: Lost braces
    26 |     \item{\code{nature_SLD}}{a numeric vector, nature_SLD}{distance to nearest nature area in meters}
       |                                                           ^
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: ‘lme4’
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘rmarkdown’
Packages required but not available:
  'bookdown', 'broom', 'rmarkdown', 'rmdfiltr'

Packages suggested but not available for checking:
  'afex', 'BayesFactor', 'car', 'dplyr', 'ggforce', 'ggplot2',
  'latex2exp', 'lme4', 'lmerTest', 'MBESS', 'R.rsp', 'skimr',
  '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:
  'dplyr', 'tidyverse', 'Hmisc', 'shiny', 'shinythemes', 'readxl', 'DT'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘car’

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

Package which this enhances but not available for checking: ‘lme4’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > # Set environmental variable to prevent hang on quitting the `R` session.
  > # Error message:
  > # - `Error while shutting down parallel: unable to terminate some child processes`
  > # See:
  > # - https://github.com/r-lib/processx/issues/310
  > # - https://github.com/r-lib/processx/issues/240
  > # - https://github.com/r-lib/callr/issues/158
  > Sys.setenv(PROCESSX_NOTIFY_OLD_SIGCHLD = "true")
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package required but not available: ‘mlr3misc’

Packages suggested but not available for checking:
  'lhs', 'spacefillr', 'testthat'

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', 'testthat', 'RcppArmadillo', 'RcppXPtrUtils'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Documented arguments not in \usage in Rd file 'getOption2.Rd':
  ‘envvar’

Functions with \usage entries need to have the appropriate \alias
entries, and all their arguments documented.
The \usage entries must correspond to syntactically valid R code.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
Packages suggested but not available for checking:
  'BatchJobs', 'batchtools', 'testthat'
Running ‘run-all.R’ [0s/0s]
Running the tests in ‘tests/run-all.R’ failed.
Complete output:
  > # FIXME: R CMD check does not run on true batch systems, but maybe it does not have to
  > # we can check there with 'make test' and run 'make check' locally
  > 
  > 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.
Package suggested but not available for checking: ‘pcalg’
Running examples in ‘ParallelPC-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: IDA_parallel
> ### Title: Estimate Total Causal Effects using the IDA_parallel Algorithm
> ### Aliases: IDA_parallel
> 
> ### ** Examples
> 
> ##########################################
> ## Using IDA_parallel without mem.efficeient
> ##########################################
> library(bnlearn)
> library(pcalg)
Error in library(pcalg) : there is no package called ‘pcalg’
Execution halted
Package required but not available: ‘htmlwidgets’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'AER', 'afex', 'BayesFactor', 'BayesFM', 'blme', 'brms', 'broom',
  'cAIC4', 'car', 'cgam', 'cplm', 'dbscan', 'drc', 'DRR', 'EGAnet',
  'estimatr', 'factoextra', 'FactoMineR', 'faraway', 'fixest', 'fpc',
  'geepack', 'ggplot2', 'glmmTMB', 'gt', 'haven', 'Hmisc', 'ivreg',
  'lme4', 'lmerTest', 'logistf', 'M3C', 'marginaleffects', 'MCMCglmm',
  'mediation', 'merDeriv', 'metaBMA', 'mice', 'mmrm', 'nestedLogit',
  'openxlsx', 'panelr', 'pbkrtest', 'PCDimension', 'plm', 'PMCMRplus',
  'posterior', 'PROreg', 'rmarkdown', 'rms', 'rstanarm', 'see',
  'survey', 'testthat', 'TMB', 'truncreg', 'WRS2'
Running ‘testthat.R’ [3s/3s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(parameters)
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'shiny', 'shinydashboard', 'TIMP', 'fields'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'interp', 'covr', 'GGally', 'ggplot2', 'lhs', 'plyr', 'reshape2',
  'testthat'
checkRd: (-1) getParamNr.Rd:15: Lost braces
    15 | Default is code{FALSE}.}
       |                ^
checkRd: (-1) getRequirements.Rd:16: Lost braces
    16 | code{TRUE}.}
       |     ^
checkRd: (-1) sampleValue.Rd:15: Lost braces; missing escapes or markup?
    15 | Default is code {FALSE}.}
       |                 ^
checkRd: (-1) sampleValues.Rd:18: Lost braces; missing escapes or markup?
    18 | Default is code {FALSE}.}
       |                 ^
Running examples in ‘ParamHelpers-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: generateDesign
> ### Title: Generates a statistical design for a parameter set.
> ### Aliases: generateDesign
> 
> ### ** Examples
> 
> ps = makeParamSet(
+   makeNumericParam("x1", lower = -2, upper = 1),
+   makeIntegerParam("x2", lower = 10, upper = 20)
+ )
> # random latin hypercube design with 5 samples:
> generateDesign(5, ps)
Error in requirePackages("lhs", why = "generateDesign", default.method = "load") : 
  For generateDesign please install the following packages: lhs
Calls: generateDesign -> requirePackages -> stopf
Execution halted
Running ‘run-all.R’ [0s/1s]
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: ‘ggplot2’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'spelling', 'testthat'
Running ‘spelling.R’ [0s/0s]
  Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Package required but not available: ‘maxLik’

Package suggested but not available for checking: ‘igraph’

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

Package suggested but not available for checking: ‘testthat’

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'beepr', 'ggplot2', 'dplyr', 'testthat', 'rmarkdown'
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/0s]
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: skipping ‘Simulating-Power.Rmd’ due to unavailable dependencies:
  'ggplot2', 'dplyr'
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'dbscan', 'lhs', 'ggplot2', 'ggpubr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'easyalluvial', 'tidyr', 'dplyr', 'htmlwidgets', 'stringr'

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

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 suggested but not available for checking:
  'rmarkdown', 'stringr', 'testthat'
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
  > # * https://testthat.r-lib.org/articles/special-files.html
  > 
  > 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:
  'DiagrammeR', 'DiagrammeRsvg', 'dplyr', 'lintr', 'rmarkdown',
  'stringr', 'igraph'

Packages suggested but not available for checking:
  'ggplot2', 'plotly', 'ggraph', 'DT', 'magick', 'cowplot', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) PPS.fit.Rd:25: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) PPS.fit.Rd:26: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) PPS.fit.Rd:27: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) PPS.fit.Rd:28: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) PPS.fit.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) PPS.fit.Rd:30: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) forbes400.Rd:8: Lost braces in \itemize; meant \describe ?
checkRd: (-1) forbes400.Rd:9: Lost braces in \itemize; meant \describe ?
checkRd: (-1) turkey.Rd:8: Lost braces in \itemize; meant \describe ?
checkRd: (-1) turkey.Rd:9: Lost braces in \itemize; meant \describe ?
checkRd: (-1) turkey.Rd:10: Lost braces in \itemize; meant \describe ?
checkRd: (-1) turkey.Rd:11: Lost braces in \itemize; meant \describe ?
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking: 'testthat', 'rmarkdown'
Running ‘testthat.R’ [0s/0s]
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.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'testthat', 'SuppDists', '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', 'RNifti', 'plyr', 'ARIbrain', 'RcppArmadillo'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'hansard', 'mnis', 'dplyr', 'stringi', 'sf', 'snakecase', 'readr'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'covr', 'rgdal', 'devtools', 'leaflet',
  'htmltools', 'cartogram', 'htmlwidgets', 'ggplot2', 'janitor'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'nloptr', 'Rglpk'

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.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'flexsurv', 'ggplot2'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'ast2ast', 'dfdr', 'RcppThread', 'RcppArmadillo'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘arrow’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'haven', 'arrow', 'readr', 'RSQLite', 'fst', 'dplyr'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'covr', 'testthat'
Running ‘testthat.R’ [0s/0s]
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: 'RSelenium', 'lubridate'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'readr', 'tidyr', 'dplyr', 'rmarkdown'

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', 'readr', 'future', 'doFuture', 'progressr'

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

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', 'tidyr'

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

Packages suggested but not available for checking:
  'C50', 'covr', 'dials', 'ggrepel', 'keras', 'kernlab', 'kknn',
  'LiblineaR', 'modeldata', 'prodlim', 'ranger', 'rmarkdown',
  'sparklyr', 'tensorflow', 'testthat', 'xgboost'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘optimx’

Package suggested but not available for checking: ‘AER’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/1s]
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:
  'Rcpp', 'doRNG', 'RcppArmadillo', 'RcppEigen', 'RcppNumerical'

Packages suggested but not available for checking:
  'AER', 'rmarkdown', 'CDatanet', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'tidygraph', 'igraph', 'digest', 'dplyr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘rgl’

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

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: ‘testthat’
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'dplyr', 'ggplot2', 'infotheo', 'Rcpp', 'stringr', 'tidyr',
  'RcppArmadillo'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘gmp’

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘regtools’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'lme4', 'dplyr', 'ggplot2', 'tidyr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘lubridate’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'pmml', 'AER'
Note: skipping ‘constparty.Rnw’ due to unavailable dependencies: 'pmml'
Note: skipping ‘mob.Rnw’ due to unavailable dependencies: 'AER'
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘ipred’
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘Rcpp’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘scales’

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.
Package required but not available: ‘glmnet’

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

VignetteBuilder package required for checking but not installed: ‘rmarkdown’
Errors in running code in vignettes:
when running code in ‘PASSED.Rmd’
  ...
Error in loadVignetteBuilder(pkgdir) : 
  vignette builder 'rmarkdown' not found
Calls: <Anonymous> -> loadVignetteBuilder
Execution halted

... incomplete output.  Crash?

  ‘PASSED.Rmd’ using ‘UTF-8’... failed to complete the test
Packages required but not available:
  'ggplot2', 'dplyr', 'copBasic', 'pcaPP', 'GGally', 'plotly',
  'copula', 'Rcpp'

Packages suggested but not available for checking:
  'tidyverse', 'faraway', 'rms', 'testthat', 'PResiduals', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'covr', 'dplyr', 'DT', 'ggplot2', 'rmarkdown', 'testthat', 'tidyr'
Running ‘testthat.R’ [0s/0s]
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'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'terra', 'lubridate'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'covr', 'rmarkdown'
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'ggplot2', 'e1071'

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.
Package required but not available: ‘RmdConcord’

Package suggested but not available for checking: ‘rmarkdown’

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

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

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.
Package required but not available: ‘ggplot2’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcpp', 'lubridate', 'dplyr', 'xml2'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'tidyr'
Running ‘testthat.R’ [0s/0s]
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: ‘stringi’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package vignette with \VignetteEngine{} not specifying an engine package:
  ‘intro-pathdiagram.Rnw’
Engines should be specified as \VignetteEngine{PKG::ENG}.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'AnnotationDbi', 'rmarkdown', 'org.Hs.eg.db', 'ggplot2', 'ggraph',
  'ggupset', 'fpc', 'igraph', 'magick', 'msigdbr'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘sparklyr’

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'testthat', 'usethis'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'BART', 'gbm', 'ggplot2', 'metR', 'pryr', 'twang', 'tidyr'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'stringr', 'tidyr', 'ggplot2', 'cowplot', 'lubridate'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'glmnet', 'survminer', 'caret', 'pROC', 'clusterProfiler'

Packages suggested but not available for checking:
  'stringi', 'rmarkdown', 'testthat', 'e1071', 'qpdf', 'spelling'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'CDMConnector', 'dplyr', 'tidyr', 'lubridate', 'stringr', 'gt'

Packages suggested but not available for checking:
  'covr', 'duckdb', 'testthat', 'CodelistGenerator', 'rmarkdown',
  'odbc', 'ggplot2', 'spelling', 'RPostgres', 'dbplyr', 'PaRe',
  'magick', 'plotly', 'ggraph', 'DT', 'cowplot', 'DiagrammeRsvg'

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

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘plyr’
Packages required but not available:
  'raster', 'sf', 'Morpho', 'dplyr', 'imager', 'RNiftyReg', 'geomorph',
  'ClusterR'

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

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'gplots', 'igraph', 'jetset', 'Mfuzz', 'repmis', 'SelectBoost',
  'tnet', 'WGCNA'

Packages suggested but not available for checking:
  'animation', 'c060', 'glmnet', 'biomaRt', 'R.rsp', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'future.apply', 'geometry', 'lightr', 'magick', 'farver',
  'progressr', 'sf'

Packages suggested but not available for checking:
  'alphashape3d', 'imager', 'rgl', 'rmarkdown', 'testthat', 'vdiffr',
  'digest'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Argument items with no description in Rd file 'markbouts.acclist.Rd':
  ‘extreme’
Package required but not available: ‘paws.common’

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘paws.common’

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'digest', 'Rcpp', 'xml2'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘paws.common’

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘paws.common’

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘paws.common’

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘paws.common’

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘paws.common’

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘paws.common’

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘paws.common’

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘paws.common’

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘paws.common’

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'paws.analytics', 'paws.application.integration', 'paws.common',
  'paws.compute', 'paws.cost.management', 'paws.customer.engagement',
  'paws.database', 'paws.developer.tools', 'paws.end.user.computing',
  'paws.machine.learning', 'paws.management', 'paws.networking',
  'paws.security.identity', 'paws.storage'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘paws.common’

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘paws.common’

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rmisc', 'plyr', 'DescTools', 'dplyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'shiny', 'future', 'future.apply'
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/pbatR.Rcheck/00install.out’ for details.
Package required but not available: ‘ibd’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ade4', 'ape', 'DDD', 'phytools'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/pbdZMQ.Rcheck/00install.out’ for details.
Package required but not available: ‘lme4’

Package suggested but not available for checking: ‘ggplot2’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
'LazyData' is specified without a 'data' directory
Packages required but not available: 'lme4', 'broom', 'dplyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'ggplot2'
Running ‘testthat.R’ [0s/0s]
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
Package required but not available: ‘latticeExtra’

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Packages required but not available: 'leaflet', 'htmltools'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/PBSmapping.Rcheck/00install.out’ for details.
Package suggested but not available for checking: ‘PBSmapping’
Skipping checking math rendering: package 'V8' unavailable
Malformed Description field: should contain one or more complete sentences.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'bigutilsr', 'ggplot2', 'mmapcharr', 'Rcpp', 'RSpectra', 'rmio'

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

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

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

Packages suggested but not available for checking:
  'huge', 'ggplot2', 'dagitty'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'exact2x2', 'MCMCpack'

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:
  'covr', 'testthat', 'rmarkdown'
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Skipping vignette re-building
Packages suggested but not available for checking:
  'optmatch', 'testthat', 'rmarkdown', 'R.rsp'

VignetteBuilder package required for checking but not installed: ‘R.rsp’
Running ‘testthat.R’ [0s/1s]
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 has ‘vignettes’ subdirectory but apparently no vignettes.
Perhaps the ‘VignetteBuilder’ information is missing from the
DESCRIPTION file?
Package suggested but not available for checking: ‘rmarkdown’
Packages required but not available: 'Rcpp', 'RcppEigen'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/pcaPP.Rcheck/00install.out’ for details.
Package suggested but not available for checking: ‘testthat’
Running ‘test-all.R’ [0s/0s]
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: 'dplyr', 'Rcpp'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'kernlab', 'cpm'

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: 'interp', 'gMOIP'

Packages suggested but not available for checking:
  'spatstat.random', 'rmarkdown', 'bookdown', 'spelling'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'pcds', 'interp'

Packages suggested but not available for checking:
  'rmarkdown', 'bookdown', 'spelling'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'Rcpp', 'rstan', 'rstantools', 'reshape2', 'igraph', 'RcppEigen',
  'RcppParallel', 'StanHeaders'

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'pcalg', 'Hmisc', 'lme4', 'sommer', 'ggm'

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

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

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'bigstatsr', 'dcov', 'Rfast', 'Rfast2'

Package suggested but not available for checking: ‘bigreadr’

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: ‘Rcpp’

Package suggested but not available for checking: ‘roxygen2’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
'LazyData' is specified without a 'data' directory
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘rmarkdown’
Packages required but not available: 'ape', 'mvSLOUCH', 'phangorn', 'yuima'

Packages suggested but not available for checking: 'geiger', 'distory'

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

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'covr'

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ape', 'ggplot2'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'ggtree', 'cowplot', 'covr', 'mvSLOUCH'

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'cubature', 'Rcpp', 'RcppArmadillo'

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: 'Rcpp', 'RcppEigen'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘fda’

Packages suggested but not available for checking:
  'rmarkdown', 'Hmisc', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'ggplot2', 'prodlim', 'riskRegression', 'pec',
  '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:
  'SYNCSA', 'ape', 'picante', 'phylobase', 'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'RobStatTM', 'R.cache'

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: ‘ggplot2’

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'covr', 'cowplot'

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’ [0s/0s]
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', 'rmarkdown', 'spelling'
Running ‘spelling.R’ [0s/0s]
  Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Package required but not available: ‘igraph’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'stplanr', 'readr', 'sf', 'crul'

Packages suggested but not available for checking:
  'covr', 'dplyr', 'ggplot2', 'leaflet', 'rmarkdown', 'testthat',
  'tmap', 'bookdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'sarima', 'PolynomF', 'lubridate'

Packages suggested but not available for checking: 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'reshape2', 'scales'

Packages suggested but not available for checking:
  'ggpubr', 'kableExtra', 'animation', 'htmlwidgets', 'pagedown',
  'tidyr', 'ggsci', 'readr', 'pdftools', 'PMCMRplus', 'ggalluvial',
  'gghalves', 'ggspatial', 'sf', 'ggimage', 'ggpmisc', 'ggvenn',
  'UpSetR', 'RBGL', 'ggtern', 'wordcloud2', 'RIdeogram', 'igraph',
  'rmarkdown', 'prettydoc', 'ggnewscale', 'plotly', 'htmltools',
  'leaflet', 'relaimpo', 'stringr', 'ggraph', 'ggrepel', 'treemap',
  'voronoiTreemap', 'devtools', 'fanyi', 'rio', 'bookdown',
  'biomformat', 'ggtree', 'aplot', 'ape', 'ggforce'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
checkRd: (-1) pcvpcr.Rd:42: Lost braces; missing escapes or markup?
    42 | set {X, y} and cross-validation.
       |     ^
checkRd: (-1) pcvpls.Rd:42: Lost braces; missing escapes or markup?
    42 | set {X, y} and cross-validation.
       |     ^
Packages required but not available:
  'Rcpp', 'rvest', 'minqa', 'glmnet', 'plyr', 'RcppArmadillo'

Packages suggested but not available for checking: 'imager', 'lme4'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Package required but not available: ‘plm’

Packages suggested but not available for checking:
  'car', 'dplyr', 'ggplot2', 'pglm', 'splm'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘geometry’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/PDFEstimator.Rcheck/00install.out’ for details.
Packages required but not available:
  'lubridate', 'xml2', 'stringr', 'dplyr', 'tidyr', 'readr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'PythonInR', 'RSQLite'
Packages required but not available: 'pdftools', 'tokenizers', 'stringi'

Packages suggested but not available for checking:
  'shiny', 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Packages required but not available: 'Rcpp', 'qpdf'

Packages suggested but not available for checking: 'tesseract', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'readxl', 'stringr', 'tidyr'

Packages suggested but not available for checking:
  'testthat', 'covr', 'rmarkdown', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available: 'glmnet', 'ggplot2'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'plyr', 'dendextend'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘ggplot2’

Packages suggested but not available for checking:
  'adabag', 'AmesHousing', 'C50', 'caret', 'covr', 'Cubist', 'dplyr',
  'e1071', 'gbm', 'ipred', 'keras', 'kernlab', 'ranger', 'reticulate',
  'xgboost', 'rmarkdown', 'vip'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'covr', 'rmarkdown', 'spelling', 'testthat', 'vdiffr'
Running ‘spelling.R’ [0s/0s]
  Running ‘testthat.R’ [0s/0s]
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:
  'ggplot2', 'reshape2', 'testthat'
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # Copyright 2015 Steven E. Pav. All Rights Reserved.
  > # Author: Steven E. Pav
  > 
  > # This file is part of PDQutils.
  > #
  > # PDQutils is free software: you can redistribute it and/or modify
  > # it under the terms of the GNU Lesser General Public License as published by
  > # the Free Software Foundation, either version 3 of the License, or
  > # (at your option) any later version.
  > #
  > # PDQutils 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 Lesser General Public License for more details.
  > #
  > # You should have received a copy of the GNU Lesser General Public License
  > # along with PDQutils.  If not, see <http://www.gnu.org/licenses/>.
  > 
  > # env var:
  > # nb: 
  > # see also:
  > # todo:
  > # changelog: 
  > #
  > # Created: 2015.06.06
  > # Copyright: Steven E. Pav, 2015-2015
  > # 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
Error(s) in re-building vignettes:
  ...
--- re-building ‘PDQutils.Rnw’ using knitr
Warning in eng_r(options) :
  Failed to tidy R code in chunk 'rsnak'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.

Warning in eng_r(options) :
  Failed to tidy R code in chunk 'testit'. Reason:
Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored.


Quitting from lines 734-750 [testit] (PDQutils.Rnw)
Error: processing vignette 'PDQutils.Rnw' failed with diagnostics:
there is no package called 'ggplot2'
--- failed re-building ‘PDQutils.Rnw’

SUMMARY: processing the following file failed:
  ‘PDQutils.Rnw’

Error: Vignette re-building failed.
Execution halted
Skipping checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘shiny’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcpp', 'ddalpha', 'RcppArmadillo'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'ggplot2', 'reshape2', 'viridis', 'ggthemes'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'monobin', 'dplyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘dplyr’

Packages suggested but not available for checking:
  'rmarkdown', 'leaflet', 'leaflet.extras', 'gganimate', 'infer',
  'moderndive', 'readr', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘optimx’

Packages suggested but not available for checking:
  'pder', '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:
  'dplyr', 'geosphere', 'tidyr', 'stringr', 'stevemisc'

Packages suggested but not available for checking: 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘metap’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) Peacock.test-package.Rd:28: Escaped LaTeX specials: \_
Packages suggested but not available for checking: 'testthat', 'ggplot2'
Package suggested but not available for checking: ‘rmarkdown’
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking:
  'testthat', 'ggplot2', 'future.apply', 'future'
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/PeakSegDisk.Rcheck/00install.out’ for details.
Packages suggested but not available for checking:
  'ggplot2', 'testthat', 'penaltyLearning'
Running examples in ‘PeakSegDP-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: chr11ChIPseq
> ### Title: ChIP-seq aligned read coverage for 4 samples on a subset of
> ###   chr11
> ### Aliases: chr11ChIPseq
> ### Keywords: datasets
> 
> ### ** Examples
> 
> data(chr11ChIPseq)
> library(ggplot2)
Error in library(ggplot2) : there is no package called ‘ggplot2’
Execution halted
Running ‘testthat.R’ [0s/0s]
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: ‘penaltyLearning’

Packages suggested but not available for checking: 'testthat', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘penaltyLearning’

Packages suggested but not available for checking: 'ggplot2', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'Rcpp', 'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'prodlim', 'rms', 'riskRegression', 'lava', 'timereg'

Package suggested but not available for checking: ‘Hmisc’

Package which this enhances but not available for checking: ‘randomForestSRC’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'car', 'digest', 'dplyr', 'ggplot2', 'htmltools', 'lubridate',
  'qwraps2', 'scales', 'testthat'
Running ‘testthat.R’ [0s/1s]
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', 'scales'

Packages suggested but not available for checking:
  'covr', 'DT', 'rmarkdown', 'shiny', 'shinydashboard'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/0s]
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’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
  > # * https://testthat.r-lib.org/articles/special-files.html
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'CompQuadForm', 'survey'

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: ‘reshape’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'RcppArmadillo', 'testthat', 'psqn'

Packages suggested but not available for checking:
  'testthat', 'xml2', 'rmarkdown', 'R.rsp', 'igraph', 'TruncatedNormal'

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’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available: 'latticeExtra', 'Rcpp'

Packages suggested but not available for checking:
  'car', 'fields', 'georob', 'gstat', 'SpatialTools'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/1s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available:
  'rvest', 'lubridate', 'stringi', 'readxl', 'readr', 'echarts4r'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘ibdsim2’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'igraph', 'kableExtra', 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Package required but not available: ‘stringr’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Package required but not available: ‘ape’

Packages suggested but not available for checking: 'rgl', 'adegenet'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'tidyverse', 'ggplot2', 'dplyr', 'stringr'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘fields’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking:
  'dplyr', 'rmarkdown', 'treemap', 'visdat'
Packages required but not available: 'DT', 'htmlwidgets', 'shiny'

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:
  'rstan', 'Rcpp', 'RcppParallel', 'rstantools', 'shiny', 'ggplot2',
  'RcppEigen', 'StanHeaders'

Packages suggested but not available for checking:
  'rmarkdown', 'mice', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Packages required but not available:
  'loa', 'latticeExtra', 'ggplot2', 'dplyr', 'Rcpp'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘Rcpp’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcpp', 'ggplot2', 'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'penalized', 'clogitL1'

Packages suggested but not available for checking: 'rmarkdown', 'tidyverse'

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: ‘globaltest’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'e1071', 'tgp'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘ggplot2’

Packages suggested but not available for checking:
  'jointseg', 'testthat', 'future', 'future.apply'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'glmnet', 'riskRegression', 'survcomp'

Packages suggested but not available for checking:
  'ptmixed', 'rmarkdown', 'survminer'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'fda', 'latticeExtra', 'pacotest', 'igraph'

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: ‘fda’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘GJRM’

Packages suggested but not available for checking:
  'cartography', 'plotly', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Package required but not available: ‘Rcpp’

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', 'glmnet', 'fixest', 'collapse', 'dplyr', 'devtools',
  'RcppEigen'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'ggplot2', 'reshape2'

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

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', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘penalized’

Package suggested but not available for checking: ‘rmarkdown’

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.
Packages required but not available: 'dplyr', 'ggplot2', 'tidyr'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘penalized’
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: 'stringr', 'pryr'

Packages suggested but not available for checking: 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available: 'discreteRV', 'plyr', 'dplyr'

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: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Peptides', 'dplyr', 'stringr', 'caret'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ggplot2', 'car'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'lme4'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking:
  'spelling', 'dplyr', 'rmarkdown', 'testthat', 'ggplot2', 'tidyr',
  'covr'
Running ‘spelling.R’ [0s/1s]
  Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/spelling.R’ failed.
Complete output:
  > spelling::spell_check_test(vignettes = TRUE, error = FALSE)
  Error in loadNamespace(x) : there is no package called 'spelling'
  Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
  Execution halted
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', 'rmarkdown', 'devtools', 'reshape2'
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available: 'mirt', 'fda', 'Hmisc'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘RBGL’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'dygraphs', 'Hmisc', 'ggplot2', 'plotly', 'ggpubr', 'RPESE', 'R.rsp',
  'RobStatTM'

VignetteBuilder package required for checking but not installed: ‘R.rsp’
checkRd: (-1) CAPM.RiskPremium.Rd:67: Escaped LaTeX specials: \&
checkRd: (-1) Return.portfolio.Rd:109: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Return.portfolio.Rd:110-113: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Return.portfolio.Rd:114-118: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Return.portfolio.Rd:119-122: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Return.portfolio.Rd:123-129: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Return.portfolio.Rd:130-132: Lost braces in \itemize; meant \describe ?
checkRd: (-1) chart.ECDF.Rd:31: Escaped LaTeX specials: \#
checkRd: (-1) managers.Rd:8: Escaped LaTeX specials: \&
Running examples in ‘PerformanceAnalytics-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: Omega
> ### Title: calculate Omega for a return series
> ### Aliases: Omega
> 
> ### ** Examples
> 
> 
>     data(edhec)
>     Omega(edhec)
               Convertible Arbitrage CTA Global Distressed Securities
Omega (L = 0%)               2.79388   1.573902              2.794442
               Emerging Markets Equity Market Neutral Event Driven
Omega (L = 0%)         1.700861              4.499562     2.636198
               Fixed Income Arbitrage Global Macro Long/Short Equity
Omega (L = 0%)               3.312118     2.834636          2.253459
               Merger Arbitrage Relative Value Short Selling Funds of Funds
Omega (L = 0%)         4.203125       3.809174     0.8914069       2.140616
>     Omega(edhec[,13],method="interp",output="point")
Error in FUN(newX[, i], ...) : 
  requireNamespace("Hmisc", quietly = TRUE) is not TRUE
Calls: Omega -> apply -> FUN -> stopifnot
Execution halted
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'ggplot2', 'tidyr', 'dplyr'

Packages suggested but not available for checking:
  'rmarkdown', 'devtools', 'e1071', 'DMwR'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'AER', 'afex', 'BayesFactor', 'bayesplot', 'bigutilsr', 'blavaan',
  'brms', 'car', 'CompQuadForm', 'cplm', 'dbscan', 'estimatr',
  'fixest', 'flextable', 'forecast', 'ftExtra', 'gamm4', 'ggplot2',
  'glmmTMB', 'Hmisc', 'ICS', 'ICSOutlier', 'ivreg', 'lme4', 'mlogit',
  'multimode', 'nestedLogit', 'nonnest2', 'patchwork', 'qqplotr',
  'rempsyc', 'rmarkdown', 'rstanarm', 'rstantools', 'see', 'survey',
  'testthat'
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking:
  'dendextend', 'dendextendRcpp', 'rmarkdown'
Documented arguments not in \usage in Rd file 'allTrees.Rd':
  ‘dist’

Documented arguments not in \usage in Rd file 'getNode.Rd':
  ‘hc’ ‘pair’

Documented arguments not in \usage in Rd file 'switchEntries.Rd':
  ‘pair’

Functions with \usage entries need to have the appropriate \alias
entries, and all their arguments documented.
The \usage entries must correspond to syntactically valid R code.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
Running examples in ‘pergola-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: maketangle
> ### Title: Create a gray scale tanglegram
> ### Aliases: maketangle
> 
> ### ** Examples
> 
> data(simTetra)
> simTetraGen <- bases2genotypes(simTetra, 4)
> rfMat <- calcRec(simTetraGen, 4)
> split <- splitChr(rfMat, nchr = 7)
> split <- sortLeafs(rfMat, split)
> map <- pullMap(rfMat, split = split)  
> dend <- map2dend(map)  
Error: dendextend needed for this function to work. Please install it.
Execution halted
Packages required but not available: 'Hmisc', 'rms'

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', 'bs4Dash', 'DT', 'fresh', 'lubridate', 'shinyFeedback',
  'shinyWidgets'

Packages suggested but not available for checking:
  'canvasXpress', 'colourpicker', 'ggplot2', 'miniUI', 'openxlsx',
  'rmarkdown', 'shinyjs', 'spelling', 'testthat', 'waiter'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'shiny', 'shinydashboard', 'shinyBS', 'lubridate', 'DT', 'ggplot2',
  'fresh'

Packages suggested but not available for checking:
  'rmarkdown', 'shinydashboardPlus', 'testthat', 'canvasXpress',
  'openxlsx', 'colourpicker'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'bs4Dash', 'DT', 'shiny', 'colourpicker', 'dplyr', 'ggplot2',
  'golem', 'plotly', 'readr', 'shinyjs', 'shinyWidgets', 'tidyr',
  'viridis'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘scales’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > testthat::test_check("permChacko")
  Error in loadNamespace(x) : there is no package called 'testthat'
  Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
  Execution halted
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘testthat’
'LazyData' is specified without a 'data' directory
Package required but not available: ‘ipred’

Packages suggested but not available for checking:
  'rmarkdown', 'scales', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/permPATH.Rcheck/00install.out’ for details.
Packages required but not available: 'ggplot2', 'dabestr', 'dplyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘Rcpp’

Packages suggested but not available for checking:
  'R.rsp', 'testthat', 'covr', 'rmarkdown'

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: 'partitions', 'freealg'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'bookdown'
checkRd: (-1) jackal.Rd:32: Escaped LaTeX specials: \&
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > ## Test `permute` using the `testthat` package
  > 
  > ## Setup
  > library("testthat")
  Error in library("testthat") : there is no package called 'testthat'
  Execution halted
Package required but not available: ‘plyr’

Packages suggested but not available for checking:
  'buildmer', 'car', 'ggplot2', 'glmmTMB', 'lme4', 'permuco',
  'rmarkdown', 'viridis'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘perry’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘ggplot2’

Package suggested but not available for checking: ‘perryExamples’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘pROC’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'plyr', 'stringr'

Packages suggested but not available for checking:
  'testthat', 'roxygen2', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'stringr', 'raster'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'personalized', 'Rcpp', 'RcppEigen'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'glmnet', 'ggplot2', 'plotly', 'kernlab', 'xgboost'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'devtools', 'fs', 'usethis'

Package suggested but not available for checking: ‘dplyr’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ggplot2', 'rmarkdown', '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: 'ggplot2', 'ape'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'stringr'

Packages suggested but not available for checking:
  'testthat', 'covr', 'badger', 'RSQLite'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'igraph', 'ggplot2'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
  > # * https://testthat.r-lib.org/articles/special-files.html
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package suggested but not available for checking: ‘testthat’
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/0s]
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’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'readxl', 'stringr', 'dplyr'

Packages suggested but not available for checking: 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'readr', 'RSQLite', 'tidyr'

Packages suggested but not available for checking:
  'rmarkdown', 'roxygen2', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'AICcmodavg', 'BTSPAS', 'ggplot2', 'plyr', 'reshape2', 'SPAS',
  'stringr', 'tidyr'

Packages suggested but not available for checking: 'rmarkdown', 'R.rsp'

VignetteBuilder packages required for checking but not installed:
  'rmarkdown', 'R.rsp'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking:
  'lubridate', 'testthat', 'rmarkdown', 'dplyr'
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/1s]
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', 'visNetwork', 'DiagrammeR', 'xml2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'RSelenium', 'rio', 'stringr'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘rjags’

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', 'caper', 'picante', 'ade4', 'FD', 'animation', 'phytools'

Package suggested but not available for checking: ‘lme4’

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:
  'scales', 'devtools', 'ggplot2', 'stringr', 'Rcpp', 'rmarkdown',
  'kableExtra'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'Rcpp', 'RcppEigen', 'rmarkdown'

VignetteBuilder package required for checking but not installed: ‘rmarkdown’
Errors in running code in vignettes:
when running code in ‘my-vignette.Rmd’
  ...
Error in loadVignetteBuilder(pkgdir) : 
  vignette builder 'rmarkdown' not found
Calls: <Anonymous> -> loadVignetteBuilder
Execution halted

... incomplete output.  Crash?

  ‘my-vignette.Rmd’ using ‘UTF-8’... failed to complete the test
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘Rcpp’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'copula', 'Rcpp', '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.
Packages required but not available: 'sf', 'spdep'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'maxLik', 'plm'

Package suggested but not available for checking: ‘car’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'Rcpp', 'KrigInv', 'rgenoud', 'RcppArmadillo'

Package suggested but not available for checking: ‘anMC’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'SAM', 'energy', 'glmnet'

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.
Packages required but not available: 'igraph', 'stringi', 'ggplot2'

Packages suggested but not available for checking:
  'wordcloud', 'rmarkdown', 'pander'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'bigmemory', 'ggplot2', 'ggraph', 'igraph', 'tidygraph',
  'visNetwork', 'future'

Package suggested but not available for checking: ‘rmarkdown’

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'nloptr', 'reshape2', 'RcppArmadillo'

Packages suggested but not available for checking: 'rmarkdown', 'plm'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'odbc', 'stringi'

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.
Package required but not available: ‘Rcpp’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'animation', 'Rcpp'

Package suggested but not available for checking: ‘gsDesign’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘gsDesign’
'LazyData' is specified without a 'data' directory
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'dplyr', 'ggplot2', 'Rcpp', 'RcppParallel', 'rstan', 'rstantools',
  '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:
  'readxl', 'stringr', 'factoextra', 'bipartite', 'smerc', 'RJSONIO'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ape', 'digest', 'igraph', 'Rcpp'

Packages suggested but not available for checking:
  'magick', 'rgl', 'rmarkdown', 'seqinr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'tidyr', 'dplyr'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'devtools', 'tidyverse'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'stringr', 'huxtable'

Packages suggested but not available for checking:
  'testthat', 'dplyr', 'readr', 'gt', 'rmarkdown', 'readxl',
  'kableExtra', 'plyr', 'tidyverse'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'covr', 'devtools', 'DT', 'lintr', 'miniUI', 'pkgdown', 'rmarkdown',
  'roxygen2', 'spelling', 'testthat', 'usethis', 'metacore',
  'metatools'
Packages suggested but not available for checking: 'spelling', 'testthat'
Running ‘spelling.R’ [0s/0s]
  Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages suggested but not available for checking:
  'devtools', 'lintr', 'pkgdown', 'testthat', 'rmarkdown', 'roxygen2',
  'spelling', 'usethis', 'covr'
Packages required but not available: 'altair', 'reticulate'

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.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'rjags', 'reshape2', 'plyr', 'dplyr', 'kableExtra'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'rjags', 'ggplot2'

Package suggested but not available for checking: ‘BiocParallel’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'lubridate', 'plotly', 'zeitgebr', 'shiny', 'shinythemes',
  'shinydashboard', 'shinycssloaders', 'shinyFiles'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
checkRd: (-1) phasePlaneAnalysis.Rd:84: Lost braces; missing escapes or markup?
    84 | identified {see (3) above}, if this point is a saddle then the manifolds are
       |            ^
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available: 'ggplot2', 'reshape'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘igraph’

Packages suggested but not available for checking:
  'partitions', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'reticulate', 'ggplot2', 'memoise'

Package suggested but not available for checking: ‘cowplot’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Packages required but not available: 'ggplot2', 'scales'

Package suggested but not available for checking: ‘rmarkdown’

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.
Package required but not available: ‘scales’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'adabag', 'C50', 'caret', 'caTools', 'dplyr', 'e1071', 'evtree',
  'glmnet', 'hda', 'HDclassif', 'ipred', 'kernlab', 'kknn', 'klaR',
  'MLmetrics', 'themis'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘glmnet’

Packages suggested but not available for checking:
  'ggplot2', 'e1071', 'randomForestSRC', 'xgboost', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'shiny', 'shinyBS', 'collapsibleTree', 'dplyr', 'DT', 'golem',
  'plotly', 'readr', 'rintrojs', 'shinycssloaders', 'shinydashboard',
  'shinydashboardPlus'

Packages suggested but not available for checking:
  'rmarkdown', 'shinytest', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'broom', 'dplyr', 'tidyr'

Packages suggested but not available for checking:
  'readxl', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/1s]
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: ‘SuppDists’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ggplot2', 'dplyr', 'reshape'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘gstat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'memoise', 'daymetr', 'MODISTools'

Packages suggested but not available for checking:
  'shiny', 'covr', 'testthat', 'rmarkdown', 'shinydashboard',
  'leaflet', 'plotly', 'DT'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘rjags’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'dplyr', 'stringr', 'lubridate', 'ggplot2', 'optimx',
  'RcppArmadillo'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'dplyr', 'testthat'
Packages required but not available: 'optimx', 'HelpersMG'

Packages suggested but not available for checking: 'shiny', 'fields', 'car'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'plyr', 'stringr', 'terra'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'plyr', 'stringr', 'raster'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) connectedSets.Rd:27: Escaped LaTeX specials: \_ \_
checkRd: (-1) connectedSets.Rd:29: Escaped LaTeX specials: \_ \_
checkRd: (-1) connectedSets.Rd:31: Escaped LaTeX specials: \_ \_
checkRd: (-1) maxConnectedSet.Rd:35: Escaped LaTeX specials: \_ \_ \_ \_ \_ \_ \_ \_
checkRd: (-1) maxConnectedSet.Rd:37: Escaped LaTeX specials: \_ \_ \_ \_ \_ \_ \_ \_ \_ \_
checkRd: (-1) maxConnectedSet.Rd:39: Escaped LaTeX specials: \_ \_ \_ \_ \_ \_ \_ \_ \_ \_
checkRd: (-1) maxConnectedSet.Rd:41: Escaped LaTeX specials: \_ \_ \_ \_ \_ \_ \_ \_ \_ \_
checkRd: (-1) maxConnectedSet.Rd:45: Escaped LaTeX specials: \_ \_ \_ \_ \_ \_ \_ \_ \_ \_
checkRd: (-1) maxConnectedSet.Rd:47: Escaped LaTeX specials: \_ \_
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/1s]
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', 'tidyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Hmisc', 'Rcpp', 'cowplot', 'ggplot2', 'reshape2', 'dplyr'

Packages suggested but not available for checking: 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'lubridate', 'terra'

Packages suggested but not available for checking:
  'dplyr', 'geomtextpath', 'ggplot2', 'rmarkdown', 'testthat',
  'tidyterra'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'qs'
Running ‘testthat.R’ [0s/1s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available:
  'dplyr', 'ggplot2', 'glmnet', 'lme4', 'Rcpp', 'tidyr', 'viridis'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘Rmpfr’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘car’

Package suggested but not available for checking: ‘lme4’

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', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘pkgload’

Packages suggested but not available for checking:
  'covr', 'DT', 'fs', 'lubridate', 'mockery', 'rmarkdown', 'spelling',
  'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘nph’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Packages required but not available: 'tm', 'shiny', 'smallstuff'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
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’

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'devtools'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘htmltools’

Packages suggested but not available for checking: 'covr', 'shiny'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘photobiology’

Packages suggested but not available for checking:
  'rmarkdown', 'ggplot2', 'ggspectra', 'photobiologyWavebands'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'photobiology', 'stringr', 'lubridate', 'anytime', 'dplyr', 'tidyr',
  'readr', 'readxl'

Packages suggested but not available for checking:
  'hyperSpec', 'pavo', 'fda.usc', 'rmarkdown', 'ggplot2', 'ggspectra',
  'photobiologyWavebands', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘photobiology’

Packages suggested but not available for checking:
  'rmarkdown', 'ggspectra', 'photobiologyWavebands', 'ggplot2',
  'photobiologyLEDs'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘photobiology’

Packages suggested but not available for checking:
  'photobiologyWavebands', 'photobiologyLamps', 'ggspectra',
  'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'photobiology', 'photobiologyWavebands'

Packages suggested but not available for checking:
  'rmarkdown', 'ggplot2', 'ggspectra'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'stringr', 'lubridate', 'plyr', 'dplyr', 'tidyr'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'roxygen2', 'lutz', 'covr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘photobiology’

Packages suggested but not available for checking:
  'rmarkdown', 'photobiologyWavebands', 'ggspectra', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘photobiology’

Packages suggested but not available for checking:
  'rmarkdown', 'photobiologyWavebands', 'ggplot2', 'ggspectra',
  'lubridate'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘photobiology’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'units', 'dplyr', 'furrr', 'gunit', 'readr', 'stringr',
  'tealeaves'

Packages suggested but not available for checking:
  'brms', 'broom', 'future', 'rmarkdown', 'testthat', 'tidyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'tidyverse', 'usethis'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/phreeqc.Rcheck/00install.out’ for details.
Packages required but not available:
  'dplyr', 'lubridate', 'readr', 'scales', 'stringr'

Packages suggested but not available for checking:
  'covr', 'ggplot2', 'rmarkdown', 'spelling', '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 checking math rendering: package 'V8' unavailable
Package required but not available: ‘MCMCpack’

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: 'phylobase', 'ape'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'bold', 'ape', 'DECIPHER'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'geometry', 'raster', 'gdistance'
Running examples in ‘phylin-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: extract.val
> ### Title: Extact pairwise values from a matrix in a specified order.
> ### Aliases: extract.val
> ### Keywords: variogram kriging
> 
> ### ** Examples
> 
> 
> data(vipers)
> data(d.gen)
> 
> # calculate midpoints
> mp <- midpoints(vipers[,1:2])
Error in midpoints(vipers[, 1:2]) : 
  Package 'geometry' is needed for Delaunay triangulation.
Execution halted
Error(s) in re-building vignettes:
  ...
--- re-building ‘phylin_tutorial.Snw’ using Sweave

Error: processing vignette 'phylin_tutorial.Snw' failed with diagnostics:
 chunk 31 (label = midpoints) 
Error in midpoints(vipers[, 1:2]) : 
  Package 'geometry' is needed for Delaunay triangulation.

--- failed re-building ‘phylin_tutorial.Snw’

--- re-building ‘resistance_tutorial.Snw’ using Sweave

Error: processing vignette 'resistance_tutorial.Snw' failed with diagnostics:
 chunk 7 (label = conductanceraster) 
Error in library(gdistance) : there is no package called ‘gdistance’

--- failed re-building ‘resistance_tutorial.Snw’

SUMMARY: processing the following files failed:
  ‘phylin_tutorial.Snw’ ‘resistance_tutorial.Snw’

Error: Vignette re-building failed.
Execution halted
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'ade4', 'ape', 'Rcpp', 'rncl', 'RNeXML'

Packages suggested but not available for checking: 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ape', 'phylobase', 'htmlwidgets'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ape', 'raster'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'ape'
Running ‘test-all.R’ [0s/0s]
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:
  'ape', 'glmnet', 'plyr', 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'phytools', 'testthat', 'TreeSim', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘ape’

Packages suggested but not available for checking:
  'dendextend', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) GarlandJanis.IC.Rd:4: Escaped LaTeX specials: \&
checkRd: (-1) GarlandJanis.IC.Rd:6: Escaped LaTeX specials: \&
checkRd: (-1) GarlandJanis.Original.Rd:4: Escaped LaTeX specials: \&
checkRd: (-1) GarlandJanis.Original.Rd:6: Escaped LaTeX specials: \&
checkRd: (-1) GarlandJanis.varcov.Rd:3: Escaped LaTeX specials: \&
checkRd: (-1) GarlandJanis.varcov.Rd:5: Escaped LaTeX specials: \&
checkRd: (-1) GarlandJanis.varcov.Rd:7: Escaped LaTeX specials: \&
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'ape', 'future.apply'

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’
Running ‘testthat.R’ [0s/0s]
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:
  'ape', 'future.apply', 'ggm', 'ggplot2', 'ggraph', 'igraph',
  'phylolm'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ape', 'phylobase', 'SESraster', 'terra'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ape', 'phangorn', 'betapart', 'igraph', 'clustMixType', 'terra',
  'predicts', 'smoothr'

Packages suggested but not available for checking:
  'rmarkdown', 'phyloseq', 'V8'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'cowplot', 'ggplot2', 'reshape2', 'rmarkdown', 'testthat'
Running examples in ‘phylosamp-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: gendist_roc_format
> ### Title: Make ROC curve from sensitivity and specificity
> ### Aliases: gendist_roc_format
> 
> ### ** Examples
> 
> # ebola-like pathogen
> R <- 1.5
> mut_rate <- 1
> 
> # use simulated generation distributions
> data('genDistSim')
> mean_gens_pdf <- as.numeric(genDistSim[genDistSim$R == R, -(1:2)])
> 
> # get theoretical genetic distance dist based on mutation rate and generation parameters
> dists <- as.data.frame(gendist_distribution(mut_rate = mut_rate,
+                        mean_gens_pdf = mean_gens_pdf,
+                        max_link_gens = 1))
> 
> dists <- reshape2::melt(dists,
+                         id.vars = 'dist',
+                         variable.name = 'status',
+                         value.name = 'prob')
Error in loadNamespace(x) : there is no package called ‘reshape2’
Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available:
  'TMB', 'sem', 'ape', 'phylobase', 'phylopath', 'RcppEigen'

Packages suggested but not available for checking:
  'semPlot', 'TreeTools', 'Rphylopars', 'phylolm', 'fishtree', 'phyr',
  'rmarkdown', 'ggplot2', 'testthat', 'phylosignal', 'adephylo'

Packages which this enhances but not available for checking:
  'phytools', 'DiagrammeR'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'phyloseq', 'ggnetwork', 'igraph', 'intergraph'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'adephylo', 'igraph', 'ape', 'phylobase', 'RcppArmadillo'

Packages suggested but not available for checking: 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘ape’
Package required but not available: ‘ape’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ape', 'igraph', 'NHPoisson', 'phylobase'

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', 'ggplot2', 'reshape2', 'Rfast', 'RSpectra', 'RcppEigen',
  'Rcpp', 'RcppArmadillo'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ape', 'Rcpp', 'dplyr', 'lme4', 'nloptr', 'latticeExtra', 'tidyr',
  'RcppArmadillo'

Packages suggested but not available for checking:
  'testthat', 'pez', 'rmarkdown', 'covr', 'picante', 'INLA',
  'MCMCglmm', 'logistf', 'phylolm', 'ggplot2', 'ggridges', 'DHARMa',
  'rr2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'stringr', 'lubridate'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'RSQLite', 'e1071', 'keras', 'reticulate', 'rms'
checkRd: (-1) pa-internal.Rd:11: Lost braces
    11 | code{l2df}: convert list to data.frame
       |     ^
checkRd: (-1) pa-internal.Rd:14: Lost braces
    14 | code{convertTZ}: force a new timezone on datetime
       |     ^
checkRd: (-1) pa-internal.Rd:16: Lost braces
    16 | code{createTime}: create datetime variable
       |     ^
checkRd: (-1) pa-internal.Rd:18: Lost braces
    18 | code{addDayIndex}: create ID_day variable from timestamp
       |     ^
Running examples in ‘PhysicalActivity-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: deliveryFeatures
> ### Title: Delivery Features
> ### Aliases: deliveryFeatures
> 
> ### ** Examples
> 
> data(deliveryData)
> 
> deliveryDataProcessed <- deliveryPreprocess(df = deliveryData)
Warning in deliveryPreprocess(df = deliveryData) :
  .id unspecified - dummy ID created
> deliveryDataFeats <- deliveryFeatures(df = deliveryDataProcessed)
Error: deliveryFeatures requires the e1071 package, please install it.
Execution halted
Package required but not available: ‘Rcpp’

Packages suggested but not available for checking:
  'childsds', 'dplyr', 'ggplot2', 'lintr', 'rmarkdown', 'testthat',
  'spelling', 'tidyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'phytools', 'ape'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'bestNormalize', 'dplyr', 'ggplot2', 'RcppML', 'tidyr'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ape', 'phangorn'

Packages suggested but not available for checking:
  'animation', 'geiger', 'rgl'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘test-making-price-indexes.R’ [1s/1s]
  Comparing ‘test-making-price-indexes.Rout’ to ‘test-making-price-indexes.Rout.save’ ... OK
  Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
  > # * https://testthat.r-lib.org/articles/special-files.html
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package required but not available: ‘ape’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/picasso.Rcheck/00install.out’ for details.
Package required but not available: ‘MCMCpack’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'shiny', 'stringr', 'htmltools', '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: 'shiny', 'scales'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'dplyr'
Running examples in ‘picR-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: PIC.mlm
> ### Title: PIC method for Multivariable Linear Models
> ### Aliases: PIC.mlm
> 
> ### ** Examples
> 
> require(dplyr, quietly = TRUE)
> data(iris)
> 
> # Fit a bivariable regression model
> mod <- lm(cbind(Sepal.Length, Sepal.Width) ~ ., data = iris)
> class(mod)
[1] "mlm" "lm" 
> 
> # Hypothetical validation data
> set.seed(1)
> vdat <- iris[sample(1:nrow(iris), 10),]
> 
> # tPIC, completely unobserved response data
> PIC(object = mod, newdata = vdat %>% dplyr::mutate(Sepal.Length = NA, Sepal.Width = NA))
Error in vdat %>% dplyr::mutate(Sepal.Length = NA, Sepal.Width = NA) : 
  could not find function "%>%"
Calls: PIC -> PIC.mlm
Execution halted
Running ‘testthat.R’ [0s/0s]
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', 'FrF2', 'DoE.base', 'FrF2.catlg128'

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: 'stringi', 'stringr'

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: 'gridGeometry', 'stringr'

Packages suggested but not available for checking:
  'animation', 'ggplot2', 'gridpattern', 'magick', 'pdftools',
  'rayrender', 'rayvertex', 'readobj', 'rgl', 'scales', 'systemfonts',
  'testthat', 'tweenr', 'vdiffr', 'xmpdf'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'car', 'DiagrammeR', 'igraph', 'lme4'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'dplyr', 'tidyr', 'ggforce', 'plyr', 'scales'

Packages suggested but not available for checking:
  'ranger', 'tidyverse', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'fs', 'lubridate', 'memoise'

Packages suggested but not available for checking:
  'spelling', 'readr', 'covr', 'testthat', 'rmarkdown'

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 suggested but not available for checking:
  'DiagrammeR', 'dplyr', 'formattable', 'ggplot2', 'lubridate',
  'nanotime', 'rmarkdown', 'scales', 'stringi', 'testthat', 'units',
  'vdiffr'
Packages required but not available:
  'Rcpp', 'ggplot2', 'scales', 'RcppEigen'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/0s]
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', 'stringr', 'lubridate', 'plotly', 'reshape2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'covr', 'testthat'
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
  > # * https://testthat.r-lib.org/articles/special-files.html
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages suggested but not available for checking:
  'tidyverse', 'pinnacle.API', 'Lahman'
Running examples in ‘pinnacle.data-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: USA_Election_2016
> ### Title: USA_Election_2016
> ### Aliases: USA_Election_2016
> ### Keywords: datasets
> 
> ### ** Examples
> 
> if (require("odds.converter")) {
+ library(tidyverse)
+ # What is Hilary Clinton's the highest implied winning probability at Pinnacle?
+ 
+ USA_Election_2016[which.min(USA_Election_2016$MoneyUS1),"EnteredDateTime"]
+ odds.converter::odds.us2prob(min(USA_Election_2016$MoneyUS1))
+ }
Loading required package: odds.converter
Error in library(tidyverse) : there is no package called ‘tidyverse’
Execution halted
Packages suggested but not available for checking:
  'devtools', 'kableExtra', 'lubridate', 'rmarkdown', 'sf',
  'tidyverse', 'testthat'
Package required but not available: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'RcppParallel', 'FNN', 'RcppArmadillo'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'digest', 'fs'

Packages suggested but not available for checking:
  'archive', 'arrow', 'AzureStor', 'covr', 'googleCloudStorageR',
  'googledrive', 'mockery', 'paws.storage', 'qs', 'rmarkdown',
  'rsconnect', 'shiny', 'testthat', 'xml2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'nloptr', 'furrr', 'future', 'dplyr', 'rmarkdown'

Package suggested but not available for checking: ‘htmltools’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'rmarkdown', 'dplyr', 'ggplot2', 'tidyr'
Package required but not available: ‘ggplot2’

Package suggested but not available for checking: ‘shiny’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'miniUI', 'shiny', 'stringr'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Invalid package aliases in Rd file 'pipegs.Rd':
  ‘pipegs-package’
Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'modelr', 'tidyverse'
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/0s]
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’ [0s/0s]
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', 'RcppEigen'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘ggplot2’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'testthat', 'devtools', 'hdrcde', 'rfinterval', 'ranger'
Documented arguments not in \usage in Rd file 'TungUbRF.Rd':
  ‘feature_num_tree’

Functions with \usage entries need to have the appropriate \alias
entries, and all their arguments documented.
The \usage entries must correspond to syntactically valid R code.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
Running ‘testthat.R’ [0s/1s]
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’ [0s/0s]
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: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'runjags', 'rstan', 'bayesmix', 'rjags', 'bayesplot', 'scales'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'httptest', 'rmarkdown', 'spelling'
Running ‘spelling.R’ [0s/0s]
  Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/spelling.R’ failed.
Complete output:
  > spelling::spell_check_test(vignettes = TRUE, error = identical(Sys.getenv("TRAVIS"), "true"))
  Error in loadNamespace(x) : there is no package called 'spelling'
  Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
  Execution halted
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(httptest)
  Error in library(httptest) : there is no package called 'httptest'
  Execution halted
Packages required but not available: 'dplyr', 'tidyr'

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: 'dplyr', 'htmltools', 'htmlwidgets'

Packages suggested but not available for checking:
  'ggplot2', 'lubridate', 'listviewer', 'openxlsx', 'basictabler',
  'shiny', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'rjson', 'lubridate', 'dplyr', 'stringr', 'readr', 'digest', 'fs',
  'tidyr'

Packages suggested but not available for checking: 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'dplyr', 'ggbeeswarm', 'ggplot2', 'ggrepel', 'rmarkdown', 'spelling',
  'testthat', 'tidyr'
Running ‘spelling.R’ [0s/1s]
  Running ‘testthat.R’ [0s/1s]
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:
  'rmarkdown', 'testthat', 'covr'

VignetteBuilder package required for checking but not installed: ‘rmarkdown’
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Errors in running code in vignettes:
when running code in ‘pixelclasser.Rmd’
  ...
Error in loadVignetteBuilder(pkgdir) : 
  vignette builder 'rmarkdown' not found
Calls: <Anonymous> -> loadVignetteBuilder
Execution halted

... incomplete output.  Crash?

  ‘pixelclasser.Rmd’ using ‘UTF-8’... failed to complete the test
Packages required but not available: 'beepr', 'stringr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'htmlwidgets', 'shiny', 'miniUI'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'broom', 'htmltools', 'reshape2', 'scales'

Packages suggested but not available for checking:
  'dplyr', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'shiny', 'shinythemes', 'shinydashboard'

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 suggested but not available for checking:
  'covr', 'mockery', 'Rcpp', 'rmarkdown', 'testthat'
Running ‘build-tools.R’ [1s/1s]
  Running ‘testthat.R’ [0s/0s]
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', 'fs', 'mockery', 'spelling', 'testthat'
Packages suggested but not available for checking: 'covr', 'testthat'
Running ‘testthat.R’ [0s/1s]
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', 'testthat'
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking:
  'asciicast', 'covr', 'fs', 'htmlwidgets', 'mockery', 'rmarkdown',
  'spelling', 'svglite', 'testthat'
Packages required but not available: 'visNetwork', 'dplyr', 'scales'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'bslib', 'digest', 'downlit', 'fs', 'memoise', 'ragg', 'rmarkdown',
  'xml2'

Packages suggested but not available for checking:
  'covr', 'diffviewer', 'htmltools', 'htmlwidgets', 'pkgload',
  'rsconnect', 'rticles', 'sass', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘downloader’

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggnetwork', 'ggplot2', 'dplyr', 'htmltools', 'igraph', 'intergraph',
  'networkD3', 'plyr'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘roxygen2’
Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'covr'
Running ‘testthat.R’ [0s/0s]
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: ‘fs’

Packages suggested but not available for checking:
  'covr', 'Rcpp', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'digest', 'stringr'

Packages suggested but not available for checking:
  'devtools', 'roxygen2', 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ComplexHeatmap', 'GetoptLong'

Packages suggested but not available for checking:
  'rmarkdown', 'svglite', 'rjson', 'igraph', 'ggplot2', 'ggrepel',
  'testthat', 'cowplot'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'covr', 'DT', 'igraph', 'rmarkdown', 'visNetwork'

Packages suggested but not available for checking:
  'ggplot2', 'pkgdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'xml2', 'covr', 'testthat'
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/0s]
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', 'memoise', 'mockery', 'shiny', 'shinyjs', 'shinyWidgets',
  'testthat'
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
  > # * https://testthat.r-lib.org/articles/special-files.html
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'devtools', 'usethis'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package which this enhances but not available for checking: ‘gmp’
Package required but not available: ‘ranger’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'dplyr', 'digest', 'tidyr'

Packages suggested but not available for checking:
  'covr', 'cowplot', 'ggplot2', 'pander', 'pmxTools', 'rmarkdown',
  'spelling', 'testthat', 'units'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcpp', 'stringr'

Packages suggested but not available for checking:
  'testthat', 'mockery', '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:
  'covr', 'httk', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'stringr', 'readr', 'dplyr', 'tinytiger', 'sf'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'dplyr', 'rmarkdown', 'kableExtra'
Running examples in ‘placer-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: plastic.ci
> ### Title: Confidence intervals of plastic prevalence probability
> ### Aliases: plastic.ci
> 
> ### ** Examples
> 
> plastic.ci(rbinom(1000,1,0.5), 30, 100)
Error in loadNamespace(x) : there is no package called ‘dplyr’
Calls: plastic.ci ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
Packages required but not available: 'CVXR', 'igraph', 'RSpectra'

Packages suggested but not available for checking:
  'BiocStyle', 'BayesMallows', 'BradleyTerry2', 'PLMIX', 'StatRank',
  'bookdown', 'covr', 'hyper2', 'kableExtra', 'lbfgs', 'rmarkdown',
  'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcpp', '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: 'htmltools', 'htmlwidgets', 'raster'

Packages suggested but not available for checking: 'shiny', 'sf'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Carlson', 'CVXR', 'stringr', 'uniformly'

Packages suggested but not available for checking:
  'freegroup', 'rgl', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'sf', 'terra'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'glmnet', 'caret', 'lubridate', 'MESS', 'dplyr', 'pROC'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
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', 'lubridate', 'RcppRoll'

Packages suggested but not available for checking:
  'highcharter', 'reactable', 'reactablefmtr', 'rmarkdown', 'shiny',
  'tidyverse', 'sparkline', 'DT', 'DiagrammeR', 'networkD3', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'DT'
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available: 'ggplot2', 'tidyr'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'igraph', 'sf', 'units'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'spelling', 'minidown', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'ggplot2', 'VariantAnnotation', 'Rsamtools', 'rtracklayer'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'VariantAnnotation', 'Rsamtools', 'rtracklayer'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘plsRcox’

Packages suggested but not available for checking: 'R.rsp', 'tidyr'

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:
  'ape', 'dplyr', 'ggdendro', 'ggplot2', 'htmlwidgets', 'plotly',
  'plyr', 'reshape2', 'stringr'

Package suggested but not available for checking: ‘lintr’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘glmnet’

Packages suggested but not available for checking: 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘dplyr’

Packages suggested but not available for checking: 'testthat', '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: 'testthat', 'viridis'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'rmarkdown', 'ggplot2', 'testthat'
checkRd: (-1) one_design.Rd:125-126: Lost braces
   125 | function serves for the purpose of spot-testing for any pre-specified {n,
       |                                                                       ^
Running ‘testthat.R’ [0s/1s]
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:
  'dplyr', 'ggplot2', 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
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: ‘ggplot2’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'stringr', 'tidyr', 'worldfootballR'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘rms’

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', 'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'mlogit', 'dfidx'

Packages suggested but not available for checking:
  'ggplot2', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'igraph', 'keras', 'ggraph', 'ggplot2'

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: ‘rmarkdown’

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.
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/plfm.Rcheck/00install.out’ for details.
Package required but not available: ‘tgp’

Package suggested but not available for checking: ‘interp’

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:
  'Rcpp', 'sf', 'stars', 'terra', 'RcppArmadillo'

Packages suggested but not available for checking:
  'EBImage', 'leafem', 'leaflet', 'mapedit', 'mapview', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
  > # * https://testthat.r-lib.org/articles/special-files.html
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'ggplot2', 'ggforce', 'ggrepel', 'cowplot', 'UpSetR', 'dplyr',
  'igraph'

Packages suggested but not available for checking:
  'testthat', 'mockery', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'lme4', 'optimx'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'ggplot2', 'ggmcmc', 'reshape2', 'MCMCpack', 'radarchart',
  'rankdist', 'StatRank', 'PlackettLuce'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'collapse', 'maxLik'

Packages suggested but not available for checking:
  'AER', 'car', 'pder', 'rmarkdown', 'fixest'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'future', 'future.apply', 'Rcpp', 'nloptr', 'igraph', 'dplyr',
  'tidyr', 'ggplot2', 'torch', 'RcppArmadillo'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'pkgdown', 'spelling', 'factoextra'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'fs', 'usethis', 'digest'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'progressr', 'ggplot2', 'readxl'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘Rcpp’
'LazyData' is specified without a 'data' directory
Running examples in ‘plogr-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: plogr-package
> ### Title: plogr: The 'plog' C++ Logging Library
> ### Aliases: plogr plogr-package
> 
> ### ** Examples
> 
> plogr_demo <- Rcpp::cppFunction(depends = "plogr", '
+ // C++ code begin
+ #include <plogr.h>
+ 
+ RObject plogr_demo() {
+   plog::init_r(plog::info);
+   LOG_INFO << "shown";
+   LOG_DEBUG << "not shown";
+   plog::init_r("DEBUG");
+   LOG_DEBUG << "shown now";
+   return R_NilValue;
+ }
+ 
+ #include <Rcpp.h> // not necessary to use plogr
+ // C++ code end
+ '
+ )
Error in loadNamespace(x) : there is no package called ‘Rcpp’
Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
checkRd: (-1) delta2a.Rd:21: Lost braces; missing escapes or markup?
    21 | delta_k = log(a_k - a_{k+1})
       |                       ^
checkRd: (-1) ordprob.mple.Rd:29: Lost braces
    29 | logical. If code{TRUE} all the q variable are assumed to have the same mean.
       |                 ^
Packages required but not available: 'ggplot2', 'kernlab'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) colors.Rd:43: Lost braces; missing escapes or markup?
    43 |     To combine transparency with lighting or shading, pass argument {alpha} 
       |                                                                     ^
checkRd: (-1) trans3D.Rd:28: Lost braces in \itemize; \value handles \item{}{} directly
Package vignettes without corresponding tangle output:
  ‘plot3D.rnw’
  ‘volcano.rnw’
Package required but not available: ‘rgl’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggtern', 'Ternary', 'dplyr', 'ggplot2', 'stringr', 'tidyr'

Packages suggested but not available for checking:
  'mlogit', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ggplot2', 'reshape2', 'pcutils'

Packages suggested but not available for checking:
  'ggforce', 'magick', 'wordcloud2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'bartCause', 'ggplot2', 'dplyr', 'tidyr', 'ggdendro'

Packages suggested but not available for checking:
  'testthat', 'vdiffr', 'arm', 'covr', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘scales’

Packages suggested but not available for checking:
  'ape', 'aplot', 'dplyr', 'ggplotify', 'rmarkdown', 'prettydoc'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘plotly’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'dplyr', 'gganimate', 'ggnewscale', 'ggplot2', 'lubridate', 'raster',
  'rerddap', 'scales', 'sf', 'tidyr', 'viridis'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'ggplot2', 'plotly'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) add_bars.Rd:15: Lost braces
    15 | When \\code{y0} is not specified, the lowest value of the y-axis is used.}
       |            ^
checkRd: (-1) add_bars.Rd:24: Lost braces
    24 | \\code{\\link[graphics]{par}}.}
       |       ^
checkRd: (-1) add_bars.Rd:24: Lost braces
    24 | \\code{\\link[graphics]{par}}.}
       |                        ^
Package required but not available: ‘ggplot2’

Packages suggested but not available for checking: 'mixtools', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'plyr', 'ggfittext', 'magick', 'scales', 'farver'

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', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Hmisc', 'scales', 'plyr', 'ggplot2'

Packages suggested but not available for checking: 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'testthat', 'htmltools'

Package which this enhances but not available for checking: ‘plotly’
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/1s]
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', 'scales', 'digest', 'htmltools', 'htmlwidgets', 'tidyr',
  'dplyr', 'crosstalk', 'promises'

Packages suggested but not available for checking:
  'ggthemes', 'GGally', 'ggalluvial', 'testthat', 'shiny', 'shinytest',
  'rmarkdown', 'broom', 'listviewer', 'dendextend', 'sf', 'IRdisplay',
  'rversions', 'reticulate'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'devtools', 'rmarkdown'
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘gplots’

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.
Package required but not available: ‘ggplot2’

Packages suggested but not available for checking:
  'mixtools', 'testthat', 'dplyr', 'patchwork', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'C50', 'gbm', 'glmnet', 'glmnetUtils', 'mlr', 'pre'
Packages required but not available: 'reshape2', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'plyr', 'seqinr', 'ade4'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'ggplot2', 'shiny', 'plyr'

Packages suggested but not available for checking:
  'testthat', 'stringr', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'ggplot2'
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'plyr', 'shiny', 'MplusAutomation', 'Rcpp'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'rmarkdown', 'spelling', 'testthat', 'vdiffr'
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package suggested but not available for checking: ‘testthat’
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘EnvStats’

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘FactoMineR’
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'reshape2', 'plyr', 'fields'

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:
  'parsnip', 'dplyr', 'mixOmics', 'tidyr'

Packages suggested but not available for checking:
  'rmarkdown', 'covr', 'modeldata', 'spelling', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'glmnet'

Packages suggested but not available for checking:
  'rmarkdown', 'kableExtra'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘amap’

Packages suggested but not available for checking:
  'FactoMineR', 'ggplot2', 'reshape', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘plsRglm’

Packages suggested but not available for checking:
  'bipartite', 'prettydoc', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘test_import.R’ [0s/1s]
  Running ‘test_library.R’ [7s/10s]
  Running ‘testthat.R’ [0s/1s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available:
  'plsRglm', 'kernlab', 'mixOmics', 'survcomp', 'survAUC', 'rms'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'bipartite', 'car'

Packages suggested but not available for checking: 'R.rsp', 'chemometrics'

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: ‘MSQC’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'coreSim', 'ggplot2'

Packages suggested but not available for checking: 'testthat', 'covr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
'LazyData' is specified without a 'data' directory
Packages required but not available: 'stringi', 'httpuv', 'promises'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'htmlwidgets', 'visNetwork', 'later',
  'readr', 'arrow', 'future', 'spelling', 'mockery', 'geojsonsf', 'sf'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'plumber', 'httpuv', 'later', 'promises', 'htmltools', 'stringi',
  'urltools'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'covr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'plyr', 'testthat'
Running ‘test-all.R’ [0s/0s]
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: 'dplyr', 'readr', 'stringr', 'tidyr'

Packages suggested but not available for checking:
  'covr', 'fontawesome', 'gt', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘V8’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'covr', 'fracture', 'nombre', 'testthat'
checkRd: (-1) plu_more.Rd:16: Lost braces; missing escapes or markup?
    16 | Additional arguments are replaced with "{n} more".
       |                                         ^
Running ‘testthat.R’ [0s/0s]
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:
  'baizer', 'dplyr', 'ggh4x', 'ggplot2', 'ggsci', 'repr', 'scales',
  'stringr', 'tidyr'

Packages suggested but not available for checking:
  'covr', 'svglite', 'testthat', 'vdiffr'

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'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘tableone’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'clusterProfiler', 'glmnet', 'org.Hs.eg.db', 'pROC', 'survminer'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/PMA.Rcheck/00install.out’ for details.
Packages required but not available:
  'Rcpp', 'dplyr', 'ggplot2', 'e1071', 'pcaMethods', 'plotly', 'rrcov',
  'stringr', 'tidyr', 'patchwork', 'RcppArmadillo'

Packages suggested but not available for checking:
  'rmarkdown', 'edgeR', 'DESeq2', 'scales', 'testthat',
  'trelliscopejs', 'pmartRdata', 'vdiffr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘Hmisc’

Packages suggested but not available for checking:
  'rmarkdown', 'ggplot2', 'rms'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'gmp', 'Rmpfr', 'SuppDists', 'kSamples', 'BWStest'

Packages suggested but not available for checking:
  'rmarkdown', 'car', 'e1071', 'NSM3'

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) PMCMR-deprecated.Rd:36: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) PMCMR-deprecated.Rd:37: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) PMCMR-deprecated.Rd:38: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) PMCMR-deprecated.Rd:39-40: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) PMCMR-deprecated.Rd:41: Lost braces in \itemize; \value handles \item{}{} directly
Packages required but not available:
  'dplyr', 'geiger', 'ggplot2', 'tidyr', 'phytools'

Packages suggested but not available for checking:
  'covr', 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'igraph', 'enviGCMS'

Packages suggested but not available for checking:
  'shiny', 'rmarkdown', 'MSnbase'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'lubridate', 'tidyr', 'stringr'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘FNN’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) pmledecon.Rd:113: Lost braces; missing escapes or markup?
   113 |     likelihood less than $10^{-10}$ are replaced by $10^{-10}$.
       |                              ^
checkRd: (-1) pmledecon.Rd:113: Lost braces; missing escapes or markup?
   113 |     likelihood less than $10^{-10}$ are replaced by $10^{-10}$.
       |                                                         ^
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘stringr’

Packages suggested but not available for checking:
  'amap', 'caret', 'forecast', 'gbm', 'glmnet', 'rattle', 'kernlab',
  'e1071', 'testthat', 'xgboost', 'rmarkdown', 'covr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'pmml'
Running examples in ‘pmmlTransformations-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: DiscretizeXform
> ### Title: Discretizes a continuous variable to a discrete one as indicated
> ###   by interval mappings. This is in accordance to the PMML element:
> ###   *Discretize*
> ### Aliases: DiscretizeXform
> ### Keywords: manip
> 
> ### ** Examples
> 
> # Load the pmmlTransformations package
>     library(pmmlTransformations)
>     library(pmml)
Error in library(pmml) : there is no package called ‘pmml’
Execution halted
Package required but not available: ‘xml2’

Packages suggested but not available for checking:
  'bigrquery', 'RMariaDB', 'RPostgres', 'RSQLite', 'testthat',
  'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) ahp.Rd:16: Lost braces; missing escapes or markup?
    16 | an ``A'' matrix. It should be a square matrix with diagonal values equal 1 and $a_{ij} = 1/a_{ij}$.
       |                                                                                   ^
checkRd: (-1) ahp.Rd:16: Lost braces; missing escapes or markup?
    16 | an ``A'' matrix. It should be a square matrix with diagonal values equal 1 and $a_{ij} = 1/a_{ij}$.
       |                                                                                              ^
Package suggested but not available for checking: ‘testthat’
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/0s]
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: ‘pROC’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'covr', 'rtdists', 'testthat', 'rmarkdown', 'V8'
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available:
  'shinyBS', 'bslib', 'dplyr', 'golem', 'htmltools', 'htmlwidgets',
  'rclipboard', 'readr', 'rhandsontable', 'shiny', 'shinyAce',
  'shinyFiles', 'tidyr'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'table1', 'htmltools'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'patchwork', 'ggplot2', 'xml2', 'dplyr', 'gghalves', 'ggdist',
  'scales', 'stringr', 'PKNCA', 'data.tree'

Packages suggested but not available for checking:
  'testthat', 'vdiffr', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'readr', 'readxl', 'survey'

Packages suggested but not available for checking:
  'convey', 'SIPDIBGE', 'srvyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'igraph', 'nloptr', 'Rfast', 'Rfast2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'readr', 'readxl', 'survey'

Packages suggested but not available for checking:
  'convey', 'SIPDIBGE', 'srvyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'readr', 'readxl', 'survey'

Packages suggested but not available for checking:
  'convey', 'SIPDIBGE', 'srvyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘ggplot2’
'LazyData' is specified without a 'data' directory
Packages required but not available: 'dplyr', 'nloptr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'usethis'

Packages suggested but not available for checking:
  'testthat', 'mockery', 'covr', 'httptest', 'rmarkdown', 'ggplot2'

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: 'Rcpp', 'ggplot2', 'dplyr'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'fuzzyjoin', 'readr', 'stringi', 'stringr', 'tidyr'

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
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'ggplot2', 'logistf', 'plyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'SmarterPoland'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'blastula', 'digest', 'dplyr', 'dbplyr', 'fs', 'gt', 'htmltools',
  'scales', 'testthat', 'tidyr'

Packages suggested but not available for checking:
  'arrow', 'bigrquery', 'covr', 'duckdb', 'ggforce', 'ggplot2',
  'lubridate', 'RSQLite', 'RPostgres', 'readr', 'rmarkdown',
  'sparklyr', 'dittodb', 'odbc'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'sf', 'inlabru', 'terra', 'ggplot2', 'raster', 'blockCV'

Packages suggested but not available for checking:
  'testthat', 'INLA', 'rasterVis', 'ggmap', 'ggpolypath', 'cowplot',
  'kableExtra', 'rmarkdown', 'spocc', 'covr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'car', 'ggplot2', 'lubridate'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'spelling'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'rARPACK', 'CompQuadForm'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'dplR', 'plyr', 'TripleR', 'DescTools'

Package suggested but not available for checking: ‘rmarkdown’

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.
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.
Package suggested but not available for checking: ‘testthat’
checkRd: (-1) pois.fe.robust.Rd:47: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pois.fe.robust.Rd:48: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pois.fe.robust.Rd:49: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pois.fe.robust.Rd:50-51: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pois.fe.robust.Rd:66: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) pois.fe.robust.Rd:67: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) pois.fe.robust.Rd:68-69: Lost braces in \itemize; \value handles \item{}{} directly
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘Rcpp’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Running examples in ‘poissonMT-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: glmrobMT
> ### Title: Robust Fitting of Poisson Generalized Linear Models using MT
> ###   robust method
> ### Aliases: glmrobMT
> ### Keywords: robust regression nonlinear
> 
> ### ** Examples
> 
>   data(epilepsy)  
>   Efit1 <- glm(Ysum ~ Age10 + Base4*Trt, family=poisson, data=epilepsy)
> 
>   x <- model.matrix( ~ Age10 + Base4*Trt, data=epilepsy)
>   poissonMTsetwd(tempdir())   
>   Efit2 <- glmrobMT(x=x, y=epilepsy$Ysum) 
Computing initial estimate
Floating point exception
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'Rcpp', 'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/PoissonPCA.Rcheck/00install.out’ for details.
Packages required but not available: 'parsnip', 'dplyr', 'tidyr'

Packages suggested but not available for checking:
  'covr', 'spelling', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘tidyr’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘shiny’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) carcinoma.Rd:8: Escaped LaTeX specials: \&
checkRd: (-1) poLCA.Rd:63: Escaped LaTeX specials: \&
checkRd: (-1) poLCA.Rd:69: Escaped LaTeX specials: \&
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'dplyr', 'ggplot2', 'reshape2'

Packages suggested but not available for checking:
  'testthat', 'devtools', 'rmarkdown', 'tidyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcpp', 'grf'

Packages suggested but not available for checking: 'testthat', 'DiagrammeR'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'tidyverse', 'car', 'gplots', 'rstatix',
  'stringr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Hmisc', 'weights', 'plyr', 'gplots', 'survey', 'car'

Package suggested but not available for checking: ‘rgl’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'automagic', 'digest', 'dplyr', 'DT', 'htmltools', 'lubridate',
  'rmarkdown', 'shiny', 'shinycssloaders', 'shinydashboard',
  'shinyFeedback', 'shinyjs', 'shinyWidgets', 'stringr', 'tidyr'

Packages suggested but not available for checking: 'plumber', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'tm', 'quanteda', 'ggplot2', 'spacyr', 'glmnet', 'stringr', 'stringi'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'memoise', 'robotstxt', 'rvest', 'usethis'

Packages suggested but not available for checking:
  'dplyr', 'testthat', 'covr', 'webmockr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'lubridate', 'dplyr'

Packages suggested but not available for checking:
  'covr', 'ggplot2', 'tidyr', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'SuperLearner', 'lava', 'future.apply', 'progressr', 'policytree',
  'targeted', 'DynTxRegime'

Packages suggested but not available for checking:
  'DTRlearn2', 'glmnet', 'xgboost', 'ranger', 'rmarkdown', 'testthat',
  'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'brms', 'repmis'

Packages suggested but not available for checking:
  'rstan', 'pollimetrydata'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'stringr', 'tidyr', 'labelled'

Packages suggested but not available for checking: 'ggplot2', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'fs', 'tm', 'DT', 'xml2', 'stringi', 'RcppCWB'

Packages suggested but not available for checking:
  'rmarkdown', 'htmltools', 'highlight', 'shiny', 'shinythemes',
  'shinyjs', 'miniUI', 'rhandsontable', 'testthat', 'tidytext', 'covr',
  'igraph', 'protolite'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking: 'rmarkdown', 'ggplot2'
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/polyclip.Rcheck/00install.out’ for details.
Skipping checking math rendering: package 'V8' unavailable
Skipping vignette re-building
Packages suggested but not available for checking:
  'spatstat.geom', 'sf', 'cubature', 'rmarkdown'

VignetteBuilder package required for checking but not installed: ‘rmarkdown’
Errors in running code in vignettes:
when running code in ‘polyCub.Rmd’
  ...
Error in loadVignetteBuilder(pkgdir) : 
  vignette builder 'rmarkdown' not found
Calls: <Anonymous> -> loadVignetteBuilder
Execution halted

... incomplete output.  Crash?

  ‘polyCub.Rmd’... failed to complete the test
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'dplyr', 'rvest', 'stringr', 'urltools'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'text2vec'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Packages required but not available:
  'gmp', 'ompr', 'qspray', 'spray', 'tessellation'

Package suggested but not available for checking: ‘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:
  'covr', 'testthat', 'spelling', 'sf'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'igraph', 'MDSMap'

Packages suggested but not available for checking:
  'ggplot2', 'Hmisc', 'reshape2', 'rmarkdown', 'polyRAD', 'updog',
  'mappoly'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/1s]
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: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Skipping checking math rendering: package 'V8' unavailable
checkRd: (-1) inputData.Rd:94: Lost braces
    94 | recommend using either \sQuote{code{.}} (a period) or
       |                                    ^
checkRd: (-1) inputData.Rd:95: Lost braces
    95 | \sQuote{code{_}} (an underscore) rather than a space.
       |             ^
checkRd: (-1) preprocessData.Rd:81: Lost braces
    81 | recommend using either \sQuote{code{.}} (a period) or
       |                                    ^
checkRd: (-1) preprocessData.Rd:82: Lost braces
    82 | \sQuote{code{_}} (an underscore) rather than a space.
       |             ^
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'lubridate', 'stringr'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

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:
  'testthat', 'rmarkdown', 'lme4'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Hmisc', 'Rcpp', 'reshape2', 'RcppArmadillo'

Packages suggested but not available for checking:
  'igraph', 'mappoly', 'polymapR', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'pcaMethods', 'Rcpp', 'stringi'

Packages suggested but not available for checking:
  'Rsamtools', 'VariantAnnotation', 'rmarkdown', 'GenomicFeatures',
  'ggplot2', 'adegenet'

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Package required but not available: ‘Rcpp’

Packages suggested but not available for checking:
  'ade4', 'adegenet', 'ape'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) calculateDIC.Rd:30-31: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculateDIC.Rd:32-33: Lost braces in \itemize; meant \describe ?
checkRd: (-1) polySegratioMM-package.Rd:70-72: Lost braces in \itemize; meant \describe ?
Found the following files/directories:
  ‘test-data.R’ ‘test-inits.R’ ‘test.bug’ ‘test.cmd’
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'miscTools', 'glmnet', 'Rcpp', 'stringr'

Package suggested but not available for checking: ‘rgl’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'dplyr', 'future', 'furrr', 'stringr', 'tidyr'

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: 'Rcpp', 'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'tidyr', 'ggplot2', 'stringr'

Packages suggested but not available for checking: 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcpp', 'igraph'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'Ternary', 'visNetwork', 'sarsop'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘pomdp’
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'caret', 'gbm', 'pROC', 'ipred'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ggplot2', 'reshape2', 'qgraph'

Packages suggested but not available for checking: 'rmarkdown', '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: 'bayesplot', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘digest’

Packages suggested but not available for checking:
  'ggplot2', 'dplyr', 'tidyr', 'nloptr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ape', 'phangorn', 'phylolm'

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', 'poolHelper', 'scrm'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'ggplot2', 'tidyr'
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages suggested but not available for checking:
  'testthat', 'covr', 'dplyr'
Running ‘testthat.R’ [0s/1s]
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', 'DiagrammeR', 'ape', 'Ryacas'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'MCMCpack', 'scrm'

Packages suggested but not available for checking:
  'rmarkdown', 'ggplot2', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'cubature', 'dplyr', 'dvmisc', 'ggplot2', 'ggrepel'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘later’

Packages suggested but not available for checking:
  'covr', 'dbplyr', 'dplyr', 'rmarkdown', 'RSQLite', 'shiny',
  'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.r’ [0s/0s]
Running the tests in ‘tests/testthat.r’ failed.
Complete output:
  > ### to also run skip_on_cran() tests, uncomment:
  > #Sys.setenv(NOT_CRAN="true")
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'dplyr', 'Rcpp', 'rstan', 'rstantools', 'brms', 'lme4', 'stringr',
  'RcppEigen', 'StanHeaders'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Hmisc', 'ranger'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'roxygen2'
Packages required but not available: 'R2jags', 'usethis'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Found export directive that requires package ‘methods’:
  ‘exportClasses’
Remove all such namespace directives (if obsolete) or ensure that the
DESCRIPTION Depends or Imports field contains ‘methods’.
checkRd: (-1) Kendall.Rd:12-13: Lost braces
    12 | \item{rates}{a}{matrix or dataframe with four columns: Rate identifier, Year,
       |                ^
checkRd: (-1) Kendall.Rd:15: Lost braces
    15 | \item{grades}{number}{of different levels of means and variances to try, default is 1000}
       |                      ^
checkRd: (-1) Kendall.Rd:17-18: Lost braces
    17 | \item{maxvar}{maximum}{variance to search over, default is 0.20. The maximum
       |                       ^
checkRd: (-1) Kendall.Rd:20: Lost braces
    20 | \item{minvar}{minimum}{variance to search, default is 0.00001}
       |                       ^
checkRd: (-1) Kendall.Rd:22: Lost braces
    22 | \item{maxmean}{maximum}{limit on the mean values to search, default 1}
       |                        ^
checkRd: (-1) Kendall.Rd:24: Lost braces
    24 | \item{minmean}{minimum}{limit on the mean values to search, default 0.01}
       |                        ^
checkRd: (-1) Kendall.Rd:73: Escaped LaTeX specials: \&
checkRd: (-1) countCDFxt.Rd:63: Escaped LaTeX specials: \&
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘MCMCpack’

Packages suggested but not available for checking: 'magick', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘magick’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ggplot2', 'dplyr', 'stringr'

Packages suggested but not available for checking:
  'testthat', 'Hmisc', 'GA', 'Rcpp', 'shiny', 'rhandsontable',
  'rmarkdown', 'covr', 'devtools', 'mrgsolve'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘Epi’

Packages suggested but not available for checking:
  'covr', 'relsurv', 'rmarkdown', 'roxygen2', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'adegenet', 'dartR', 'dplyr', 'ggplot2', 'gstat', 'hierfstat',
  'poppr', 'raster', 'reshape2', 'scatterpie', 'StAMPP', 'spdep',
  'vcfR'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'adegenet', 'gap', 'plyr', 'dismo', 'reshape2', 'ggplot2', 'ade4',
  'pegas', 'gdistance', 'mmod', 'GGally', 'raster'

Package suggested but not available for checking: ‘sf’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘ape’

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'bnpsd'

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:
  'adegenet', 'ggplot2', 'ape', 'igraph', 'ade4', 'pegas', 'polysat',
  'dplyr', 'shiny', 'progressr'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'cowplot'

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.
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.
Packages suggested but not available for checking: 'ggplot2', 'reshape'
Note: skipping ‘burkina-faso-females.Rnw’ due to unavailable dependencies:
  'reshape', 'ggplot2'
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'ggplot2', 'lubridate', 'dplyr', 'tidyr', 'demography', 'forecast',
  'ggpubr', 'DescTools', 'rcompanion', 'corrr', 'Hmisc', 'stringr',
  'scales', 'rainbow'

Package suggested but not available for checking: ‘testthat’

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:
  'devtools', 'ggplot2', 'plyr', 'roxygen2', 'shiny', 'shinycssloaders'

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', 'usethis', 'osmdata', 'dplyr', 'units'

Packages suggested but not available for checking:
  'rmarkdown', 'areal', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘qtl’

Package suggested but not available for checking: ‘rmarkdown’

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:
  'rags2ridges', 'ragt2ridges'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Packages required but not available:
  'dplyr', 'forecast', 'timetk', 'lubridate'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'forecast', 'lubridate', 'tidyr'

Packages suggested but not available for checking:
  'covr', 'cowplot', 'ggplot2', 'httptest', 'pkgdown', 'rmarkdown',
  'testthat'

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 suggested but not available for checking:
  'Rglpk', 'ROI.plugin.glpk', 'ROI.plugin.symphony', 'GenSA',
  'testthat', 'nloptr'
Running examples in ‘PortfolioAnalytics-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: meucci.ranking
> ### Title: Asset Ranking
> ### Aliases: meucci.ranking
> 
> ### ** Examples
> 
> data(edhec)
> R <- edhec[,1:4]
> p <- rep(1 / nrow(R), nrow(R))
> meucci.ranking(R, p, c(2, 3, 1, 4))
Error in EntropyProg(p, A, b, Aeq, beq) : 
  "package:nloptr" %in% search() || requireNamespace("nloptr",  .... is not TRUE
Calls: meucci.ranking -> EntropyProg -> stopifnot
Execution halted
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'digest', 'ggplot2'

Packages suggested but not available for checking:
  'CVXR', 'DT', 'ggfortify', 'prettydoc', 'readtext', 'rmarkdown',
  'R.rsp', 'scales', 'stringi', 'testthat'

VignetteBuilder packages required for checking but not installed:
  'rmarkdown', 'R.rsp'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘modopt.matlab’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘Rsymphony’

Packages suggested but not available for checking: 'Rglpk', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) tradelist-class.Rd:91: Escaped LaTeX specials: \$
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'MCMCpack', 'copula'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'dtplyr', 'future.apply', 'Rcpp', 'rugarch', 'rvinecopulib',
  'tidyr', 'kde1d', 'RcppEigen', 'RcppThread', 'wdm'

Packages suggested but not available for checking:
  'covr', 'future', 'ggplot2', 'ggtext', 'patchwork', 'rmarkdown',
  'scales', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcpp', 'igraph'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘rxode2’

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'ggplot2', 'tidyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'faux'
Running ‘testthat.R’ [0s/0s]
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: ‘rmarkdown’

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', 'rmarkdown', 'testthat', 'covr'
Running ‘testthat.R’ [0s/0s]
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: 'katex', 'prismjs', 'xml2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'pagedown', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘e1071’

Packages suggested but not available for checking:
  'covr', 'dplyr', 'ggplot2', 'lintr', 'RcppEigen', 'RcppParallel',
  'rmarkdown', 'roxygen2', 'rstan', 'testthat'

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘distributional’

Packages suggested but not available for checking:
  'testthat', 'caret', 'gbm', 'e1071', 'dplyr', 'tidyr', 'ggplot2',
  'ggdist', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'refund', 'dplyr', 'tidyr', 'cosinor', 'cosinor2', 'accelerometry',
  'ActCR', 'ActFrag', 'kableExtra', 'GGIR'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘igraph’

Packages suggested but not available for checking:
  'lme4', 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'crul', 'rvest', 'xml2'

Packages suggested but not available for checking: 'testthat', 'covr'

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’ [0s/0s]
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: 'CompQuadForm', 'ape'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'stringr', 'mcmcse'

Packages suggested but not available for checking:
  'rmarkdown', 'rstan', 'R2jags', 'nimble', 'rjags', 'jagsUI'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'sf', 'mapiso'

Packages suggested but not available for checking:
  'covr', 'lwgeom', 'eurostat', 'giscoR', 'mapsf', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'lobstr', 'stringi'

Packages suggested but not available for checking:
  'pkgload', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘miscF’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'haplo.stats', 'gap', 'ggplot2', 'reshape2', 'BIGDAWG'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'ape', 'ggplot2', 'lamW', 'adaptMCMC'

Packages suggested but not available for checking:
  'testthat', 'usethis', 'Rmpfr', 'rmarkdown'

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'openxlsx', 'reshape2', 'stringr', 'HLMdiag', 'readODS',
  'saeRobust', 'spdep', 'bestNormalize', 'survey', 'sf'

Packages suggested but not available for checking:
  'testthat', 'R.rsp', 'simFrame'

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: ‘broom’

Packages suggested but not available for checking: 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'plyr', 'reshape', 'plotly', 'ggplot2', 'ggpubr', 'shiny', 'DT',
  'shinyWidgets', 'tidyr', 'FactoMineR', 'factoextra', 'rxylib'

Packages suggested but not available for checking: 'rmarkdown', 'bookdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'PowerTOST', 'cubature'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘spelling’
Packages required but not available:
  'lme4', 'reshape2', 'stringr', 'plyr', 'ggplot2'

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
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘CoopGame’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'tidyr'

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: ‘covr’
checkRd: (-1) equal.ordered.Rd:27: Lost braces; missing escapes or markup?
    27 | A vector of values for one in {kappa, N, power} that is not supplied by the user.
       |                               ^
checkRd: (-1) equal.ordered.cov.Rd:33: Lost braces; missing escapes or markup?
    33 | A vector of values for one in {kappa, N, power} that is not supplied by the user.
       |                               ^
checkRd: (-1) equal.unordered.Rd:27: Lost braces; missing escapes or markup?
    27 | A vector of values for one in {kappa, N, power} that is not supplied by the user.
       |                               ^
checkRd: (-1) equal.unordered.cov.Rd:33: Lost braces; missing escapes or markup?
    33 | A vector of values for one in {kappa, N, power} that is not supplied by the user.
       |                               ^
checkRd: (-1) unequal.ordered.Rd:30: Lost braces; missing escapes or markup?
    30 | A vector of values for one in {kappa, N, power} that is not supplied by the user.
       |                               ^
checkRd: (-1) unequal.ordered.cov.Rd:36: Lost braces; missing escapes or markup?
    36 | A vector of values for one in {kappa, N, power} that is not supplied by the user.
       |                               ^
checkRd: (-1) unequal.unordered.Rd:30: Lost braces; missing escapes or markup?
    30 | A vector of values for one in {kappa, N, power} that is not supplied by the user.
       |                               ^
checkRd: (-1) unequal.unordered.cov.Rd:36: Lost braces; missing escapes or markup?
    36 | A vector of values for one in {kappa, N, power} that is not supplied by the user.
       |                               ^
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking: 'covr', 'testthat'
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available:
  'splines2', 'osqp', 'bootnet', 'qgraph', 'ggplot2', 'patchwork'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'lubridate', 'nasapower'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'vcr', 'vdiffr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘cubature’

Packages suggested but not available for checking: 'rmarkdown', 'tufte'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
checkRd: (-1) bira2.Rd:91: Escaped LaTeX specials: \&
checkRd: (-1) bira2.Rd:144: Escaped LaTeX specials: \&
checkRd: (-1) bira2.Rd:146: Escaped LaTeX specials: \&
checkRd: (-1) bira2.Rd:148: Escaped LaTeX specials: \&
checkRd: (-1) bira2.Rd:150: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:126: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:219: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:221: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:223: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:225: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:227: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:229: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:231: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:233: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:235: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:237: Escaped LaTeX specials: \&
checkRd: (-1) cra3.Rd:301: Escaped LaTeX specials: \&
checkRd: (-1) cra3.Rd:303: Escaped LaTeX specials: \&
checkRd: (-1) cra3.Rd:305: Escaped LaTeX specials: \&
checkRd: (-1) cra3.Rd:307: Escaped LaTeX specials: \&
checkRd: (-1) cra3.Rd:309: Escaped LaTeX specials: \&
checkRd: (-1) med_pn.Rd:129: Escaped LaTeX specials: \&
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'dplyr', 'furrr', 'future', 'ggplot2', 'progressr'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘rARPACK’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘inaparc’

Packages suggested but not available for checking:
  'factoextra', 'fclust', 'rmarkdown'

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'htmltools', 'htmlwidgets', 'leaflet',
  'PakPC2017', 'scales', 'shiny', 'tidyr', 'tmap'

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:
  'testthat', 'rmarkdown', 'covr'
Running ‘testthat.R’ [0s/1s]
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: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
  > # * https://testthat.r-lib.org/articles/special-files.html
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'Rcpp', 'plyr', 'dplyr', 'tidyr', 'RcppArmadillo'

Packages suggested but not available for checking:
  'GGally', 'ggplot2', 'roxygen2', 'PPtreeViz', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘evgam’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'GA', 'ggplot2', 'RcppArmadillo'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘tidyr’

Packages suggested but not available for checking:
  'testthat', 'covr', 'spelling', 'stringr', 'readxl'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'genlasso', 'ggplot2', 'cvCovEst', 'glmnet'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'censable', 'dplyr', 'readr', 'stringr', 'tidyr'

Package suggested but not available for checking: ‘roxygen2’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘copula’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'spatstat', 'plyr', 'spatstat.explore', 'spatstat.model',
  'spatstat.geom'

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.
checkRd: (-1) ccp_ppm.Rd:26: Lost braces; missing escapes or markup?
    26 | \item{model}{Determines of model fit is such that there are p_{it}s (model=1) or
       |                                                               ^
checkRd: (-1) curve_ppmx.Rd:145: Lost braces; missing escapes or markup?
   145 | \item sig2 - a matrix of dimension (T, N) containing MCMC iterates associated with each subjects variance parameter (sigma2*_{c_i})
       |                                                                                                                              ^
checkRd: (-1) gaussian_ppmx.Rd:143: Lost braces; missing escapes or markup?
   143 | \item mu - a matrix  of dimension (T, N) containing MCMC iterates associated with each subjects mean parameter (mu*_{c_i}).
       |                                                                                                                     ^
checkRd: (-1) gaussian_ppmx.Rd:145: Lost braces; missing escapes or markup?
   145 | \item sig2 - a matrix of dimension (T, N) containing MCMC iterates associated with each subjects variance parameter (sigma2*_{c_i})
       |                                                                                                                              ^
checkRd: (-1) ordinal_ppmx.Rd:145: Lost braces; missing escapes or markup?
   145 | \item mu - a matrix  of dimension (T, N) containing MCMC iterates associated with each subjects mean parameter (mu*_{c_i}).
       |                                                                                                                     ^
checkRd: (-1) ordinal_ppmx.Rd:147: Lost braces; missing escapes or markup?
   147 | \item sig2 - a matrix of dimension (T, N) containing MCMC iterates associated with each sujbects variance parameter (sigma2*_{c_i})
       |                                                                                                                              ^
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'ggplot2', 'plotly'

Packages suggested but not available for checking: 'rmarkdown', 'devtools'

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', 'roxygen2', 'prettydoc', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'roxygen2', 'cubature'
Running ‘tinytest.R’ [0s/1s]
Running the tests in ‘tests/tinytest.R’ failed.
Complete output:
  > if (requireNamespace("tinytest", quietly = TRUE)) {
  +   tinytest::test_package("ppRep")
  + }
  
  test-estimation.R.............    0 tests    
  test-estimation.R.............    0 tests    Error in library(cubature) : there is no package called 'cubature'
  Calls: <Anonymous> ... run_test_dir -> lapply -> FUN -> eval -> eval -> library
  Execution halted
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘Rcpp’

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.
Packages required but not available:
  'dplyr', 'furrr', 'ggplot2', 'plotly', 'patchwork', 'tidyr'

Packages suggested but not available for checking:
  'covr', 'gt', 'rmarkdown', 'spelling', 'testthat', 'vdiffr'

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: 'ggplot2', 'parsnip'

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: ‘rmarkdown’
Packages required but not available:
  'Rcpp', 'DALEX', 'shapr', 'ggplot2', 'dplyr', 'tidyr', 'PPtreeViz',
  'reshape2', 'RcppArmadillo'

Packages suggested but not available for checking:
  'testthat', 'ggExtra', 'ggparty', 'ggforce', 'waterfalls',
  'rmarkdown', 'covr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ggplot2', 'Rcpp', 'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'reshape2', 'plyr', 'shiny'

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', 'glmnet', 'RcppArmadillo'

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 suggested but not available for checking: 'spdep', 'spatialreg'
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘fs’

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'Temporal', 'tidyr'

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.
Packages required but not available:
  'np', 'generalCorr', 'ShapleyValue', 'NNS'

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', 'geosphere', 'ggplot2', 'usmap'

Packages suggested but not available for checking:
  'doBy', 'plyr', 'Rcpp', 'reshape', 'roxygen2', 'samplingbook',
  'survey', 'rmarkdown'

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’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available: 'dnapath', 'dplyr', 'minet'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available:
  'Rcpp', 'ggplot2', 'memoise', 'ROCR', 'precrec'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'vdiffr', 'patchwork'

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', 'tidyr', 'ggplot2'

Packages suggested but not available for checking: 'rmarkdown', 'devtools'

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', 'devtools', 'ggplot2', 'rmarkdown', 'roxygen2', 'testthat',
  'tidyverse'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'GiRaF', 'Seurat', 'cowplot', 'patchwork', 'scater', 'ggthemes',
  'dplyr', 'ggplot2', 'DR.SC', 'scales', 'ggpubr', 'Rcpp',
  'RcppArmadillo'

Package suggested but not available for checking: ‘rmarkdown’

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:
  'ggplot2', 'ggpubr', 'lubridate', 'openair', 'raster', 'scales', 'sf'

Packages suggested but not available for checking:
  'kableExtra', 'rmarkdown', 'spelling', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'shiny', 'shinycssloaders', 'shinythemes',
  'tidyr'

Packages suggested but not available for checking:
  'covr', 'ggrepel', 'rmarkdown', 'spelling', 'testthat', 'vdiffr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'testthat', 'rmarkdown'
Running ‘testthat.R’ [0s/1s]
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’ [0s/1s]
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', 'gbm', 'ggplot2', 'glmnet', 'MESS', 'stringr', 'tidyr',
  'randomForestSRC'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'fs', 'R.cache'

Packages suggested but not available for checking:
  'lintr', 'mockery', 'pkgload', 'pkgdown', 'reticulate', 'rmarkdown',
  'roxygen2', 'spelling', 'styler', 'testthat', 'usethis'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'spelling', 'testthat'
checkRd: (-1) diagnose_expressions.Rd:39: Lost braces
    39 | \item wrapping a function argument in two curly braces (e.g. `{{arg}} > 0) means
       |                                                               ^
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'Rcpp', 'ggplot2'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'vdiffr', 'patchwork'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Peptides', 'kernlab', 'e1071'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘caret’
Packages required but not available:
  'shiny', 'DT', 'predhy', 'glmnet', 'xgboost', 'htmltools'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'glmnet', 'xgboost'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'rgl', 'dplyr', 'ggiraphExtra', 'modelr', 'stringr',
  'reshape2', 'plyr', 'tidyr'

Packages suggested but not available for checking: 'moonBook', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Hmisc', 'ROCR'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ggplot2', 'MBESS'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’

Packages which this enhances but not available for checking:
  'AER', 'caret', 'crch', 'e1071', 'ff', 'ffbase', 'glmnet', 'kernlab',
  'lme4', 'mlogit', 'plm', 'sampleSelection', 'survey', 'truncreg'
Unknown package ‘ffbase’ in Rd xrefs
Running ‘testthat-prediction.R’ [0s/0s]
Running the tests in ‘tests/testthat-prediction.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: ‘tolerance’
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'glmmTMB', 'lme4', 'lmerTest', 'car', 'ggplot2', 'pbkrtest',
  'plotly', 'plyr', 'splines2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ggplot2', 'reshape2'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'cutpointr', 'dplyr', 'ggplot2', 'scales', 'tidyr'

Packages suggested but not available for checking:
  'spelling', 'covr', 'flextable', 'rmarkdown', 'testthat', 'vdiffr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'DT', 'dplyr', 'shiny', 'golem', 'loadeR', 'glmnet', 'traineR',
  'shinyjs', 'xgboost', 'shinyAce', 'echarts4r', 'htmltools',
  'colourpicker', 'shinydashboard', 'shinycustomloader',
  'shinydashboardPlus'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘dplyr’

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'covr', 'spelling'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘terra’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Hmisc', 'ggplot2', 'Matching'

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', 'lme4'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'maxLik', 'e1071', 'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'plyr', 'ggplot2', 'caret', 'e1071'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available: 'pROC', 'ggplot2', 'ggpubr'

Packages suggested but not available for checking:
  'covr', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcpp', 'pROC', 'ggplot2', 'dplyr'

Packages suggested but not available for checking: 'rmarkdown', 'spelling'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'caret', 'forecast', 'TSPred'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘pkgdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ggplot2', 'tidyr'

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: 'testthat', 'rmarkdown'
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available: 'dplyr', 'tidyr'

Packages suggested but not available for checking: 'covr', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'ggplot2', 'spdep', 'sf', 'RcppEigen'

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', 'ggplot2'
Running examples in ‘prenoms-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: prenoms
> ### Title: Names of babies in Quebec Between 1980 and 2020
> ### Aliases: prenoms
> ### Keywords: datasets
> 
> ### ** Examples
> 
>   library(dplyr)
Error in library(dplyr) : there is no package called ‘dplyr’
Execution halted
Packages required but not available: 'dplyr', 'reshape2'

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:
  'bookdown', 'rmarkdown', 'ggplot2'
Package required but not available: ‘ggplot2’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'tm', 'RecordLinkage', 'stringr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'shiny', 'rmarkdown', 'psycho', 'dplyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
'LazyData' is specified without a 'data' directory
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'glmnet', 'stringr'

Packages suggested but not available for checking:
  'interp', 'glmertree', 'testthat', 'ggplot2', 'caret', 'pROC',
  'rmarkdown', 'mice'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘rmarkdown’

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘rmdpartials’

Packages suggested but not available for checking:
  'googlesheets4', 'haven', 'justifier', 'openxlsx', 'readxl', 'rvest',
  'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘marelac’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'flextable', 'dplyr', 'stringr', 'officer', 'randomcoloR', 'tidyr',
  'openxlsx', 'lubridate', 'janitor', 'stringi', 'rvg', 'formattable',
  'framecleaner'

Packages suggested but not available for checking:
  'rmarkdown', 'ggplot2', 'badger'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'testthat', 'covr', 'rmarkdown'
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Package required but not available: ‘rms’

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘shiny’

Packages suggested but not available for checking:
  'dplyr', 'ggplot2', 'gt', 'Hmisc', 'rmarkdown', 'shinydashboard',
  'shinytest', 'testthat', 'tidyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ggplot2', 'reticulate'

Packages suggested but not available for checking:
  'rmarkdown', 'R.rsp', 'qpdf'

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', 'gdistance', 'ggmap', 'ggplot2', 'magick', 'raster',
  'readxl', 'scales', 'sf', 'stringr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'chromote', 'shiny', 'xml2'

Packages suggested but not available for checking:
  'miniUI', 'shinyAce', 'shinythemes', 'testthat', 'V8'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'covr', 'lintr', 'rmarkdown', 'testthat', 'vdiffr'
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/0s]
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', 'mockery', 'testthat'
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/0s]
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: ‘ggplot2’

Packages suggested but not available for checking:
  'covr', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘rmarkdown’

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'broom', 'car', 'dplyr', 'kableExtra', 'plotly', 'stringr',
  'tidycat', 'tidyr', 'vip'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'digest', 'rjson', 'plyr'

Packages suggested but not available for checking:
  'maptools', 'raster', 'rosm', 'rgdal'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Found the following files/directories:
  ‘hista.png’ ‘plotcd.png’ ‘test.R’ ‘test.html’ ‘testR2html.R’
  ‘testglm.csv’ ‘testglm.html’ ‘testglm.tab’
Packages suggested but not available for checking: 'covr', 'testthat'
Running ‘testthat.R’ [0s/0s]
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: ‘rjags’

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’ [0s/1s]
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: ‘plotly’

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', 'raster', 'lme4'

Packages suggested but not available for checking:
  'R.rsp', 'INLA', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'gstat', 'fields', 'sf', 'stars'

Packages suggested but not available for checking:
  'rmarkdown', 'spelling', 'terra'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘dplyr’

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'ggplot2', 'tidyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ggplot2', 'reshape2', 'dplyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'lubridate', 'dplyr', 'ggplot2', 'reshape', 'reclin2', 'stringr',
  'xgboost', 'caret', 'strex'

Packages suggested but not available for checking: 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'stringr', 'lubridate', 'stringi', '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: 'survey', 'ggplot2'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

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 suggested but not available for checking: 'testthat', 'covr'
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'ggplot2', 'tidyr'

Packages suggested but not available for checking:
  'bipartite', 'cowplot', 'DiagrammeR', 'DiagrammeRsvg', 'igraph',
  'reshape2', 'rARPACK'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ape', 'ggplot2', 'lubridate', 'plyr', 'reshape2', 'scales',
  'stringr'

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: ‘Rcpp’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘scales’

Package suggested but not available for checking: ‘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: 'devtools', 'testthat'

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.
Package suggested but not available for checking: ‘rmarkdown’
Package required but not available: ‘PMA’

Packages suggested but not available for checking: 'testthat', 'AER'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'AnnotationDbi', 'org.Hs.eg.db'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'spelling', 'testthat', 'rmarkdown'
checkRd: (-1) findbeta.Rd:20: Lost braces; missing escapes or markup?
    20 | \item{lower.v}{logical, if TRUE the specified percentile.value is the upper limit for the mean (or the median or the mode) at the specified confidence level (percentile). If {FALSE} the specified percentile.value is the lower limit for the mean (or the median or the mode) at the specified confidence level (percentile). The default is FALSE.}
       |                                                                                                                                                                               ^
Running ‘spelling.R’ [0s/1s]
  Running ‘testthat.R’ [0s/1s]
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', 'dplyr', 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'gurobi', 'roxygen2', 'rcbc', 'Rsymphony', 'rmarkdown', 'testthat',
  'raster', 'tmap', 'viridis', 'readr', 'reshape2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'terra', 'sf'

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:
  'sf', 'terra', 'raster', 'igraph', 'ape', 'exactextractr', 'Rcpp',
  'RcppArmadillo'

Packages suggested but not available for checking:
  'testthat', 'scales', 'gurobi', 'rcbc', 'cplexAPI', 'lpsymphony',
  'Rsymphony', 'highs', 'rmarkdown', 'prioritizrdata', 'fields'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘glmnet’

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'pROC', 'bookdown', 'ipflasso'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'DiagrammeR', 'DiagrammeRsvg', 'htmltools', 'htmlwidgets', 'scales',
  'shiny', 'shinyjs', 'stringr', 'xml2', 'DT', 'rio'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'DiagrammeR'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'covr', 'flextable'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'gplots', 'ggplot2'

Package suggested but not available for checking: ‘tm’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘DiagrammeR’

Packages suggested but not available for checking:
  'DiagrammeRsvg', 'rmarkdown', 'scales', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘farver’

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: ‘glmnet’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'V8', 'xml2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'raster', 'dplyr', 'stringr', 'readr'

Packages suggested but not available for checking:
  'covr', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'sf', 'dplyr', 'rnaturalearth', 'rvest', 'stringr', 'tidyr', 'xml2'

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
Skipping checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'ggplot2', 'ggnewscale', 'ggtext', 'dplyr', 'Hmisc', 'ggpattern',
  'DescTools'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'butcher', 'dplyr', 'furrr', 'ggplot2', 'tidyr', 'tune', 'workflows',
  'yardstick'

Packages suggested but not available for checking:
  'covr', 'modeldata', 'parsnip', 'recipes', 'rmarkdown', 'rsample',
  'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ggplot2', 'shiny'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ggplot2', 'rstan'

Packages suggested but not available for checking: 'plotly', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcpp', 'glmnet', 'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'RANN', 'Rcpp', 'RcppEigen'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘FNN’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'shiny', 'rmarkdown', 'shinyMatrix', 'rpivotTable'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
'LazyData' is specified without a 'data' directory
Packages required but not available: 'Rcpp', 'keras'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'testthat', 'covr'
Running ‘testthat.R’ [0s/0s]
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:
  'bupaR', 'processmapR', 'dplyr', 'tidyr', 'htmlwidgets',
  'DiagrammeR', 'stringr', 'htmltools'

Packages suggested but not available for checking:
  'edeaR', 'testthat', 'rmarkdown', 'shiny', 'lubridate'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'bupaR', 'edeaR', 'stringr', 'stringi', 'tidyr'

Packages suggested but not available for checking:
  'rmarkdown', 'covr', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'bupaR', 'edeaR', 'DiagrammeR', 'ggplot2', 'stringr',
  'shiny', 'miniUI', 'plotly', 'scales', 'tidyr', 'htmltools', 'Rcpp'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'DiagrammeRsvg', 'covr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'dplyr', 'bupaR', 'edeaR', 'shiny', 'miniUI'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'bupaR', 'edeaR', 'dplyr', 'reticulate', 'tidyr', 'stringr', 'keras',
  'tensorflow', 'ggplot2', 'plotly'

Packages suggested but not available for checking: 'rmarkdown', 'lubridate'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'covr', 'testthat'
Running ‘testthat.R’ [0s/0s]
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', 'testthat'
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/procmaps.Rcheck/00install.out’ for details.
Packages suggested but not available for checking:
  'rmarkdown', 'roxygen2', 'testthat', 'ade4'
Packages required but not available: 'plyr', 'Rcpp'

Packages suggested but not available for checking:
  'logcondens', 'testthat', 'vdiffr', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'fmtr', 'reporter'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'covr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'AER'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'fs', 'rmarkdown'

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', 'lava'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) paasche.Rd:91: Lost braces
    91 |     \code{OSME} \tab Output-oriented scale-mix efficiency score \emph{(code{orientation = "out"})}\cr
       |                                                                            ^
Packages required but not available: 'plyr', 'ggplot2'

Packages suggested but not available for checking:
  'reshape2', 'testthat', 'covr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'AnnotationDbi', 'DR.SC', 'PRECAST', 'biomaRt',
  'org.Hs.eg.db', 'org.Mm.eg.db', 'Seurat', 'harmony', 'RcppArmadillo'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'KrigInv', 'pGPx', 'lhs'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘RProtoBuf’

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) plot.profileModel.Rd:69: Escaped LaTeX specials: \&
checkRd: (-1) profileModel.Rd:277: Escaped LaTeX specials: \&
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking:
  'covr', 'dm', 'DiagrammeR', 'DiagrammeRsvg', 'RProtoBuf', 'testthat'
Running ‘testthat.R’ [0s/1s]
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', 'reshape'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘ggplot2’

Packages suggested but not available for checking:
  'tidyverse', 'qpdf', 'scales', 'dplyr', 'rmarkdown', 'ggalluvial',
  'ggrepel', 'testthat'

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’
Package has ‘vignettes’ subdirectory but apparently no vignettes.
Perhaps the ‘VignetteBuilder’ information is missing from the
DESCRIPTION file?
Packages required but not available:
  'Rcpp', 'ggplot2', 'RcppArmadillo', 'splines2'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'dplyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'sqldf', 'RSQLite'

Packages suggested but not available for checking:
  'rmarkdown', 'R.rsp', 'testthat', 'BayesianTools'

VignetteBuilder package required for checking but not installed: ‘R.rsp’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
  > # * https://testthat.r-lib.org/articles/special-files.html
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'plyr', 'stringr'

Package suggested but not available for checking: ‘ggplot2’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) proftools-package.Rd:40: Lost braces
    40 |   by the code{kcachegrind} program available on some operating
       |              ^
Packages required but not available: 'htmlwidgets', 'stringr'

Packages suggested but not available for checking:
  'ggplot2', 'rmarkdown', 'testthat', 'devtools', 'shiny', 'htmltools'

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 suggested but not available for checking: 'Rcpp', 'testthat'
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
  > # * https://testthat.r-lib.org/articles/special-files.html
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package required but not available: ‘digest’

Packages suggested but not available for checking:
  'beepr', 'plyr', 'doFuture', 'future', 'future.apply', 'furrr',
  'shiny'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'ggplot2', 'geometry', 'GeneralizedUmatrix', 'shiny',
  'shinyjs', 'shinythemes', 'plotly'

Packages suggested but not available for checking:
  'DataVisualizations', 'pcaPP', 'spdep', 'fields', 'reshape2',
  'Rtsne', 'dendextend', 'umap', 'uwot', 'DatabionicSwarm',
  'parallelDist'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'incidence', 'ggplot2'

Packages suggested but not available for checking:
  'testthat', 'roxygen2', 'rmarkdown', 'svglite', 'EpiEstim'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'plotly', 'kappalab', 'igraph'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'fs', 'lubridate', 'readr', '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: ‘digest’

Packages suggested but not available for checking:
  'feather', 'reshape', 'plyr', 'qs', 'stringr', 'ggplot2',
  'lubridate', 'RSQLite', 'readxl', 'GetoptLong', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'dplyr', 'ggplot2', 'reprex', 'rmarkdown', 'testthat', 'tidyr',
  'htmltools', 'covr'
Running ‘testthat.R’ [0s/0s]
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', 'ggplot2', 'scales', 'rstantools', 'lme4', 'gamm4',
  'RcppArmadillo'

Packages suggested but not available for checking:
  'ggrepel', 'rstanarm', 'brms', 'optimx', 'doRNG', 'testthat',
  'vdiffr', 'rmarkdown', 'glmnet', 'cmdstanr', 'bayesplot',
  'posterior', 'future', 'future.callr', 'doFuture'

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'testthat', 'spelling', 'rmarkdown'
Running ‘spelling.R’ [0s/1s]
  Running ‘testthat.R’ [0s/1s]
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: ‘rmarkdown’
Packages suggested but not available for checking:
  'htmltools', 'reactable', 'rmarkdown'
checkRd: (-1) prolific_prescreener.Rd:254: Lost braces in \itemize; meant \describe ?
checkRd: (-1) prolific_prescreener.Rd:255: Lost braces in \itemize; meant \describe ?
checkRd: (-1) prolific_study.Rd:95: Lost braces in \itemize; meant \describe ?
checkRd: (-1) prolific_study.Rd:96: Lost braces in \itemize; meant \describe ?
checkRd: (-1) prolific_study.Rd:97: Lost braces in \itemize; meant \describe ?
checkRd: (-1) prolific_study.Rd:109: Lost braces in \itemize; meant \describe ?
checkRd: (-1) prolific_study.Rd:110: Lost braces in \itemize; meant \describe ?
checkRd: (-1) prolific_study.Rd:149: Lost braces in \itemize; meant \describe ?
checkRd: (-1) prolific_study.Rd:150: Lost braces in \itemize; meant \describe ?
checkRd: (-1) prolific_study.Rd:151: Lost braces in \itemize; meant \describe ?
checkRd: (-1) prolific_study.Rd:243: Lost braces in \itemize; meant \describe ?
checkRd: (-1) prolific_study.Rd:244: Lost braces in \itemize; meant \describe ?
Note: skipping ‘prolificapi-package.Rmd’ due to unavailable dependencies:
  'htmltools'
Package required but not available: ‘MCMCpack’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'RcppParallel', 'rstan', 'rstantools', 'RcppEigen',
  'StanHeaders'

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.
Skipping vignette re-building
Package suggested but not available for checking: ‘R.rsp’

VignetteBuilder package required for checking but not installed: ‘R.rsp’
Package has ‘vignettes’ subdirectory but apparently no vignettes.
Perhaps the ‘VignetteBuilder’ information is missing from the
DESCRIPTION file?
Package required but not available: ‘ggplot2’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'fastmap', 'later', 'Rcpp'

Packages suggested but not available for checking:
  'future', 'rmarkdown', 'spelling', 'testthat', 'vembedr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'reshape2', 'ggplot2', 'ggrepel', 'pcaMethods', 'VIM', 'missForest',
  'caret', 'kernlab', 'xgboost', 'viridis', 'pROC'

Packages suggested but not available for checking:
  'covr', 'rmarkdown', 'testthat'

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:
  'Rcpp', 'dplyr', 'ggplot2', 'scales', 'ggpubr', 'reshape2',
  'stringr', 'prophet'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘shiny’

Packages suggested but not available for checking: 'testthat', 'spelling'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'mockery', 'pkgload', 'testthat'
Running ‘testthat.R’ [0s/0s]
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: ‘urltools’

Packages suggested but not available for checking: 'httptest', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcpp', 'ff'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘fastcluster’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'dplyr', 'dygraphs', 'extraDistr', 'ggplot2', 'lubridate',
  'RcppParallel', 'rstan', 'rstantools', 'scales', 'StanHeaders',
  'tidyr', 'RcppEigen'

Packages suggested but not available for checking:
  'testthat', 'readr', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'stringr'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'stringr', 'lubridate'

Packages suggested but not available for checking: 'testthat', 'httptest'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘cin’
Package required but not available: ‘car’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'covr'
Running ‘testthat.R’ [0s/1s]
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', 'rmarkdown', 'covr'
Running ‘testthat.R’ [0s/1s]
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', 'mirt', 'mvnfast', 'TestDesign', 'RcppArmadillo'

Packages suggested but not available for checking:
  'shiny', 'shinythemes', 'shinyWidgets', 'shinyjs', 'DT',
  'kableExtra', 'testthat', 'rmarkdown', 'dplyr', 'pkgdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘glmnet’

Package suggested but not available for checking: ‘rmarkdown’

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:
  'rmarkdown', 'testthat', 'bookdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) struc_addSimData.Rd:15: Lost braces
    15 | \item{value}{code{data.frame} or code{data.table}}
       |                  ^
checkRd: (-1) struc_addSimData.Rd:15: Lost braces
    15 | \item{value}{code{data.frame} or code{data.table}}
       |                                      ^
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'ggplot2', 'dplyr'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'pryr', 'magick', 'dplyr', 'ggplot2', 'rjson', 'shiny'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'tidyr', 'extraDistr'

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', 'ggthemes', 'readr', 'stringr', 'lubridate', 'narray',
  'imputeTS', 'scales', 'torch', 'dplyr', 'greybox', 'furrr', 'future'

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:
  'covr', 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘Rcpp’

Packages suggested but not available for checking:
  'spelling', 'testthat', 'sf'

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 suggested but not available for checking: 'testthat', 'covr'
Running ‘testthat.R’ [0s/0s]
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:
  'DT', 'rare', 'shiny', 'shinycssloaders', 'shinythemes'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'intervals', 'glmnet', 'Rcpp', 'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) read.sample.Rd:37: Lost braces; missing escapes or markup?
    37 | \code{2*0xffff} = {131070} bytes (= samples) as per ProTracker standards.
       |                   ^
Packages suggested but not available for checking:
  'rmarkdown', 'GOSemSim', 'org.Hs.eg.db'
Packages required but not available:
  'dplyr', 'stringr', 'janitor', 'tidyr', 'ggplot2', 'plotly',
  'ggrepel', 'readr'

Packages suggested but not available for checking:
  'testthat', 'covr', 'rmarkdown', 'shiny', 'r3dmol', 'proDA',
  'dendextend', 'pheatmap', 'heatmaply', 'furrr', 'future', 'drc',
  'igraph', 'stringi', 'STRINGdb', 'iq'

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: 'stringr', 'tidyr', 'tokenizers'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'covr', 'dplyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘provGraphR’

Packages suggested but not available for checking:
  'rdtLite', 'rdt', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'transport', 'T4transport'
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'lubridate', 'rvest', 'stringr'

Packages suggested but not available for checking:
  'covr', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'digest', '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: ‘igraph’

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’
Running ‘testthat.R’ [0s/0s]
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:
  'digest', 'rdtLite', 'rdt', 'testthat'
Running ‘testthat.R’ [0s/0s]
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:
  'digest', 'rdt', 'rdtLite', 'rmarkdown', 'testthat'
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/1s]
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: 'rdt', 'rdtLite'
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
  > # * https://testthat.r-lib.org/articles/special-files.html
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'Rcpp', 'RcppParallel', 'RcppArmadillo'

Packages suggested but not available for checking: 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'AhoCorasickTrie', 'readr', 'seqinr', 'stringr', 'dplyr'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'rmarkdown', 'RSQLite', 'tidyquery', 'sqldf', 'dplyr', 'testthat',
  'patrick'
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'liteq', 'RSQLite'

Package suggested but not available for checking: ‘foghorn’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'testthat', 'ggplot2', 'ROCR'
Running ‘all_tests.R’ [0s/1s]
Running the tests in ‘tests/all_tests.R’ failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Error(s) in re-building vignettes:
  ...
--- re-building ‘PRROC.Rnw’ using Sweave

Error: processing vignette 'PRROC.Rnw' failed with diagnostics:
 chunk 47 
Error in library(ggplot2) : there is no package called ‘ggplot2’

--- failed re-building ‘PRROC.Rnw’

SUMMARY: processing the following file failed:
  ‘PRROC.Rnw’

Error: Vignette re-building failed.
Execution halted
Packages required but not available: 'lmomco', 'mev', 'wavScalogram'

Package suggested but not available for checking: ‘GB2’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'SGL', 'glmnet', 'bigsnpr', 'MCMCpack', 'bigsparser', 'propagate',
  'bigparallelr', 'bigstatsr', 'Rfast'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘fst’

Packages suggested but not available for checking:
  'testthat', 'xml2', 'covr', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘Morpho’

Packages suggested but not available for checking: 'rmarkdown', 'geomorph'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'lobstr', 'Rcpp', '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: 'PogromcyDanych', 'PBImisc'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'ggthemes', 'Matching', 'MatchIt', 'reshape2', 'TriMatch'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Invalid package aliases in Rd file 'granova-package.Rd':
  ‘granova-package’
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘dplyr’

Packages suggested but not available for checking:
  'covr', 'testthat', 'vcr'

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:
  'Rcpp', 'xml2', 'ggplot2', 'GGally', 'riskRegression',
  'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'rjags', 'ggplot2', 'MatchIt'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'pkgload', 'flexsurv', '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: 'R.cache', 'future'

Packages suggested but not available for checking:
  'Hmisc', 'R.rsp', 'ggplot2'

VignetteBuilder package required for checking but not installed: ‘R.rsp’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'MCMCpack', 'car'
Running examples in ‘pscl-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: hurdletest
> ### Title: Testing for the Presence of a Zero Hurdle
> ### Aliases: hurdletest
> ### Keywords: regression
> 
> ### ** Examples
> 
> data("bioChemists", package = "pscl")
> fm <- hurdle(art ~ ., data = bioChemists, dist = "negbin", zero = "negbin")
> hurdletest(fm)
Loading required namespace: car
Failed with error:  ‘there is no package called ‘car’’
Error in hurdletest(fm) : requireNamespace("car") is not TRUE
Calls: hurdletest -> stopifnot
Execution halted
Note: skipping ‘countreg.Rnw’ due to unavailable dependencies: 'car'
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'ggplot2', 'reshape2', 'JWileymisc'

Packages suggested but not available for checking:
  'testthat', 'covr', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'DataCombine', 'reshape2', 'rio'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'testthat', 'rmarkdown'
checkRd: (-1) qpc.Rd:43: Lost braces
    43 | S{Sulewski, P. (2020). \emph{Normal Distribution with Plasticizing Component,} Communications in Statistics ? Theory and Method 51(11), 3806-3835.}
       |  ^
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
  > # * https://testthat.r-lib.org/articles/special-files.html
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'ggplot2', 'plyr', 'reshape2', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'devtools', 'ggplot2', 'qpdf'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'furrr', 'sf'

Packages suggested but not available for checking:
  'covr', 'future', 'ggplot2', 'ggspatial', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcpp', 'doBy'

Package suggested but not available for checking: ‘testthat’

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.
Packages suggested but not available for checking:
  'ggplot2', 'testthat', 'rmarkdown'
'LazyData' is specified without a 'data' directory
Running ‘simulation-study.R’ [2s/3s]
  Running ‘testthat.R’ [0s/0s]
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', 'pROC', 'rms', 'rsample', 'mice', 'mitml', 'cvAUC',
  'dplyr', 'tidyr', 'stringr', 'lme4', 'car'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'bookdown', 'readr', 'covr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'forecast'
Packages required but not available: 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking: 'testthat', 'mvnfast'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'testthat', 'rmarkdown'
checkRd: (-1) data1.Rd:14: Lost braces
    14 | The data set from {AbouRizk, S.M., Halpin, D.W., Wilson, J. R. (1994). \emph{Fitting beta distributions based on sample data.} Journal of Construction Engineering and Management 120(2), 288–305.}
       |                   ^
checkRd: (-1) data2.Rd:14: Lost braces; missing escapes or markup?
    14 | The data set presents the height of 99 five-year-old British boys in cm downloaded from {http://www.mas.ncl.ac.uk/njnsm/medfac/docs/intro.pdf.}
       |                                                                                         ^
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
  > # * https://testthat.r-lib.org/articles/special-files.html
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'intamap', 'gstat', 'automap', 'Rcpp', 'RcppArmadillo'

Package suggested but not available for checking: ‘sf’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘BayesTree’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'asciiSetupReader', 'dplyr', 'stringr', 'tidyr'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'DiagrammeR', 'spelling'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘openxlsx’

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: 'testthat', 'rmarkdown'
checkRd: (-1) table1.Rd:14: Lost braces
    14 | The first data set from {Sulewski, P. (2017) \emph{A new test for independence in 2x2 contingency tables,} Acta Universitatis Lodziensis. Folia Oeconomica, 4(330), 55–75}
       |                         ^
checkRd: (-1) table3.Rd:14: Lost braces
    14 | The third data set from {Sulewski, P. (2021). \emph{Logarithmic Minimum Test for Independence in Three Way Con-tingency Table of Small Sizes.} Journal of Statistical Computation and Simulation 91(13), 2780-2799}
       |                         ^
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
  > # * https://testthat.r-lib.org/articles/special-files.html
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'dplyr', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'bupaR', 'dplyr', 'ggplot2', 'tidyr', 'stringi'

Packages suggested but not available for checking:
  'rmarkdown', 'covr', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'AmesHousing', 'dplyr', 'fields', 'ggplot2', 'MBA', 'minqa', 'plm',
  'sf', 'spatialreg', 'spdep', 'stringr'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'plyr', 'reshape2'

Packages suggested but not available for checking:
  'ggplot2', 'ggstance', 'rmarkdown', 'roxygen2', 'kableExtra',
  'stringr', 'scales', 'testthat'

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’ [0s/1s]
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 has ‘vignettes’ subdirectory but apparently no vignettes.
Perhaps the ‘VignetteBuilder’ information is missing from the
DESCRIPTION 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.
Packages required but not available: 'Rcpp', 'RcppEigen', 'testthat'

Packages suggested but not available for checking:
  'R.rsp', 'rmarkdown', 'RcppArmadillo', 'RcppEigen', 'testthat',
  'lbfgsb3c', 'lbfgs'

VignetteBuilder package required for checking but not installed: ‘R.rsp’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'covr', 'testthat'
Running ‘testthat.R’ [0s/0s]
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', 'DT', 'EnvStats', 'epiR', 'ggplot2', 'longpower', 'plotly',
  'presize', 'pROC', 'shiny', 'shinycssloaders', 'shinyFeedback',
  'shinyhelper'

Packages suggested but not available for checking:
  'rmarkdown', 'MESS', 'WebPower'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘infotheo’

Packages suggested but not available for checking:
  'testthat', 'spelling', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'np', 'chngpt'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'GSVA', 'igraph', 'pheatmap'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'ggplot2', 'rstan', 'lme4', 'dplyr', 'stringr'

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: ‘TraMineR’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'lme4', 'ggplot2', 'gbm', 'SuperLearner'

Package suggested but not available for checking: ‘rmarkdown’

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: 'dplyr', 'tidyr'

Packages suggested but not available for checking:
  'roxygen2', 'covr', 'misty', 'testthat'

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:
  'bib2df', 'rmarkdown', 'stringi', 'testthat'

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 suggested but not available for checking: ‘effects’
Packages required but not available:
  'qgraph', 'dplyr', 'optimx', 'VCA', 'IsingSampler', 'tidyr', 'GA',
  'Rcpp', 'RcppArmadillo', 'pbv', 'roptim'

Packages suggested but not available for checking:
  'semPlot', 'graphicalVAR', 'metaSEM', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'scales', 'dplyr', 'stringr', 'ggplot2'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'covr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'likert', 'mirt'
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking: 'stablelearner', 'mirt'
‘raschtree.Rnw’ using ‘UTF-8’... [10s/11s] NOTE
differences from ‘raschtree.Rout.save’
60,66c60,77
<        V1   
<  Min.   :1  
<  1st Qu.:1  
<  Median :1  
<  Mean   :1  
<  3rd Qu.:1  
<  Max.   :1  
---
> 
> Call:
> raschtree(formula = spisa ~ age + gender + semester + elite + 
>     spon, data = SPISA, minsize = 30)
> 
> Sampler:
> B = 50 
> Method = Subsampling with 63.2% data
> 
> Variable selection overview:
> 
>          freq * mean *
> gender   1.00 1 1.00 1
> spon     0.60 1 0.82 2
> semester 0.18 0 0.18 0
> age      0.04 0 0.04 0
> elite    0.02 0 0.02 0
> (* = original tree)
Note: skipping ‘raschtree.Rnw’ due to unavailable dependencies:
  'stablelearner'
Package suggested but not available for checking: ‘lme4’
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'broom', 'dplyr', 'ez'

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: 'testthat', 'covr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'bruceR', 'dplyr', 'stringr', 'vroom', 'ggplot2', 'ggrepel', 'Rtsne',
  'rgl', 'qgraph', 'rsparse', 'text2vec', 'word2vec', 'fastTextR',
  'text', 'reticulate'

Packages suggested but not available for checking: 'wordsalad', 'sweater'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'lme4', 'lmerTest', 'patchwork', 'stringr',
  'tidyr'

Packages suggested but not available for checking:
  'covr', 'cowplot', 'ggrepel', 'interactions', 'pagedown', 'qqplotr',
  'rmarkdown', 'roxygen2', 'see', 'semPlot', 'spelling', 'testthat',
  'lavaSearch2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'dplyr', 'tidyr', 'GGally', 'ggthemes', 'plyr',
  'fastDummies', 'ez'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking:
  'covr', 'DiagrammeR', 'haven', 'googlesheets4', 'openxlsx', 'readxl',
  'rmarkdown', 'testthat'
Running examples in ‘psyverse-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: apply_graph_theme
> ### Title: Apply multiple DiagrammeR global graph attributes
> ### Aliases: apply_graph_theme
> 
> ### ** Examples
> 
> exampleSpec <-
+   system.file("inst",
+               "extdata",
+               "example_dct_spec_1.dct",
+               package="psyverse");
> parsedSpecs <- load_dct_specs(exampleSpec);
> dctGraph <- parsedSpecs$output$basic_graph;
> dctGraph <- apply_graph_theme(dctGraph,
+                               c("color", "#0000AA", "node"),
+                               c("fillcolor", "#00FFFF", "node"));
Error: This function applies graph themes to a `DiagrammeR` object. Therefore, obviously, that object must first exist, and you need the `DiagrammeR` package to create it and work with it. Please install it using:

  install.packages('DiagrammeR');
Execution halted
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > require(testthat);
  Loading required package: testthat
  Warning message:
  In library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE,  :
    there is no package called 'testthat'
  > testthat::test_check("psyverse");
  Error in loadNamespace(x) : there is no package called 'testthat'
  Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
  Execution halted
Packages required but not available:
  'flexdashboard', 'ggplot2', 'nloptr', 'rmarkdown'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
checkRd: (-1) PTE_bootstrap_inference.Rd:39-42: Lost braces
    39 |                                                         continuous = function(Xytrain){ #defalt is OLS regression
       |                                                                                       ^
checkRd: (-1) PTE_bootstrap_inference.Rd:43-47: Lost braces
    43 |                                                         incidence = function(Xytrain){ #default is logistic regression
       |                                                                                      ^
checkRd: (-1) PTE_bootstrap_inference.Rd:48-52: Lost braces
    48 |                                                         survival = function(Xytrain){ #default is Weibull regression
       |                                                                                     ^
checkRd: (-1) PTE_bootstrap_inference.Rd:66-68: Lost braces
    66 |                                         function(mod, Xyleftout){
       |                                                                 ^
checkRd: (-1) PTE_bootstrap_inference.Rd:74-77: Lost braces
    74 |                                         function(results, indices_1_1, indices_0_0, indices_0_1, indices_1_0){
       |                                                                                                              ^
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘rmarkdown’
checkRd: (-1) pgram.Rd:12: Lost braces; missing escapes or markup?
    12 | \item{fr}{use "default" for usual Fourier frequencies, {1/n, ..., floor(n/2)/n}. 
       |                                                        ^
Documented arguments not in \usage in Rd file 'GetFitHReg.Rd':
  ‘z’

Functions with \usage entries need to have the appropriate \alias
entries, and all their arguments documented.
The \usage entries must correspond to syntactically valid R code.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking: 'rgl', 'geometry'
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/ptinpoly.Rcheck/00install.out’ for details.
Packages suggested but not available for checking:
  'bookdown', 'DiagrammeR', 'dplyr', 'readr', 'rmarkdown', 'TITAN2',
  'testthat', 'tidyr'
Running ‘testthat.R’ [0s/1s]
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', 'tweeDEseq'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'bio3d', 'igraph', 'muscle', 'seqinr', '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:
  'partitions', 'raster', 'igraph', 'RANN', 'spatstat.geom', 'sf'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'beepr', 'pryr', 'stringr'

Packages suggested but not available for checking:
  'covr', 'ProjectTemplate', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'extraDistr', 'SuppDists'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘BayesianTools’
Package required but not available: ‘digest’

Packages suggested but not available for checking:
  'testthat', 'dplyr', 'lubridate'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Package required but not available: ‘RcppDE’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'ggdendro', 'htmlTable', 'plyr', 'R6P', 'reshape2',
  'rmarkdown', 'rmzqc', 'seqinr', 'UpSetR', '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: 'plyr', 'reshape2'

Package suggested but not available for checking: ‘doRNG’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'RJSONIO', 'tidyr', 'stringr', 'magick', 'xml2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggformula', 'gtsummary', 'huxtable', 'car', 'dplyr', 'Epi', 'epiR',
  'ggplot2', 'moonBook', 'sjmisc'

Packages suggested but not available for checking:
  'broom', 'ggfortify', 'ggsci', 'Hmisc', 'jtools', 'latex2exp',
  'lme4', 'rmarkdown', 'rms', 'rstatix', 'see', 'sjPlot', 'tidyverse'

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: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'broom', 'conflicted', 'DiagrammeR', 'dplyr', 'ggplot2', 'ggthemes',
  'gt', 'haven', 'infer', 'janitor', 'kableExtra', 'pkgdown', 'plyr',
  'rmarkdown', 'roxygen2', 'rUM', 'scales', 'stringr', 'table1',
  'tidyr', 'tidyverse', 'testthat', 'vcdExtra'
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available: 'dplyr', 'tidyr'

Packages suggested but not available for checking:
  'kableExtra', 'rmarkdown', 'scales', 'stringr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'rstan', 'rstantools', 'RcppEigen', 'StanHeaders',
  'RcppParallel'

Packages suggested but not available for checking:
  'testthat', 'covr', 'rmarkdown', 'spelling'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'prodlim', 'lava'

Packages suggested but not available for checking:
  'riskRegression', 'testthat', 'rms'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘RJSONIO’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘stringr’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'bibliometrix', 'rmarkdown'
'LazyData' is specified without a 'data' directory
Packages required but not available: 'dplyr', 'xml2', '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: 'stringr', 'wordcloud', 'tm'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'RSQLite', 'dplyr', 'readr'

Packages suggested but not available for checking:
  'covr', 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcpp', 'ggplot2', 'RcppEigen'

Packages suggested but not available for checking: 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/pullword.Rcheck/00install.out’ for details.
Packages suggested but not available for checking:
  'batchtools', 'fs', 'orca', 'huge', 'glmnet', 'testthat', 'rmarkdown'
Running examples in ‘pulsar-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: findConfFile
> ### Title: find config file
> ### Aliases: findConfFile
> 
> ### ** Examples
> 
> ## Default config file provided by pulsar runs code in interactive mode
> ## This is for testing purposes and executes serially.
> findConfFile()
Error in loadNamespace(x) : there is no package called ‘batchtools’
Calls: findConfFile ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > suppressPackageStartupMessages(library(testthat))
  Error in library(testthat) : there is no package called 'testthat'
  Calls: suppressPackageStartupMessages -> withCallingHandlers -> library
  Execution halted
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'AnnotationDbi', 'Rsamtools', 'GenomicFeatures', 'ggplot2',
  'GenomicAlignments'

Packages suggested but not available for checking:
  'rmarkdown', 'TxDb.Hsapiens.UCSC.hg19.knownGene'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'fda', 'fda.usc', 'ggplot2', 'monoClust', 'tidyr'

Packages suggested but not available for checking:
  'covr', 'lubridate', 'rmarkdown', 'testthat', 'vdiffr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'ggpubr', 'future', 'lme4', 'readr', 'stringr',
  'tidyr'

Packages suggested but not available for checking:
  'furrr', 'kableExtra', '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.
Package required but not available: ‘ggplot2’

Package suggested but not available for checking: ‘rmarkdown’

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:
  'dplyr', 'ggplot2', 'fda', 'stringr', 'tidyr'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'VWPre', 'ggplot2', 'shiny', 'tidyr'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'colordistance', 'readxl'

Package suggested but not available for checking: ‘testthat’

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:
  'devtools', 'dplyr', 'ggplot2', 'Peptides', 'plyr', 'readr',
  'stringr', 'Rcpp'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'profvis'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'testthat', 'lme4', 'ranger'
'LazyData' is specified without a 'data' directory
Running ‘purged.filesizes.R’ [0s/1s]
  Running ‘testthat.R’ [0s/1s]
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’

Packages suggested but not available for checking:
  'caret', 'dplyr', 'e1071', 'ggplot2', 'ggraph', 'glmnet', 'igraph',
  'pander', 'plyr', 'rmarkdown', 'scales', 'stringr', 'testthat',
  'tidyr'

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available: 'dplyr', 'Rcpp'

Packages suggested but not available for checking: 'covr', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'covr', 'dplyr', 'lubridate', 'rmarkdown', 'testthat'
Running examples in ‘purrr-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: map_dfr
> ### Title: Functions that return data frames
> ### Aliases: map_dfr map_df map_dfc imap_dfr imap_dfc map2_dfr map2_dfc
> ###   map2_df pmap_dfr pmap_dfc pmap_df
> ### Keywords: internal
> 
> ### ** Examples
> 
> # map ---------------------------------------------
> # Was:
> mtcars |>
+   split(mtcars$cyl) |>
+   map(\(df) lm(mpg ~ wt, data = df)) |>
+   map_dfr(\(mod) as.data.frame(t(as.matrix(coef(mod)))))
Error in map_dfr(map(split(mtcars, mtcars$cyl), function(df) lm(mpg ~  : 
  The package "dplyr" is required for `map_dfr()`.
Calls: map_dfr -> check_installed
Execution halted
Running ‘testthat.R’ [0s/0s]
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: ‘shiny’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'covr', 'testthat', 'rmarkdown'
Running ‘testthat.R’ [0s/1s]
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:
  'lubridate', 'readxl', 'reshape', 'reshape2', 'sqldf', 'kableExtra',
  'plyr', 'dplyr', 'tidyverse', 'readr'

Packages suggested but not available for checking:
  'rmarkdown', 'devtools', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dcmle', 'dclone'

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: 'rmarkdown', 'devtools'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘Rcpp’

Packages suggested but not available for checking: 'e1071', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘ggplot2’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'dtplyr', 'stringr', 'tidyr'

Packages suggested but not available for checking:
  'covr', 'DiagrammeR', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘ggplot2’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ggplot2', 'ggfittext'

Packages suggested but not available for checking:
  'furrr', 'plotly', 'patchwork'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'broom', 'ggplot2', 'stlplus', 'tidyr', 'forecast', 'scales'

Packages suggested but not available for checking: 'testthat', 'rmarkdown'

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.
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘rmarkdown’
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'bibliometrix', 'igraph', 'progressr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'lme4', 'Rcpp', 'RcppEigen'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'car', 'dplyr', 'tidyr', 'ez', 'phia', 'afex', 'MBESS', 'broom'

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’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
checkRd: (-1) Ch05-detail.Rd:23: Escaped LaTeX specials: \#
checkRd: (-1) Ch05-detail.Rd:24: Escaped LaTeX specials: \#
checkRd: (-1) Ch05-detail.Rd:25: Escaped LaTeX specials: \#
checkRd: (-1) Ch05-detail.Rd:31: Escaped LaTeX specials: \#
checkRd: (-1) Ch05-detail.Rd:32: Escaped LaTeX specials: \#
checkRd: (-1) Ch09-CDF-Pval.Rd:72: Lost braces; missing escapes or markup?
    72 |   G(u) = (1-r) u  + r Fc_A(Fc_0^{-1}(u))
       |                                 ^
checkRd: (-1) Ch10-CDF-Pval-HA.Rd:62: Lost braces; missing escapes or markup?
    62 |   G_A(u) = Fc_A(Fc_0^{-1}(u))
       |                      ^
Skipping checking math rendering: package 'V8' unavailable
checkRd: (-1) Ch0C-plot.cpd.PwrGSD.Rd:40: Escaped LaTeX specials: \&
checkRd: (-1) Ch17-CRRtoRR.Rd:15: Lost braces; missing escapes or markup?
    15 |     \ldots, [t_m, t_{m+1})$ then \code{DT} will be c($t_2-t_1,t_3 -t_2,
       |                     ^
checkRd: (-1) Ch17-CRRtoRR.Rd:16: Lost braces; missing escapes or markup?
    16 |     \ldots, t_{m+1} - t_m )$
       |               ^
Packages suggested but not available for checking: 'roxygen2', 'testthat'
checkRd: (-1) aid_st2.Rd:6: Escaped LaTeX specials: \&
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking:
  'ggplot2', 'scales', 'rmarkdown'
Package suggested but not available for checking: ‘rmarkdown’
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'stringr', 'reshape2', 'RJSONIO', 'plyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/1s]
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:
  'digest', 'httptest', 'rmarkdown', 'testthat', 'xml2'
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > print(Sys.getenv("NOT_CRAN"))
  [1] ""
  > testthat::test_check("pxweb")
  Error in loadNamespace(x) : there is no package called 'testthat'
  Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
  Execution halted
Package required but not available: ‘sf’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘htmlwidgets’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘reticulate’

Packages suggested but not available for checking:
  'testthat', 'covr', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘reticulate’

Packages suggested but not available for checking:
  'dplyr', 'ggplot2', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'dbplyr', 'reticulate', 'sparklyr', 'fs', 'tidyr',
  'rsconnect'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘xml2’

Packages suggested but not available for checking: 'testthat', 'rmarkdown'

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: 'rmarkdown', 'testthat'
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/0s]
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', 'dplyr', 'tidyr', 'ggcorrplot', 'PMCMRplus', 'haven',
  'ggExtra', 'patchwork'

Packages suggested but not available for checking:
  'rmarkdown', 'kableExtra'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'copula', 'viridis', 'ggExtra', 'dplyr', 'cowplot', 'Rcpp'

Packages suggested but not available for checking:
  'rmarkdown', 'reshape2', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘stringr’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'lme4', 'plyr', 'dplyr', 'future.apply', 'reshape2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/1s]
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 checking math rendering: package 'V8' unavailable
Package required but not available: ‘dplyr’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'mcmcse', 'stableGR', 'RcppDist', 'rmarkdown',
  'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'async'
Packages required but not available: 'dplyr', 'tidyr', '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: 'plyr', 'QCA', 'UpSetR', 'stringi'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ggplot2', 'ggforce', 'devtools'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/1s]
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 checking math rendering: package 'V8' unavailable
Package required but not available: ‘shiny’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'stringr', 'ggplot2', 'QCA'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'arulesCBA', 'stringr'
Package suggested but not available for checking: ‘rmarkdown’
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘dplyr’

Package suggested but not available for checking: ‘testthat’

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: 'cSEM', 'broom'

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.
Package required but not available: ‘fda.usc’

Package suggested but not available for checking: ‘rmarkdown’

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:
  'qdapRegex', 'dplyr', 'gender', 'ggplot2', 'igraph', 'openxlsx',
  'reshape2', 'scales', 'tidyr', 'tm', 'wordcloud'

Packages suggested but not available for checking: 'stringi', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘stringi’

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’
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'regtools', 'rmarkdown', 'tufte', 'grf', 'gbm', 'toweranNA', 'tm',
  'partools', 'FOCI'

Packages suggested but not available for checking:
  'ranger', 'e1071', 'JOUSBoost', 'lightgbm', 'keras', 'glmnet',
  'umap', 'reticulate', 'pROC', 'xgboost', 'ROCR', 'autoimage', 'uwot',
  'cdparcoord'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘pch’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘fields’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Compositional', 'TMB', 'compositions', 'dplyr', 'Rcpp', 'RcppEigen'

Packages suggested but not available for checking:
  'plyr', 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/0s]
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', 'RcppEigen'

Packages suggested but not available for checking:
  'CompQuadForm', 'testthat', 'rmarkdown'

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcpp', 'RcppGSL'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘dplyr’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'shiny', 'plyr'

Packages suggested but not available for checking: 'rmarkdown', '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:
  'qgcomp', 'arm', 'future', 'future.apply', 'ggplot2'

Package suggested but not available for checking: ‘devtools’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'arm', 'future', 'future.apply', 'ggplot2'

Packages suggested but not available for checking:
  'broom', 'devtools', 'mice'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘cubature’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcpp', 'MCMCpack', 'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘stringr’

Packages suggested but not available for checking:
  'dplyr', 'mapview', 'raster', 'rmarkdown', 'sf', 'spDataLarge',
  'stars', 'stringi', 'terra', 'testthat', 'tidyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'plyr', 'Hmisc', 'igraph', 'reshape2', 'ggplot2'

Packages suggested but not available for checking: 'BDgraph', 'huge'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'shiny', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Argument items with no description in Rd file 'ad.simudata.Rd':
  ‘SimuNum’
'LazyData' is specified without a 'data' directory
Packages required but not available: 'rms', 'Hmisc'

Packages suggested but not available for checking: 'rmarkdown', '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:
  'dplyr', 'rmarkdown', 'testthat', 'tidyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'latticeExtra', 'scales', 'ggplot2'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) qif.Rd:45: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) qif.Rd:46: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) qif.Rd:47: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) qif.Rd:48: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) qif.Rd:49: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) qif.Rd:50: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) qif.Rd:51: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) qif.Rd:52: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) qif.Rd:53: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) qif.Rd:54: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) qif.Rd:55: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) qif.Rd:56: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) qif.Rd:57: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) qif.Rd:58: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) qif.Rd:59: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) qif.Rd:60: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) qif.Rd:61: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) qif.Rd:62: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) qif.Rd:63: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) qif.Rd:64: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) qif.Rd:65: Lost braces in \itemize; \value handles \item{}{} directly
Package suggested but not available for checking: ‘testthat’
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/1s]
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 checking math rendering: package 'V8' unavailable
Package required but not available: ‘ggplot2’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘Rcpp’

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: 'ggplot2', 'scales'
Running examples in ‘qlifetable-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: plot.qlifetable
> ### Title: Graphical representation in a 4x4 raster of a qlifetable data
> ###   frame.
> ### Aliases: plot.qlifetable
> 
> ### ** Examples
> 
> dates.b <- c("1920-05-13", "1999-04-12", "2019-01-01")
> dates.e <- c("2002-03-23", "2009-04-12", "2019-01-01")
> x <- quarterly_variables(dates.b, dates.e)
> out <- time_exposed_outs(x)
> p <- plot(out, show.plot = FALSE)
Error in loadNamespace(x) : there is no package called ‘ggplot2’
Calls: plot ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'qad', 'Rcpp', 'ggplot2', 'cowplot', 'dplyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘digest’

Packages suggested but not available for checking:
  'shiny', 'rjson', 'MCMCpack'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'oro.nifti', 'stringr'

Packages suggested but not available for checking:
  'covr', 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/qmvs.Rcheck/00install.out’ for details.
Package required but not available: ‘dplyr’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'rstatix', 'ggpubr', 'ggplot2'

Package suggested but not available for checking: ‘rmarkdown’

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:
  'broom', 'dplyr', 'ggplot2', 'ggpmisc', 'ggthemes', 'kableExtra',
  'rstatix', 'tidyr'

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', 'RcppEigen'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'tidyr', 'ggplot2'

Packages suggested but not available for checking:
  'rmarkdown', 'covr', 'testthat'

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', 'dplyr', 'testthat', 'vdiffr', 'scales'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘Rcpp’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Packages required but not available:
  'ggplot2', 'dplyr', 'opdisDownsampling', 'qqconf'

Packages suggested but not available for checking:
  'shiny', 'devtools', 'shinyBS', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
checkRd: (-1) hideLocation.Rd:10: Lost braces; missing escapes or markup?
    10 | \item{trueLoc}{A vector of one or more numbers in the set {1, 2, ..., nSubjects} whose locations are to be hidden.}
       |                                                           ^
checkRd: (-1) hideLocation.Rd:12: Lost braces; missing escapes or markup?
    12 | \item{nSubjects}{An integer larger than 1 used to define the set {1, 2, ..., nSubjects}.}
       |                                                                  ^
Packages required but not available: 'shiny', 'shinythemes'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'htmlwidgets', 'leaflet', 'miniUI', 'raster', 'scales', 'shiny',
  'shinyWidgets'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'latticeExtra', 'rmarkdown', 'lme4', 'ggplot2'

Packages suggested but not available for checking:
  'glmmTMB', 'prettydoc', 'DHARMa', 'kableExtra', 'optimx', 'bookdown'

VignetteBuilder packages required for checking but not installed:
  'rmarkdown', 'bookdown', 'prettydoc'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘qrcm’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘pch’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'opencv', 'testthat'
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Package required but not available: ‘truncSP’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'raster', '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:
  'Hmisc', 'ggplot2', 'rms', 'viridis', 'htmltools'

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:
  'stringr', 'ggplot2', 'Rcpp', 'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘kernlab’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'shinyBS', 'argonDash', 'argonR', 'bslib', 'desplot', 'dplyr',
  'ggplot2', 'qrencoder', 'raster', 'reactable', 'readxl', 'shiny',
  'shinycssloaders', 'shinyjs', 'shinyWidgets'

Packages suggested but not available for checking:
  'covr', 'rmarkdown', 'shinytest2', 'testthat', 'vdiffr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘lqr’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘qrmtools’
checkRd: (-1) NEWS.Rd:15: Escaped LaTeX specials: \&
Skipping checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘Rcpp’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘rugarch’

Packages suggested but not available for checking: 'copula', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘copula’
Running examples in ‘qrng-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: test_functions
> ### Title: Test Functions
> ### Aliases: sum_of_squares sobol_g exceedance
> ### Keywords: utilities
> 
> ### ** Examples
> 
> ## Generate some (here: copula, pseudo-random) data
> library(copula)
Error in library(copula) : there is no package called ‘copula’
Execution halted
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘lqr’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Malformed Description field: should contain one or more complete sentences.
Package suggested but not available for checking: ‘rmarkdown’
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'cowplot', 'ggplot2'

Packages suggested but not available for checking:
  'devtools', 'roxygen2', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'shiny', 'Rcpp'

Package suggested but not available for checking: ‘rgl’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'DescTools', 'gmp', 'RationalMatrix', 'Rcpp', 'Ryacas',
  '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', 'RApiSerialize', 'stringfish'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'dplyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'RSQLite', 'dplyr', 'dbplyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'readr', 'stringr', '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: 'Hmisc', 'BMisc', 'ggplot2'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcpp', 'qtl', 'qtl2'

Packages suggested but not available for checking:
  'testthat', 'devtools', 'roxygen2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'fst', 'qtl2'

Packages suggested but not available for checking: 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'dplyr', 'ggplot2', 'stringr', 'tidyr', 'qtl2', 'ggrepel'

Packages suggested but not available for checking:
  'devtools', 'testthat', 'roxygen2', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'tidyr', 'stringr', 'ggplot2', 'qtl2', 'qtl2fst', 'fst'

Packages suggested but not available for checking:
  'rmarkdown', 'qtl2ggplot'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'Rcpp', 'RcppEigen'

Packages suggested but not available for checking:
  'covr', 'rmarkdown', 'testthat', 'broman', 'devtools', 'qtl2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcpp', 'RSQLite', 'RcppEigen'

Packages suggested but not available for checking:
  'testthat', 'devtools', 'roxygen2', 'vdiffr', 'qtl'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘qtl’
Running examples in ‘qtlbook-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: ch3a
> ### Title: Data with a phenotype error
> ### Aliases: ch3a
> ### Keywords: datasets
> 
> ### ** Examples
> 
> data(ch3a)
> 
> # phenotype problem
> pairs(ch3a$pheno)
> ch3a$pheno[ch3a$pheno[,4]==0,] # individual 159
    phe1 phe2 phe3 phe4 phe5
159   50   75   70    0   80
> 
> # individuals with similar genotypes
> library(qtl)
Error in library(qtl) : there is no package called ‘qtl’
Execution halted
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'qtl', 'htmlwidgets'

Packages suggested but not available for checking:
  'htmltools', 'devtools', 'roxygen2', 'rmarkdown', 'testthat'

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:
  'shiny', 'qtl', 'Rcpp', 'openxlsx', 'stringr', 'glmnet',
  'QTL.gCIMapping'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'openxlsx', 'readxl', 'stringr', 'glmnet', 'qtl'

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.
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/qtlmt.Rcheck/00install.out’ for details.
Packages required but not available: 'qtl', 'igraph', 'sem', 'pcalg'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'CompQuadForm', 'RLRsim', 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'mappoly', 'rmarkdown', 'devtools'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/qtl.Rcheck/00install.out’ for details.
Package suggested but not available for checking: ‘qtl’
Running examples in ‘QTLRel-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: qtl2rel
> ### Title: Convert data from R/qtl to QTLRel format
> ### Aliases: qtl2rel
> ### Keywords: manip
> 
> ### ** Examples
> 
> library(qtl)
Error in library(qtl) : there is no package called ‘qtl’
Execution halted
Package required but not available: ‘rgenoud’

Packages suggested but not available for checking:
  'stringr', 'testthat', 'faraway', 'quantoptr', 'survminer'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'conquer', 'np', 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'mice', 'rmarkdown', 'survey'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘fs’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'covr', 'dplyr', 'ggplot2', 'kableExtra', 'rmarkdown', 'shiny',
  'shinydashboard', 'shinyWidgets', 'testthat', 'tidyr', 'viridis'
Running ‘testthat.R’ [0s/1s]
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', 'geometry', 'scales'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'covr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
'LazyData' is specified without a 'data' directory
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'shiny', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
  > # * https://testthat.r-lib.org/articles/special-files.html
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'Rcpp', 'ggplot2', 'reshape2', 'scales', 'RcppArmadillo'

Packages suggested but not available for checking:
  'testthat', 'spelling', 'glmnet'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcpp', 'terra'

Packages suggested but not available for checking:
  'raster', 'sf', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'stringr', 'janitor', 'openxlsx', 'readxl'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'leaflet', 'sf'

Packages suggested but not available for checking:
  'covr', 'ggplot2', 'testthat', 'tigris', 'tidycensus', 'rmarkdown'

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', 'rmarkdown', 'rgl', 'spelling', 'covr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'fs', 'lubridate', 'readr', 'stringr', 'tidyr'

Packages suggested but not available for checking:
  'covr', 'rmarkdown', 'testthat', 'vcr', 'webmockr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'rmarkdown', 'dplyr', 'tidyr', 'ggplot2', 'GGally', 'DT'

VignetteBuilder package required for checking but not installed: ‘rmarkdown’
Errors in running code in vignettes:
when running code in ‘wilcox1973.Rmd’
  ...
Error in loadVignetteBuilder(pkgdir) : 
  vignette builder 'rmarkdown' not found
Calls: <Anonymous> -> loadVignetteBuilder
Execution halted

... incomplete output.  Crash?

  ‘wilcox1973.Rmd’ using ‘UTF-8’... failed to complete the test
Skipping checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘Rfast’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'testthat', 'roxygen2'
Running ‘testthat.R’ [0s/0s]
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: 'lubridate', 'quantdates'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘np’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘lubridate’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'ggplot2', 'rmarkdown', 'testthat'
checkRd: (-1) cqs.Rd:30-31: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) cqs.Rd:33-35: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) cqs.Rd:37-45: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) llqr.Rd:35-36: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) llqr.Rd:38-41: Lost braces in \itemize; \value handles \item{}{} directly
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available:
  'Rcpp', 'RcppParallel', 'stringi', 'xml2', 'RcppArmadillo'

Packages suggested but not available for checking:
  'rmarkdown', 'spelling', 'testthat', 'tm', 'tokenizers', 'dplyr',
  'quanteda.textmodels', 'quanteda.textstats', 'quanteda.textplots',
  'spacyr', 'stm', 'text2vec', 'topicmodels', 'tidytext', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'glmnet', 'LiblineaR', 'quanteda', 'RSpectra', 'Rcpp',
  'RcppParallel', 'stringi', 'RcppArmadillo'

Packages suggested but not available for checking:
  'covr', 'quanteda.textplots', 'spelling', 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'quanteda', 'ggplot2', 'ggrepel', 'igraph', 'Rcpp', 'stringi'

Packages suggested but not available for checking:
  'quanteda.textmodels', 'quanteda.textstats', 'rmarkdown', 'spelling',
  'testthat', 'wordcloud'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'quanteda', 'proxyC', 'Rcpp', 'RcppParallel', 'stringi',
  'RcppArmadillo'

Packages suggested but not available for checking:
  'rmarkdown', 'spelling', 'testthat', 'covr'

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:
  'ggplot2', 'latex2exp', 'mixtools', 'rstpm2', 'scales', 'tclust'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'dplyr', 'kableExtra', 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/1s]
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: ‘np’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'units', 'Rcpp'

Packages suggested but not available for checking:
  'dplyr', 'tidyr', 'ggplot2', 'testthat', 'vdiffr', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'hetGP', 'ggplot2', 'reshape2'

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:
  'RSQLite', 'xml2', 'downloader'
Found the following calls to attach():
File ‘quantmod/R/attachSymbols.R’:
  attach(NULL, pos = pos, name = DB$name)
  attach(NULL, pos = pos, name = DB$name)
See section ‘Good practice’ in ‘?attach’.
Packages suggested but not available for checking:
  'GGally', 'ggplot2', 'pheatmap', 'rgl'
Running examples in ‘QuantNorm-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: QuantNorm
> ### Title: Adjust the distance matrix by quantile normalization for data
> ###   with batch effect
> ### Aliases: QuantNorm
> 
> ### ** Examples
> 
> 
> library(pheatmap) #drawing heatmap
Error in library(pheatmap) : there is no package called ‘pheatmap’
Execution halted
Packages required but not available: 'stringr', 'rgenoud'

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 suggested but not available for checking: ‘rmarkdown’
Packages required but not available: 'Rcpp', 'ggplot2', 'RcppArmadillo'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
checkRd: (-1) ps.Rd:77: Lost braces; missing escapes or markup?
    77 | such as [x, ..., x^{d-1}, Z], where \eqn{Z= B D'(DD')^{-1}}{Z= B D'(DD')^{-1}}, \eqn{d}{d} is the difference order and \eqn{B}{B} is the B-spline basis. Only the coefficients of Z are penalized via an identity matrix. Currently \code{decom=TRUE} does not work with shape (monotonicity and concavity) restrictions and noncrossing constraints.
       |                    ^
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘fda’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcpp', 'ranger'

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:
  'interp', 'rgl', 'R.rsp', 'conquer'

VignetteBuilder package required for checking but not installed: ‘R.rsp’
checkRd: (-1) boot.rq.pwxy.Rd:52: Lost braces in \enumerate; \value handles \item{}{} directly
checkRd: (-1) boot.rq.pwxy.Rd:53: Lost braces in \enumerate; \value handles \item{}{} directly
checkRd: (-1) boot.rq.pwxy.Rd:54: Lost braces in \enumerate; \value handles \item{}{} directly
checkRd: (-1) plot.rqss.Rd:16: Lost braces; missing escapes or markup?
    16 | to plot {summary.rqss}  objects just generates a warning message.
       |         ^
checkRd: (-1) rq.fit.conquer.Rd:22: Lost braces
    22 |       objective function.  Default is max{((log(n) + p) / n)^0.4, 0.05}. 
       |                                          ^
checkRd: (-1) rq.fit.pfnb.Rd:37-38: Lost braces in \enumerate; \value handles \item{}{} directly
checkRd: (-1) rq.fit.pfnb.Rd:39-43: Lost braces in \enumerate; \value handles \item{}{} directly
checkRd: (-1) rq.fit.pfnb.Rd:44: Lost braces in \enumerate; \value handles \item{}{} directly
checkRd: (-1) rq.fit.qfnb.Rd:31-32: Lost braces in \enumerate; \value handles \item{}{} directly
checkRd: (-1) rq.fit.qfnb.Rd:33: Lost braces in \enumerate; \value handles \item{}{} directly
checkRd: (-1) rq.fit.qfnb.Rd:34: Lost braces in \enumerate; \value handles \item{}{} directly
Package has ‘vignettes’ subdirectory but apparently no vignettes.
Perhaps the ‘VignetteBuilder’ information is missing from the
DESCRIPTION file?
Skipping checking math rendering: package 'V8' unavailable
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:
  'dygraphs', 'ggplot2', 'rugarch', 'shiny', 'shinyjs', 'smoots', 'yfR'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) quarries.Rd:17-19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) quarries.Rd:20-22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) quarries.Rd:23-25: Lost braces in \itemize; meant \describe ?
checkRd: (-1) quarries.Rd:26-28: Lost braces in \itemize; meant \describe ?
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'TreeTools', 'ape', 'Ternary', 'Rcpp'

Packages suggested but not available for checking:
  'bookdown', 'phangorn', 'Rcpp', 'rmarkdown', 'testthat', 'usethis',
  'vdiffr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'rmarkdown', 'later', 'rsconnect'

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: 'testthat', 'covr'
Running ‘testthat.R’ [0s/0s]
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', 'xml2', 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
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:
  'shiny', 'miniUI', 'styler', 'classInt', 'htmltools', 'labelled'

Packages suggested but not available for checking:
  'testthat', 'roxygen2', 'dplyr', 'ggplot2', 'tidyr', 'janitor',
  'rmarkdown', 'survey', 'Hmisc'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'str2str', 'plyr', 'car', 'MBESS', 'lme4'

Package suggested but not available for checking: ‘reshape’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ggplot2', 'kernlab'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'tidyr', 'dplyr', 'RcppArmadillo'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Auto-generated content requiring editing in Rd file 'quhomology-package.Rd':
  \details: ‘...o use the package, including the most important functions ~~’
Running ‘testthat.R’ [0s/0s]
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: 'distances', 'scclust'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'testthat', 'hedgehog'

Packages suggested but not available for checking:
  'rmarkdown', 'covr', 'dplyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'rmarkdown', 'qpdf', 'testthat'
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > 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: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'distances', 'scclust'

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: 'testthat', 'rmarkdown'
Running ‘testthat.R’ [0s/0s]
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: ‘terra’

Packages suggested but not available for checking:
  'covr', 'fastshp', 'ggplot2', 'raster', 'rmarkdown', 'sf', 'testthat'

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

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: 'ggplot2', 'dplyr'

Packages suggested but not available for checking:
  'ggthemes', 'rmarkdown', '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.
Package required but not available: ‘ape’

Packages suggested but not available for checking: 'spider', 'adegenet'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'BayesFactor', 'MCMCpack', 'janitor', 'stringr', 'dplyr', 'ggplot2',
  'tidyr'

Packages suggested but not available for checking: 'rmarkdown', '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’ [0s/0s]
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', 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
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:
  'stringr', 'vroom', 'dplyr', 'tidyjson', 'lubridate', 'tidyr',
  'rvest', 'memoise'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking:
  'rmarkdown', 'dplyr', 'ggplot2', 'tidyr'
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking: 'dplyr', 'testthat'
Running ‘testthat.R’ [0s/0s]
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', 'stringr', 'tidyr', 'drc', 'DT', 'ggh4x', 'ggnewscale',
  'ggplot2', 'ggpubr', 'kableExtra', 'plyr', 'readxl', 'rmarkdown',
  'scales', 'shiny'

Packages suggested but not available for checking:
  'bookdown', 'htmltools', 'prettydoc', 'shinyBS', 'shinycssloaders',
  'shinyFiles', 'shinyjs', 'shinysurveys', 'shinythemes', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'glmnet', 'flare'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'glmnet', 'GDINA', 'plyr', 'nloptr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
  > # * https://testthat.r-lib.org/articles/special-files.html
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'CORElearn', 'Rcpp', 'RcppEigen'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ggplot2', 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'dplyr', 'covr', 'glmnet', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘fda’
Running examples in ‘QZ-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: fda.geigen
> ### Title: Generalized Eigen Analysis as in fda Package
> ### Aliases: fda.geigen
> ### Keywords: programming
> 
> ### ** Examples
> 
> library(QZ, quiet = TRUE)
> 
> A <- matrix(as.double(1:6), 2)
> B <- matrix(as.double(c(2, 1, 1, 2)), 2)
> C <- diag(as.double(1:3))
> 
> ret.qz <- fda.geigen(A, B, C)
> 
> ### Verify
> library(fda, quiet = TRUE)
Error in library(fda, quiet = TRUE) : there is no package called ‘fda’
Execution halted
Package required but not available: ‘learnr’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) est.R0.ML.Rd:98: Lost braces
    98 | Supplementary Material S1 from \doi{10.1186/1472-6947-12-147}{Obadia et al., 2012}.
       |                                                              ^
checkRd: (-1) plot.R0.R.Rd:20: Lost braces
    20 | Called for side effect. Draws all \eqn{R_{0}} or /eqn{R(t)} values from one estimation method.
       |                                                      ^
checkRd: (-1) plot.R0.sR.Rd:20: Lost braces
    20 | Called for side effect. Draws all \eqn{R_{0}} or /eqn{R(t)} values from an
       |                                                      ^
Skipping checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘caTools’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'lme4', 'ggplot2', 'testthat'
checkRd: (-1) do_admb.Rd:20: Lost braces in \itemize; meant \describe ?
checkRd: (-1) do_admb.Rd:21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) do_admb.Rd:49: Lost braces in \itemize; meant \describe ?
checkRd: (-1) read_pars.Rd:30: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) read_pars.Rd:31: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) read_pars.Rd:32: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) read_pars.Rd:33: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) read_pars.Rd:34: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) read_pars.Rd:35: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) read_pars.Rd:36: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) read_pars.Rd:37: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) read_pars.Rd:38: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) read_pars.Rd:39: Lost braces in \itemize; \value handles \item{}{} directly
Note: skipping ‘R2admb.Rnw’ due to unavailable dependencies: 'ggplot2'
Package required but not available: ‘BayesXsrc’

Packages suggested but not available for checking:
  'interp', 'MBA', 'sf', 'spdep', 'fields'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘ReGenesees’
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking:
  'rmarkdown', 'qpdf', 'testthat'
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
checkRd: (-1) conf2d.Rd:64: Lost braces; missing escapes or markup?
    64 |   compute a smooth surface from \code{x} and {y}. If users already have
       |                                              ^
Packages required but not available: 'htmlwidgets', 'htmltools'

Packages suggested but not available for checking:
  'rmarkdown', 'shiny', 'shinytest', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘stringr’

Packages suggested but not available for checking: 'rmarkdown', 'qpdf'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'tidyr'

Packages suggested but not available for checking:
  'covr', 'r2dii.match', 'rmarkdown', 'roxygen2', 'spelling',
  'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'covr', 'readr', 'rmarkdown', 'stringi', 'testthat'
Running ‘testthat.R’ [0s/0s]
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', 'stringi', 'tidyr'

Packages suggested but not available for checking:
  'covr', 'rmarkdown', 'spelling', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'ggrepel', 'stringr', 'scales'

Packages suggested but not available for checking:
  'covr', 'r2dii.analysis', 'r2dii.match', 'rmarkdown', 'spelling',
  'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'plyr', 'devFunc'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'htmltools', 'shiny'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'lmerTest', 'pbkrtest', 'ggplot2', 'afex', 'dplyr'

Packages suggested but not available for checking: 'lme4', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) HTML.data.frame.Rd:54: Lost braces; missing escapes or markup?
    54 | 	\code{getOption("R2HTML.format.decimal.mark")} and {options("R2HTML.format.decimal.mark"=",")}
       |                                                            ^
Package required but not available: ‘rjags’

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'lme4', 'dplyr', 'rockchalk', 'stringr'

Packages suggested but not available for checking: 'bootmlm', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'digest', 'broom'

Packages suggested but not available for checking: 'doBy', 'car', 'reshape'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Found the following calls to attach():
File ‘R2OpenBUGS/R/attach.all.R’:
  attach(x, name = name)
See section ‘Good practice’ in ‘?attach’.
checkRd: (-1) bugs.Rd:158: Lost braces in \itemize; meant \describe ?
checkRd: (-1) bugs.Rd:163: Lost braces in \itemize; meant \describe ?
checkRd: (-1) bugs.Rd:164: Lost braces in \itemize; meant \describe ?
checkRd: (-1) bugs.Rd:166: Lost braces in \itemize; meant \describe ?
Packages suggested but not available for checking:
  'caret', 'e1071', 'evtree', 'glmnet', 'mlr', 'ranger', 'xgboost'
Package required but not available: ‘officer’

Packages suggested but not available for checking:
  'ggplot2', 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/1s]
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: 'shiny', 'DT', 'nextGenShinyApps'

Packages suggested but not available for checking:
  'rmarkdown', 'r2symbols', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘digest’

Packages suggested but not available for checking:
  'covr', 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'covr', 'dplyr', 'ggplot2', 'officer', 'rmarkdown', 'stringi',
  'testthat', 'tidyr', 'xml2'
Running examples in ‘r2rtf-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: assemble_docx
> ### Title: Assemble Multiple RTF Table Listing and Figure Into One Word
> ###   Document
> ### Aliases: assemble_docx
> 
> ### ** Examples
> 
> 
> library(officer)
Error in library(officer) : there is no package called ‘officer’
Execution halted
Running ‘testthat.R’ [0s/0s]
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', 'shiny', 'ggplot2'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘stringr’

Packages suggested but not available for checking: 'rmarkdown', 'qpdf'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'htmltools', 'shiny'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ggplot2', 'scales', 'car'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'rmumps', 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'RcppXPtrUtils', 'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘htmltools’

Packages suggested but not available for checking: 'rmarkdown', 'qpdf'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘stringr’

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Found the following calls to attach():
File ‘R2WinBUGS/R/attach.all.R’:
  attach(x, name = name)
See section ‘Good practice’ in ‘?attach’.
Packages required but not available: 'htmlwidgets', 'bio3d'

Packages suggested but not available for checking:
  'rmarkdown', 'shiny', 'colourpicker', 'covr', 'testthat'

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: 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping vignette re-building
Packages suggested but not available for checking:
  'rmarkdown', 'R.rsp', 'testthat', 'roxygen2', 'BayesianTools',
  'sensitivity', 'dplyr', 'ggplot2'

VignetteBuilder package required for checking but not installed: ‘R.rsp’
Running ‘testthat.R’ [0s/1s]
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 has ‘vignettes’ subdirectory but apparently no vignettes.
Perhaps the ‘VignetteBuilder’ information is missing from the
DESCRIPTION file?
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'plyr', 'reshape2'

Packages suggested but not available for checking:
  'ggplot2', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘RJSONIO’

Packages suggested but not available for checking: 'roxygen2', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘tutorial.helpers’

Packages suggested but not available for checking:
  'arrow', 'dbplyr', 'dplyr', 'duckdb', 'dygraphs', 'gghighlight',
  'ggrepel', 'ggthemes', 'janitor', 'leaflet', 'learnr', 'patchwork',
  'plotly', 'readxl', 'reprex', 'rsconnect', 'rvest', 'socviz',
  'testthat', 'tidymodels', 'tidyverse', 'usethis', 'Lahman',
  'RPostgres', 'RSQLite'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Packages required but not available:
  'dplyr', 'ggplot2', 'ggrepel', 'magick', 'pROC'

Packages suggested but not available for checking: 'rmarkdown', 'pander'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'stringr', 'kableExtra'

Packages suggested but not available for checking:
  'gplots', 'testthat', 'rmarkdown', 'shiny', 'flextable', 'reshape2',
  'ggpubr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'concaveman', 'sf', 'sfheaders'

Packages suggested but not available for checking:
  'accessibility', 'covr', 'dplyr', 'ggplot2', 'gtfstools', 'h3jsr',
  'interp', 'patchwork', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'pkgdown', 'testthat'
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/0s]
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: 'causaleffect', 'dosearch', 'igraph'

Packages suggested but not available for checking:
  'rmarkdown', 'qgraph', 'sqldf'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
'LazyData' is specified without a 'data' directory
Package required but not available: ‘digest’

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: 'miniUI', 'shiny', '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', 'stringr', 'tidyr'

Packages suggested but not available for checking:
  'ggplot2', 'RSQLite', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'testthat', 'pryr'
Running ‘testthat.R’ [0s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
checkRd: (-1) post_RA_fits.Rd:61: Lost braces; missing escapes or markup?
    61 |     \item{\code{H(po_{bm_{n.bm}}, po_act)}:}{ last benchmark prior bm_{n.bm} inducing the fit \code{fits.bm[[n.bm]]} and actual prior}
       |                                                                       ^
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'ggplot2', 'dplyr', 'reshape2', 'plotly', 'cowplot', 'readr',
  'dendextend', 'plyr', 'ggdendro', 'alakazam', 'tigger',
  'htmlwidgets', 'tidyr', 'stringi'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘shiny’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'cubature', 'ggplot2'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'retry', 'stringr', 'tidyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'FateID', 'FNN', 'fpc', 'ggplot2', 'harmony', 'igraph', 'leiden',
  'pheatmap', 'princurve', 'runner', 'Rcpp', 'Rtsne', 'umap'

Packages suggested but not available for checking:
  'batchelor', 'DESeq2', 'rmarkdown', 'slingshot'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'terra', 'sf', 'Rcpp', 'comat', 'RcppArmadillo'

Packages suggested but not available for checking:
  'dplyr', 'testthat', 'rmarkdown', 'covr', 'raster'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/0s]
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', 'ks', 'shiny', 'shinyFiles', 'shinyjs', 'htmlwidgets',
  'ggplot2', 'htmltools', 'rmarchingcubes', 'igraph', 'dplyr',
  'RcppArmadillo', 'RcppEnsmallen'

Packages suggested but not available for checking:
  'testthat', 'r3js', 'rmarkdown', 'plotly', 'geometry', 'readxl',
  'stringr', 'tidyr', 'MCMCpack', 'spelling'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘raster’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'stringr', 'tidyr', 'retry'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘ggplot2’
Packages required but not available: 'htmlwidgets', 'htmltools'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'tidyr', 'shiny'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'lme4', 'ggplot2', 'reshape2', 'lmerTest', 'e1071', 'tidyr',
  'stringr', 'dplyr', 'Hmisc', 'openxlsx', 'car'

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: ‘radsafer’
Packages required but not available:
  'ggplot2', 'tidyr', 'dplyr', 'miniUI', 'shiny', 'shinyjs', 'caret',
  'shinyscreenshot'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'radiant.data', 'ggplot2', 'scales', 'dplyr', 'tidyr', 'shiny',
  'lubridate', 'patchwork'

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:
  'ggplot2', 'lubridate', 'tidyr', 'dplyr', 'arrow', 'broom', 'car',
  'rmarkdown', 'shiny', 'shinyAce', 'DT', 'readr', 'readxl', 'scales',
  'plotly', 'shinyFiles', 'stringi', 'patchwork', 'bslib'

Packages suggested but not available for checking:
  'dbplyr', 'RSQLite', 'RPostgres', 'testthat', 'pkgdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'radiant.data', 'dplyr', 'shiny'

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:
  'radiant.data', 'radiant.basics', 'shiny', 'NeuralNetTools', 'car',
  'ggplot2', 'scales', 'data.tree', 'stringr', 'lubridate', 'tidyr',
  'dplyr', 'DiagrammeR', 'e1071', 'ggrepel', 'broom', 'patchwork',
  'ranger', 'xgboost', 'pdp', 'vip', 'stringi'

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:
  'radiant.data', 'radiant.model', 'shiny', 'dplyr', 'ggplot2',
  'scales', 'car', 'ggrepel', 'lubridate', 'clustMixType', 'patchwork'

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:
  'radiant.data', 'radiant.design', 'radiant.basics', 'radiant.model',
  'radiant.multivariate', 'shiny'

Packages suggested but not available for checking: 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘fields’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘hermite’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'lexicon', '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: 'oro.dicom', 'ptinpoly'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘readr’

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', 'readr', 'stringr', 'dplyr', 'ggthemes'

Packages suggested but not available for checking:
  'testthat', 'beepr', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'vcfR', 'ggplot2', 'ggridges'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'dplyr', 'igraph', 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'rmarkdown', 'tidyr', 'cytofan', 'scales'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘rjson’

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: 'fastcluster', 'MDFS'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'DiagrammeR', 'popdemo'

Packages suggested but not available for checking:
  'ggplot2', 'Rcompadre', 'rmarkdown', 'spelling', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'systemfonts', 'textshaping'

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:
  'htmltools', 'htmlwidgets', 'crosstalk'

Packages suggested but not available for checking: 'rmarkdown', 'shiny'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'igraph', 'reshape', 'ggplot2', 'Hmisc', 'gRbase', 'RBGL', 'Rcpp',
  'RSpectra', 'RcppArmadillo'

Packages suggested but not available for checking: 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'testthat', 'roxygen2', 'rmarkdown', 'reshape2', 'stringr',
  'ggplot2', 'BondValuation', 'R.cache'
Running ‘testthat.R’ [0s/1s]
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 checking math rendering: package 'V8' unavailable
Packages required but not available: 'pcaPP', 'hdrcde', 'ks'

Package suggested but not available for checking: ‘forecast’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'optimx', 'ape', 'stringr', 'pegas', 'htmlwidgets', 'Rfast',
  'gaston', 'MM4LMM', 'RcppEigen'

Packages suggested but not available for checking:
  'rmarkdown', 'plotly', 'haplotypes', 'adegenet', 'ggplot2', 'ggtree',
  'scatterpie', 'phylobase', 'furrr', 'future', 'progressr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'lme4', 'popdemo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'tidyr', 'ggplot2', 'stringr', 'quanteda',
  'quanteda.textstats', 'RSpectra', 'dendextend', 'ggwordcloud',
  'shiny', 'miniUI', 'progressr', 'Rcpp'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'tm', 'FNN', 'vdiffr', 'quanteda.textmodels'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available: 'dplyr', '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: ‘dplyr’

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', 'testthat', 'cowplot', 'reshape2', 'dplyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘wrswoR’

Packages suggested but not available for checking: 'testthat', 'readr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'rvest', 'xml2', 'tidyr', 'dplyr', 'stringr', 'robotstxt', 'stringi'

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:
  'DT', 'haven', 'Hmisc', 'ggplot2', 'openxlsx', 'rclipboard', 'readr',
  'shiny', 'shinyFiles', 'shinydashboard', 'shinyjs', 'shinyWidgets',
  'stringi', 'stringr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'dplyr', 'ggrepel', 'imputeTS'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'testthat', 'rmarkdown'
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/0s]
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:
  'htmltools', 'htmlwidgets', 'reactR', 'shiny', 'lubridate', 'xml2',
  'stringr'

Package suggested but not available for checking: ‘reshape2’

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:
  'shiny', 'testthat', 'shinydashboard', 'lubridate'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'fastcluster', 'e1071', 'gplots', 'pcaMethods', 'stringr', 'webchem',
  'ggplot2'

Packages suggested but not available for checking:
  'rmarkdown', 'xcms', 'testthat', 'patrick', 'MSnbase',
  'InterpretMSSpectrum', 'xml2', 'stringi', 'readxl'

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', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'urltools', 'lubridate', 'dplyr'

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’
Running ‘testthat.R’ [0s/0s]
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: ‘readxl’

Packages suggested but not available for checking:
  'covr', 'testthat', 'httptest', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘fields’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘xml2’

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'tidyverse', 'ggplot2', 'dplyr', 'plotly',
  'openxlsx', 'RSQLite', 'reticulate', 'BiocParallel', 'Spectra',
  'arrow', 'rvest'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
'LazyData' is specified without a 'data' directory
Running ‘test-all.R’ [0s/0s]
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
'LazyData' is specified without a 'data' directory
Packages required but not available: 'sparseFLMM', 'RSpectra'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'stringr', 'V8', 'scales', 'Rtsne'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'DT', 'GGally', 'ggplot2', 'ggrepel', 'ranger', 'reshape2',
  'rmarkdown'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘BRISC’

Packages suggested but not available for checking:
  'rmarkdown', 'ggplot2', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'data.tree', 'DiagrammeR'

Packages suggested but not available for checking:
  'pec', 'prodlim', 'interp', 'caret', 'imbalance'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'car', 'dplyr', 'ggplot2', 'minerva', 'tidyr'

Packages suggested but not available for checking:
  'EZtune', 'e1071', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Hmisc', 'geometry'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Packages required but not available:
  'ggplot2', 'dplyr', 'gsDesign', 'reshape2'

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', 'rmarkdown'
Running ‘testthat.R’ [0s/0s]
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: 'fastGHQuad', 'Rfast', 'doRNG'

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: ‘kernlab’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘toOrdinal’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcpp', 'ggplot2', 'pROC'

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 suggested but not available for checking: 'dplyr', 'rmarkdown'
Package required but not available: ‘dplyr’

Packages suggested but not available for checking:
  'spelling', 'covr', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'caret', 'e1071'

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.
Invalid package aliases in Rd file 'randtests-package.Rd':
  ‘randomtests-package’
Skipping checking math rendering: package 'V8' unavailable
checkRd: (-1) auxfun.Rd:22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) auxfun.Rd:23: Lost braces in \itemize; meant \describe ?
checkRd: (-1) auxfun.Rd:24: Lost braces in \itemize; meant \describe ?
checkRd: (-1) auxfun.Rd:25: Lost braces in \itemize; meant \describe ?
checkRd: (-1) auxfun.Rd:26: Lost braces in \itemize; meant \describe ?
checkRd: (-1) auxfun.Rd:34: Lost braces in \itemize; meant \describe ?
checkRd: (-1) auxfun.Rd:35-37: Lost braces in \itemize; meant \describe ?
checkRd: (-1) auxfun.Rd:38-44: Lost braces in \itemize; meant \describe ?
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'alphahull', 'stringi', 'sf', 'terra', 'units', 'rnaturalearth',
  'Rcpp'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'future', 'future.apply', 'progressr', 'sf', 'RSQLite', 'raster',
  'exactextractr'

Packages suggested but not available for checking:
  'testthat', 'ggplot2', 'viridis', 'rmarkdown', 'pkgdown', 'igraph',
  'spdep'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'shiny', 'spocc', 'BIEN', 'terra'

Packages suggested but not available for checking:
  'dismo', 'googlesheets4', 'rmarkdown', 'rgbif', 'dplyr', 'sf'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcpp', '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: 'shiny', 'tidyverse'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'fastmap', 'memoise'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘kohonen’
Error(s) in re-building vignettes:
  ...
--- re-building ‘RankAggreg.Rnw’ using Sweave
Loading required package: cluster
Package 'mclust' version 6.0.1
Type 'citation("mclust")' for citing this R package in publications.

Error: processing vignette 'RankAggreg.Rnw' failed with diagnostics:
 chunk 4 
Error in library(kohonen) : there is no package called ‘kohonen’

--- failed re-building ‘RankAggreg.Rnw’

SUMMARY: processing the following file failed:
  ‘RankAggreg.Rnw’

Error: Vignette re-building failed.
Execution halted
Packages required but not available: 'Rfast', '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: 'Rcpp', 'RcppEigen'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘rms’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'Rcpp', 'optimx'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘rms’
Running examples in ‘rankhazard-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: rankhazard-package
> ### Title: Rank-hazard plots
> ### Aliases: rankhazard-package rankhazard
> ### Keywords: package hplot survival
> 
> ### ** Examples
> 
> library(survival)
> model <- coxph(Surv(time,status) ~ age + sex + ph.karno, data = cancer, x=TRUE)
> rankhazardplot(model, data=cancer)
Y-axis range:  0.608 1.49 
 
Relative hazards for each covarite: 
          Min. 1st Qu. Median 3rd Qu. Max.
age      0.743   0.917      1    1.08 1.27
sex      0.608   0.608      1    1.00 1.00
ph.karno 0.766   0.875      1    1.07 1.49
> library(rms)
Error in library(rms) : there is no package called ‘rms’
Execution halted
Skipping checking math rendering: package 'V8' unavailable
Skipping vignette re-building
Packages suggested but not available for checking:
  'rmarkdown', 'tikzDevice', 'R.rsp'

VignetteBuilder package required for checking but not installed: ‘R.rsp’
Errors in running code in vignettes:
when running code in ‘intro.Rmd’
  ...
Error in loadVignetteBuilder(pkgdir) : vignette builder 'R.rsp' not found
Calls: <Anonymous> -> loadVignetteBuilder
Execution halted

... incomplete output.  Crash?

  ‘intro.Rmd’ using ‘UTF-8’... failed to complete the test
Package required but not available: ‘netmeta’

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ggplot2', 'scales'

Package suggested but not available for checking: ‘viridis’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'rmarkdown', 'devtools', 'ggplot2', 'pander', 'reshape2'
checkRd: (-1) rankL2R.Rd:18: Lost braces; missing escapes or markup?
    18 | where the vector dimension is 2^{response.number}.}
       |                                 ^
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'RBGL', 'PerfMeas'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'randomForestSRC', 'gbm', 'data.tree'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/RANN.Rcheck/00install.out’ for details.
Package suggested but not available for checking: ‘testthat’
Documented arguments not in \usage in Rd file 'get_parameters.Rd':
  ‘parameters_def’

Documented arguments not in \usage in Rd file 'print.rapi_api.Rd':
  ‘...further’

Documented arguments not in \usage in Rd file 'print.rapi_operation.Rd':
  ‘...further’

Documented arguments not in \usage in Rd file 'print.rapi_schema_function.Rd':
  ‘...further’

Functions with \usage entries need to have the appropriate \alias
entries, and all their arguments documented.
The \usage entries must correspond to syntactically valid R code.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/0s]
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 suggested but not available for checking: 'plumber', 'testthat'
Running ‘testthat.R’ [0s/1s]
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', 'bigsnpr', 'coloc', 'bigreadr'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ape', 'phangorn'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'RANN', 'PBSmapping'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
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
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/RApiSerialize.Rcheck/00install.out’ for details.
Skipping vignette re-building
Packages suggested but not available for checking: 'testthat', 'R.rsp'

VignetteBuilder package required for checking but not installed: ‘R.rsp’
Package has ‘vignettes’ subdirectory but apparently no vignettes.
Perhaps the ‘VignetteBuilder’ information is missing from the
DESCRIPTION file?
Packages suggested but not available for checking:
  'roxygen2', 'testthat', 'covr'
checkRd: (-1) user_log_dir.Rd:48: Lost braces
    48 | \\env{$XDG_CACHE_HOME} if defined
       |      ^
Running ‘testthat.R’ [0s/0s]
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', 'pander', 'reshape2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'stringr', 'rapportools', 'pander'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'stringr', 'retry', 'dplyr', 'tidyr'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'RSQLite'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'tidyverse'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Packages required but not available:
  'sf', 'terra', 'PBSmapping', 'scales', 'adehabitatHR', 'ggplot2',
  'hypervolume', 'ks', 'Rcpp', 'RcppEigen'

Packages suggested but not available for checking:
  'roxygen2', 'rmarkdown', 'testthat', 'dplyr', 'gurobi', 'rgl'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'lubridate', 'stringr'

Packages suggested but not available for checking:
  'spelling', 'devtools', 'goodpractice', 'roxygen2', 'rmarkdown',
  'testthat', 'usethis', 'covr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘dplyr’

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'stringr', 'tidyr', 'reshape2', 'sqldf'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'glmnet', 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'dendextend', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'latex2exp', 'patchwork', 'tidyr', 'reshape2'

Packages suggested but not available for checking: 'spelling', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
'LazyData' is specified without a 'data' directory
Package required but not available: ‘RSpectra’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'tidyr', 'testthat'

Packages suggested but not available for checking:
  'broom', 'stringr', 'testthat', 'xml2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘reticulate’

Packages suggested but not available for checking:
  'devtools', 'pkgload', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'car', 'RSNNS', 'e1071'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'caret', 'e1071', 'ggplot2', 'FNN', 'ranger', 'KernelKnn',
  'ModelMetrics', 'glmnet'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'DT', 'GGally', 'ggplot2', 'kohonen', 'plotly', 'scales',
  'shiny', 'stringi', 'terra'

Packages suggested but not available for checking: 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'sf', 'terra'

Packages suggested but not available for checking:
  'rmarkdown', 'bcmaps', 'units'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'raster', 'terra'

Packages suggested but not available for checking:
  'rmarkdown', 'rasterVis', 'gstat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'raster', 'fasterize', 'sf'

Package suggested but not available for checking: ‘rasterVis’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Package required but not available: ‘raster’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘raster’

Packages suggested but not available for checking:
  'testthat', 'sf', 'lubridate', 'ggplot2', 'knitcitations', 'leaflet',
  'lmomPi', 'stringr', 'trend'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'covr', 'lintr', 'pkgdown', 'ragg', 'testthat'
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/0s]
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: 'sf', 'terra'

Packages suggested but not available for checking:
  'ggplot2', 'rmarkdown', 'testthat', 'tidyterra'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcpp', 'terra'

Packages suggested but not available for checking:
  'igraph', 'rasterVis', 'sf', 'gstat', 'fields', 'exactextractr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'raster', 'terra', 'latticeExtra'

Packages suggested but not available for checking: 'rgl', 'ggplot2', 'sf'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ggplot2', 'Rirt', 'reshape2'

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’
Running ‘testthat.R’ [0s/1s]
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', 'rmarkdown', 'covr'
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/0s]
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:
  'ape', 'geiger', 'phylolm', 'readr', 'mvMORPH', 'Rcpp',
  'RcppArmadillo'

Packages suggested but not available for checking: 'rmarkdown', 'phytools'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'Rcpp', 'RcppParallel', 'rstan', 'rstantools',
  'RcppEigen', 'StanHeaders'

Packages suggested but not available for checking:
  'covr', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/1s]
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: ‘ggplot2’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘reticulate’

Packages suggested but not available for checking:
  'arrow', 'dplyr', 'dbplyr', 'testthat', 'vroom', 'covr', 'rmarkdown',
  'jsonify'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'pROC', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
checkRd: (-1) S1.Rd:10: Lost braces; missing escapes or markup?
    10 | \item{m_bar}{the sample vector of moments for a specified vector $(h_{a,r},y)$}
       |                                                                      ^
checkRd: (-1) S1.Rd:16: Lost braces; missing escapes or markup?
    16 | \item{N_k}{index of the $ h_{a,r}$ function considered}
       |                             ^
'LazyData' is specified without a 'data' directory
Note: skipping ‘RationalExp.Rnw’ due to unavailable dependencies:
  'rmarkdown'
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'gmp', 'Rcpp', 'RcppEigen'

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: 'ggplot2', 'stringr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'crul', 'dplyr', 'fs', 'tibblify', 'tidyr'

Packages suggested but not available for checking:
  'vcr', 'testthat', 'rmarkdown', 'webmockr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'stringi', 'stringr', 'tidyr', 'dplyr'

Packages suggested but not available for checking:
  'pmml', 'amap', 'arulesViz', 'biclust', 'cairoDevice', 'doBy',
  'e1071', 'fpc', 'ggdendro', 'gplots', 'Hmisc', 'janitor', 'kernlab',
  'mice', 'plyr', 'RGtk2', 'readxl', 'reshape', 'ROCR', 'scales', 'tm',
  'xgboost'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'RcppParallel', 'gaston', 'mlogit', 'dfidx', 'bedr',
  'RcppEigen'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dipsaus', 'raveio', 'rpymat', 'shidashi', 'shiny', 'shinyWidgets',
  'threeBrain', 'shinyvalidate', 'htmlwidgets'

Packages suggested but not available for checking:
  'htmltools', 'fastmap', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dipsaus', 'filearray', 'fst', 'stringr', 'targets', 'promises',
  'threeBrain', 'rpymat', 'ravetools'

Packages suggested but not available for checking:
  'visNetwork', 'testthat', 'rmarkdown', 'clustermq', 'shiny',
  'shinyWidgets', 'freesurferformats', 'rpyANTs', 'readNSx', 'later'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'tidyr'

Packages suggested but not available for checking: 'spelling', '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
Packages required but not available:
  'cowplot', 'DiagrammeR', 'dplyr', 'dygraphs', 'ggplot2', 'igraph',
  'lubridate', 'Rcpp', 'scales', 'stringr', 'tidyr', 'visNetwork'

Packages suggested but not available for checking:
  'devtools', 'DiagrammeRsvg', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'filearray', 'Rcpp', 'digest', 'RNiftyReg', 'Rvcg'

Packages suggested but not available for checking:
  'freesurferformats', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'golem', 'kableExtra', 'plotly', 'RaMS',
  'rmarkdown', 'shiny', 'shinycustomloader', 'shinydashboard',
  'shinydashboardPlus', 'shinyMatrix'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'ROCR', 'ggplot2', 'tidyr'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'ChainLadder', 'dplyr', 'devtools', 'FinCal', 'ggplot2', 'Lahman',
  'lubridate', 'randomNames', 'readr', 'readxl', 'rmarkdown', 'scales',
  'stringr', 'tidyr'
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.
Packages required but not available: 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking: 'magick', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'rayrender', 'rayvertex'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'raster', 'decido', 'rayimage', 'rayvertex', 'RcppThread',
  'spacefillr'

Packages suggested but not available for checking:
  'sf', 'dplyr', 'Rvcg', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'raster', 'scales', 'rgl', 'terrainmeshr', 'rayimage',
  'rayvertex', 'rayrender', 'RcppArmadillo'

Packages suggested but not available for checking:
  'reshape2', 'viridis', 'av', 'magick', 'ggplot2', 'sf', 'isoband',
  'car', 'geosphere', 'ambient', 'terra', 'lidR', 'elevatr', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'sf', 'units'

Packages suggested but not available for checking:
  'testthat', 'covr', 'lwgeom'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'rayimage', 'digest', 'spacefillr', 'RcppThread'

Packages suggested but not available for checking:
  'Rvcg', 'magick', 'raster', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'stringr', 'readr', 'dplyr', 'rvest', 'ascii', 'digest', 'readxl',
  'tidyr'

Packages suggested but not available for checking:
  'testthat', 'DT', 'miniUI', 'shiny', 'rmarkdown', 'ggplot2', 'covr',
  'scales', 'vcr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘Rcpp’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'stringr', 'dplyr'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘GPfit’

Package suggested but not available for checking: ‘xgboost’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'tidyr', 'dplyr', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'xml2', 'digest'

Packages suggested but not available for checking:
  'testthat', 'miniUI', 'shiny', 'dplyr', 'covr'

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.
Packages required but not available: 'gmp', 'rjson'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'pkgload', 'rmarkdown', 'testthat'
Running ‘runit.R’ [0s/1s]
  Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'stringr', 'dplyr', 'readr', 'digest', 'tidyr', 'fs'

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', 'RcppParallel', 'rstan', 'rstantools', 'bayesplot',
  'ggplot2', 'dplyr', 'RcppEigen', 'StanHeaders'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'rstanarm', 'scales', 'broom', 'tidyr',
  'brms', 'ragg'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/rBeta2009.Rcheck/00install.out’ for details.
Packages suggested but not available for checking: 'rmarkdown', 'RobStatTM'
Packages required but not available:
  'raster', 'dplyr', 'geosphere', 'sfheaders'

Packages suggested but not available for checking:
  'covr', 'rmarkdown', 'roxygen2', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'future', 'future.apply', 'ggplot2'

Packages suggested but not available for checking:
  'ggpubr', 'lintr', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Packages required but not available: 'rbi', 'lubridate', 'reshape2'

Packages suggested but not available for checking:
  'testthat', 'covr', 'stringi', '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:
  'covr', 'miniUI', 'rmarkdown', 'shiny', 'testthat', 'vdiffr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'Rcpp', 'rstan', 'rstantools', 'ggmcmc', 'GGally',
  'stringr', 'RcppEigen', 'RcppParallel', 'StanHeaders'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'DT', 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
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', 'Rcpp', 'RcppParallel', 'rjson', 'openxlsx'

Packages suggested but not available for checking:
  'ape', 'reshape2', 'rhdf5', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘RJSONIO’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘reshape2’

Packages suggested but not available for checking:
  'covr', 'stringi', 'testthat', 'ggplot2', 'rmarkdown'

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: ‘rmarkdown’
Package required but not available: ‘Rcpp’

Package suggested but not available for checking: ‘simplermarkdown’

VignetteBuilder package required for checking but not installed: ‘simplermarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dygraphs', 'shiny'

Package suggested but not available for checking: ‘rmarkdown’

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:
  'mmrm', 'pkgload', 'Rcpp', 'RcppParallel', 'rstan', 'rstantools',
  'RcppEigen', 'StanHeaders'

Packages suggested but not available for checking:
  'dplyr', 'tidyr', 'testthat', 'rmarkdown', 'bookdown', 'lubridate',
  'ggplot2', '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: ‘igraph’
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'lubridate', 'readxl', 'rvest', 'xml2'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘Hmisc’

Packages suggested but not available for checking: 'imbalance', 'rmarkdown'

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: 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘mlr’

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', '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: 'rjson', 'gmp'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘mice’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Package required but not available: ‘dplyr’

Packages suggested but not available for checking:
  'survey', 'rmarkdown', 'testthat'

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: 'terra', 'testthat', 'lidR'

Packages suggested but not available for checking:
  'autothresholdr', 'EBImage', 'imager', 'reticulate'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/RCALI.Rcheck/00install.out’ for details.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'ggplot2', 'scales'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'sf', 'spatstat.geom', 'spatstat.model', 'spatstat.explore',
  'spatstat.linnet', 'spatstat'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘interp’

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: 'igraph', 'gplots'

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:
  'covr', 'testthat', 'vdiffr', 'sf'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘Rcpp’

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘reticulate’

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'plyr', 'rlemon'

Packages suggested but not available for checking:
  'optmatch', 'testthat', 'rrelaxiv'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'Rcpp', 'RcppParallel', 'rstan', 'rstantools', 'dplyr', 'tidybayes',
  'shiny', 'shinythemes', 'RcppEigen', 'StanHeaders'

Packages suggested but not available for checking: 'rmarkdown', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘digest’
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'plyr', 'rcbalance', 'rlemon'

Packages suggested but not available for checking:
  'testthat', 'rrelaxiv', 'optmatch'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'RANN', 'Rfast', 'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘redcapAPI’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘temp.RData’
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'np', 'Benchmarking'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'devtools'
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'gplots', 'Rcpp', 'rgl', 'Rvcg', 'RcppArmadillo'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'uniformly'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking:
  'Rcpp', 'testthat', 'devtools', 'rmarkdown'
'LazyData' is specified without a 'data' directory
Running ‘test-all.R’ [0s/1s]
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: 'igraph', 'sqldf', 'visNetwork'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘raster’

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: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'FNN', 'e1071'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘reticulate’

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', 'plyr', 'oceanmap', 'cleangeo', 'suntools', 'raster',
  'readr', 'dygraphs', 'lubridate', 'shiny', 'htmlwidgets', 'stringr',
  'ggplot2', 'ggedit', 'plotly', 'leaflet.extras2', 'sf'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'maxLik', 'miscTools', 'plm'

Packages suggested but not available for checking: 'car', 'pglm', 'AER'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘hdrcde’

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 suggested but not available for checking:
  'testthat', 'rmarkdown', 'rworldmap', 'vcr'
Running ‘test-all.R’ [0s/0s]
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: ‘Hmisc’

Packages suggested but not available for checking:
  'dplyr', 'rmarkdown', 'spelling', 'stringr', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'dbplyr', '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:
  'dplyr', 'stringr', 'lubridate', 'tidyr'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'shiny', 'bslib'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'e1071', 'factoextra', 'FactoMineR', 'ggplot2', 'mmand', 'reshape',
  'stringi', 'stringr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Found the following files/directories:
  ‘outcmaesdisp.dat’
Package required but not available: ‘digest’

Packages suggested but not available for checking:
  'covr', 'mockery', 'rmarkdown', 'svglite', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'car', 'Hmisc', 'e1071', 'haven', 'readstata13', 'readxl'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘Rcmdr’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'biclust', 'iBBiG', 'superbiclust', 'BicARE', 's4vd', 'BiBitR',
  'Rcmdr', 'gplots', 'viridis'

Package suggested but not available for checking: ‘rqubic’

Depends: includes the non-default packages:
  'biclust', 'fabia', 'iBBiG', 'superbiclust', 'BcDiag', 'BicARE',
  's4vd', 'BiBitR'
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: 'support.CEs', 'Rcmdr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'support.CEs', 'Rcmdr', 'DoE.base'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'support.CEs', 'Rcmdr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘Rcmdr’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'RcmdrMisc', 'Rcmdr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘Rcmdr’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'support.CEs', 'Rcmdr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘Rcmdr’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'DoE.base', 'FrF2', 'DoE.wrapper', 'Rcmdr', 'RcmdrMisc'

Package suggested but not available for checking: ‘FrF2.catlg128’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ez', 'reshape', 'Rcmdr', 'RcmdrMisc'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcmdr', 'epiR'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘Rcmdr’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcmdr', 'Hmisc'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcmdr', 'readstata13'

Packages suggested but not available for checking:
  'car', 'ggplot2', 'meta', 'netmeta', 'Matching', 'pROC', 'tableone',
  'readxl', 'lmerTest', 'swimplot', 'rstatix'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'FactoMineR', 'Rcmdr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'RcmdrMisc', 'Rcmdr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'HH', 'Rcmdr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcmdr', 'ggplot2', 'ggthemes', 'plyr', 'scales'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘Rcmdr’

Packages suggested but not available for checking:
  'rmarkdown', 'ggplot2', 'scales'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘Rcmdr’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'mixlm', 'phia', 'Rcmdr', 'car'

Packages suggested but not available for checking:
  'lme4', 'pbkrtest', 'e1071'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'orloca', 'orloca.es', 'Rcmdr'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'rrcov', 'Rcmdr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcmdr', 'demography', 'forecast', 'ftsa', 'ggplot2', 'dplyr',
  'scales'

Package suggested but not available for checking: ‘rgl’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcmdr', 'runjags', 'igraph', 'rjags'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcmdr', 'pROC'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'SCVA', 'Rcmdr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘Rcmdr’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcmdr', 'car'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘Rcmdr’

Package suggested but not available for checking: ‘rgl’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcmdr', 'Hmisc', 'lme4'

Packages suggested but not available for checking: 'e1071', 'RcmdrMisc'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'tm', 'Rcmdr', 'latticeExtra', 'stringi'

Packages suggested but not available for checking:
  'ROpenOffice', 'tm.plugin.factiva', 'tm.plugin.lexisnexis',
  'tm.plugin.europresse', 'tm.plugin.alceste', 'twitteR'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'IQCC', 'qicharts2', 'rmarkdown', 'Rcmdr'

Package suggested but not available for checking: ‘car’

Depends: includes the non-default packages:
  'IQCC', 'qcc', 'qicharts2', 'randtests', 'rmarkdown',
  'TeachingDemos', 'tseries'
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: ‘Rcmdr’

Package suggested but not available for checking: ‘stringr’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'RcmdrMisc', 'car', 'effects', 'lme4'

Packages suggested but not available for checking:
  'e1071', 'Hmisc', 'readxl', 'rgl', 'rmarkdown', 'sem'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) nonlinearAR1.sim.Rd:8: Lost braces; missing escapes or markup?
     8 | of the form z_n = g(z_{n-1}) + epsilon. A normal distribution is assumed for the innovations.
       |                       ^
Packages required but not available: 'qgraph', 'stringr'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'covr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘dplyr’

Packages suggested but not available for checking: 'testthat', 'tidyfast'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘dplyr’

Package suggested but not available for checking: ‘testthat’

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 suggested but not available for checking: 'testthat', 'covr'
Running ‘testthat.R’ [0s/0s]
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: ‘popdemo’

Packages suggested but not available for checking:
  'dplyr', 'ggplot2', 'rcrossref', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'DescTools', 'plyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'cffr', 'devtools', 'rmarkdown', 'stringr', 'usethis'

Packages suggested but not available for checking: 'fs', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘conics’
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'readr', 'dplyr', 'reshape2', 'ggplot2', 'viridis', 'Rcpp',
  'gganimate', 'vroom', 'tidyr', 'lubridate', 'terra', 'lidR',
  'RcppGSL'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'covr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'covr', 'diffr', 'ggplot2', 'rmarkdown', 'rvest', 'shiny',
  'shinythemes', 'testthat', 'xml2'
Running ‘testthat.R’ [0s/1s]
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:
  'beepr', 'car', 'haven', 'Hmisc', 'survey', 'weights'

Package suggested but not available for checking: ‘rgl’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'tidyr', 'dplyr', 'ggplot2', 'AnnotationDbi', 'DESeq2', 'GEOquery',
  'edgeR', 'stringr', 'ggnewscale', 'ggrepel', 'ggpattern', 'scales',
  'IRdisplay'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'fgsea', 'CePa', 'meta', 'ggvenn',
  'hgu133plus2.db', 'org.Hs.eg.db', 'oligo'

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘gmp’

Packages suggested but not available for checking:
  'testthat', 'partitions', 'RcppBigIntAlgos', 'rmarkdown'

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’

Package suggested but not available for checking: ‘simplermarkdown’

VignetteBuilder package required for checking but not installed: ‘simplermarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘Rcpp’

Package suggested but not available for checking: ‘reticulate’

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.
Package required but not available: ‘gmp’

Packages suggested but not available for checking: 'testthat', 'RcppAlgos'

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', 'MomTrunc', 'Rcpp', 'relliptical', 'StempCens',
  'RcppArmadillo', 'roptim'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘Rcpp’

Packages suggested but not available for checking:
  'rmarkdown', 'spelling', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcpp', 'RcppClassic'

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', '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: ‘Rcpp’

Packages suggested but not available for checking: 'reticulate', 'pinp'

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', 'fs'

Packages suggested but not available for checking: 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘Rcpp’
Packages required but not available: 'Rcpp', '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: 'testthat', 'rmarkdown'

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: ‘rmarkdown’

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'

Package suggested but not available for checking: ‘rmarkdown’

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', 'RcppInt64'

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.
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.
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: 'Rcpp', 'RcppArmadillo'

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'

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', 'rmarkdown', '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: ‘nanotime’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘Rcpp’

Packages suggested but not available for checking: 'dplyr', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcpp', 'RcppParallel'

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: 'rmarkdown', '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: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcpp', 'nloptr'

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:
  'rmarkdown', 'prettydoc', 'RcppEigen'

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'Rcpp', 'rmarkdown'
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/RcppParallel.Rcheck/00install.out’ for details.
Packages suggested but not available for checking:
  'RcppArmadillo', 'devtools', 'roxygen2', 'testthat'
Running ‘testthat.R’ [0s/0s]
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.
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/Rcpp.Rcheck/00install.out’ for details.
Packages required but not available: 'Rcpp', 'RApiSerialize'

Package suggested but not available for checking: ‘RcppMsgPack’

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: ‘Rcpp’

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: ‘Rcpp’

Package suggested but not available for checking: ‘simplermarkdown’

VignetteBuilder package required for checking but not installed: ‘simplermarkdown’

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.
Skipping vignette re-building
Packages suggested but not available for checking:
  'testthat', 'R.rsp', 'Rcpp'

VignetteBuilder package required for checking but not installed: ‘R.rsp’
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/RcppThread.Rcheck/00install.out’ for details.
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: ‘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.
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: ‘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: ‘Rcpp’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcpp', 'RcppGSL'

Packages suggested but not available for checking: 'rmarkdown', 'pinp'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'xml2', 'selectr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
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', 'ggmap', 'htmltools', 'igraph', 'leaflet', 'leafsync',
  'lubridate', 'raster', 'terra'

Packages suggested but not available for checking: 'dplyr', 'rmarkdown'

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:
  'crul', 'xml2', 'plyr', 'dplyr', 'shiny', 'miniUI', 'stringr', 'DT'

Packages suggested but not available for checking:
  'roxygen2', 'testthat', 'rmarkdown', 'vcr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
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:
  'rms', 'ggplot2', 'survminer', 'dplyr', 'patchwork'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
'LazyData' is specified without a 'data' directory
Package required but not available: ‘AER’

Packages suggested but not available for checking: 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'tidyr', 'stringr', 'broom', 'ggplot2'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'MatchIt', 'ggplot2', 'ggpubr', 'PSweight', 'dplyr', 'geex', 'BART',
  'fastDummies', 'tidyr', 'copula', 'shiny', 'shinydashboard', 'caret'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'stringr', 'tidyr', 'ggplot2', 'cellWise'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
GNU make is a SystemRequirements.
Packages required but not available:
  'dplyr', 'tidyr', 'stringr', 'ggplot2', 'furrr'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'tcpl', 'future'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘rjson’

Packages suggested but not available for checking: 'rmarkdown', 'Mercator'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘sf’

Packages suggested but not available for checking:
  'terra', 'readxl', 'units', 'ggplot2', 'tidyterra', 'stringr',
  'rvest', 'xml2', 'scales', 'testthat', 'roxygen2', 'devtools',
  'rmarkdown', 'dplyr', 'lwgeom', 's2', 'covr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'devtools'
Invalid package aliases in Rd file 'Rd2markdown-package.Rd':
  ‘Rd2markdown-package’
'LazyData' is specified without a 'data' directory
Package required but not available: ‘roxygen2’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘igraph’

Packages suggested but not available for checking: 'shiny', 'evolMap'

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.
Package required but not available: ‘reticulate’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘covr’
Package required but not available: ‘crul’

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:
  'configr', 'dplyr', 'rhdf5', 'semver', 'usethis'

Packages suggested but not available for checking: 'units', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'reticulate', 'semver'

Packages suggested but not available for checking:
  'testthat', 'devtools', 'RSQLite', 'rmarkdown', 'dbplyr', 'raster',
  'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
'LazyData' is specified without a 'data' directory
Packages required but not available: 'AER', 'shiny', 'DT'

Packages suggested but not available for checking:
  'devtools', 'testthat', 'roxygen2', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ggplot2', 'lpdensity'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘xml2’

Packages suggested but not available for checking:
  'testthat', 'covr', 'rmarkdown'

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:
  'AER', 'np', 'ggplot2', 'rdd', 'rdrobust', 'rmarkdown'

Packages suggested but not available for checking: 'car', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'truncreg', 'maxLik'

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:
  'covr', 'DiagrammeR', 'pander', 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking:
  'testthat', 'lintr', 'rmarkdown', 'spelling'
'LazyData' is specified without a 'data' directory
Running ‘spelling.R’ [0s/1s]
  Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/spelling.R’ failed.
Complete output:
  > spelling::spell_check_test(vignettes = TRUE, error = FALSE)
  Error in loadNamespace(x) : there is no package called 'spelling'
  Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
  Execution halted
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: 'digest', 'R.rsp'

VignetteBuilder package required for checking but not installed: ‘R.rsp’
Running ‘DevEvalFileProduct.R’ [1s/1s]
  Running ‘DevEvalProduct.R’ [1s/1s]
  Running ‘capabilitiesX11.R’ [1s/2s]
  Running ‘capturePlot.R’ [1s/2s]
  Running ‘dataURI.R’ [1s/1s]
  Running ‘devAll.R’ [1s/1s]
  Running ‘devDump.R’ [1s/1s]
  Running ‘devEqualTypes.R’ [1s/1s]
  Running ‘devEval,error.R’ [1s/1s]
  Running ‘devEval.R’ [3s/5s]
  Running ‘devIsInteractive.R’ [1s/1s]
  Running ‘devIsOpen.R’ [1s/1s]
  Running ‘devList.R’ [1s/1s]
  Running ‘devListIndexOf.R’ [1s/1s]
  Running ‘devNew.R’ [1s/1s]
  Running ‘devOptions.R’ [2s/2s]
  Running ‘devSet.R’ [1s/1s]
  Running ‘devTypeName.R’ [1s/1s]
  Running ‘favicon.R’ [1s/1s]
  Running ‘toNNN.R’ [2s/2s]
  Running ‘withPar.R’ [1s/1s]
Running the tests in ‘tests/devSet.R’ failed.
Complete output:
  > message("*** devSet() ...")
  *** devSet() ...
  > 
  > library("R.devices")
  R.devices v2.17.2 (2024-01-29 13:30:11 UTC) successfully loaded. See ?R.devices for help.
  > 
  > set.seed(0xBEEF)
  > 
  > devList0 <- devList()
  > 
  > # Open several devices in random order
  > idxs <- sample(2:20, size=5L, replace=FALSE)
  > for (idx in idxs) {
  +   idxT <- devSet(idx)
  +   # Sanity check
  +   stopifnot(idxT == idx)
  + }
  > 
  > # Close all devices
  > devOff(idxs)
  null device 
            1 
  > 
  > # Sanity check
  > stopifnot(all.equal(devList(), devList0))
  > 
  > 
  > keys <- list(
  +   A = list(a=1, b=2, c=3),
  +   B = list(a=1, b=2, c=4),
  +   C = list(a=1, b=2),
  +   D = c(a=1, b=2, c=3)
  + )
  > 
  > # Open several devices using key objects
  > idxs <- NULL
  > for (key in keys) {
  +   idx <- devSet(key)
  +   idxs <- c(idxs, idx)
  + }
  Loading required namespace: digest
  Failed with error:  'there is no package called 'digest''
  [2024-02-05 12:12:05.29476] Exception: Package not loaded: digest
  
    at #01. devSet(key)
            - devSet() is in environment 'R.devices'
  
  Error: Package not loaded: digest
  Execution halted
Package has ‘vignettes’ subdirectory but apparently no vignettes.
Perhaps the ‘VignetteBuilder’ information is missing from the
DESCRIPTION file?
Packages required but not available:
  'redland', 'stringi', 'readr', 'dplyr', 'tidyr'

Packages suggested but not available for checking:
  'covr', 'testthat', 'rmarkdown', 'DT', 'lubridate', 'xml2',
  'spelling', 'jsonld'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'plyr', 'dplyr', 'xml2', 'readr', 'lubridate'

Packages suggested but not available for checking: 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'digest', 'storr', 'xml2', 'qdapRegex', 'haven', 'sf'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'ggplot2', 'survey'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [1s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > require(testthat)
  Loading required package: testthat
  Warning message:
  In library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE,  :
    there is no package called 'testthat'
  > require(Rdiagnosislist)
  Loading required package: Rdiagnosislist
  
  Attaching package: 'Rdiagnosislist'
  
  The following objects are masked from 'package:base':
  
      intersect, setdiff, union
  
  > require(bit64)
  Loading required package: bit64
  Loading required package: bit
  
  Attaching package: 'bit'
  
  The following object is masked from 'package:base':
  
      xor
  
  Attaching package bit64
  package:bit64 (c) 2011-2017 Jens Oehlschlaegel
  creators: integer64 runif64 seq :
  coercion: as.integer64 as.vector as.logical as.integer as.double as.character as.bitstring
  logical operator: ! & | xor != == < <= >= >
  arithmetic operator: + - * / %/% %% ^
  math: sign abs sqrt log log2 log10
  math: floor ceiling trunc round
  querying: is.integer64 is.vector [is.atomic} [length] format print str
  values: is.na is.nan is.finite is.infinite
  aggregation: any all min max range sum prod
  cumulation: diff cummin cummax cumsum cumprod
  access: length<- [ [<- [[ [[<-
  combine: c rep cbind rbind as.data.frame
  WARNING don't use as subscripts
  WARNING semantics differ from integer
  for more help type ?bit64
  
  Attaching package: 'bit64'
  
  The following object is masked from 'package:utils':
  
      hashtab
  
  The following objects are masked from 'package:base':
  
      %in%, :, is.double, match, order, rank
  
  > require(data.table)
  Loading required package: data.table
  
  Attaching package: 'data.table'
  
  The following object is masked from 'package:bit':
  
      setattr
  
  > 
  > test_check("Rdiagnosislist")
  Error in test_check("Rdiagnosislist") : 
    could not find function "test_check"
  Execution halted
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/1s]
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: ‘rmarkdown’
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'ADMM', 'CVXR', 'RANN', 'Rcpp', 'RcppDE', 'RSpectra', 'maotai',
  'mclustcomp', 'RcppArmadillo', 'RcppDist'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'gplots', 'stringr'

Package suggested but not available for checking: ‘ggplot2’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘units’

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'devtools'

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 required but not available: ‘reshape2’

Packages suggested but not available for checking:
  'ape', 'testthat', 'rmarkdown', 'covr'

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:
  'readxl', 'stringr', 'xml2', 'lubridate'

Packages suggested but not available for checking:
  'chipPCR', 'reshape2', 'qpcR', 'dplyr', 'ggplot2', 'MBmca', 'shiny',
  'shinyjs', 'shinythemes', 'shinyMolBio', 'V8', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rfast', 'Rcpp'

Packages suggested but not available for checking:
  'testthat', 'copula', 'qad'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ggplot2', 'rdrobust'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'GOSemSim', 'org.Hs.eg.db'
'LazyData' is specified without a 'data' directory
Packages required but not available: 'stringr', 'xml2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘cellWise’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'testthat', 'mockery'
Invalid package aliases in Rd file 'rdoc_options.Rd':
  ‘rdoc_options-package’
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/0s]
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: ‘rjson’

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'urltools', 'glmnet', 'xml2', 'virustotal', 'aws.alexa', 'devtools'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'lintr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'testthat', 'rmarkdown'
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/1s]
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: ‘devtools’

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’
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘rdrobust’

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: 'xml2', 'igraph', 'stringr', '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: ‘ggplot2’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'crul', 'hoardr'

Packages suggested but not available for checking: 'testthat', 'vcr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'ggplot2', 'igraph', 'reshape2', 'scales', 'anytime', 'Hmisc', 'ergm'

Packages suggested but not available for checking:
  'survey', 'sspse', '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:
  'rmarkdown', 'dplyr', 'ggplot2', 'latex2exp'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘MCMCpack’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'digest', 'rmarkdown', 'stringi'

Packages suggested but not available for checking:
  'ggplot2', 'roxygen2', 'testthat', 'vroom'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'dplyr'
Packages suggested but not available for checking:
  'leaflet', 'rmarkdown', 'testthat', 'roxygen2', 'devtools',
  'OSMscale', 'readr', 'terra', 'stars', 'shiny', 'gsheet'
Packages required but not available: 'rgrass', 'stars', 'sf', 'stringr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘Rcpp’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'htmltools', 'reactable', 'rjson', 'shiny'

Packages suggested but not available for checking:
  'covr', 'lintr', 'mockery', 'rcmdcheck', 'shinytest2', 'spelling',
  'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'reactable', 'dplyr', 'htmltools', 'htmlwidgets', 'sass', 'shiny',
  'stringr', 'tippy'

Packages suggested but not available for checking: 'dataui', 'scales'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'digest', 'htmltools', 'htmlwidgets', 'reactR'

Packages suggested but not available for checking:
  'covr', 'crosstalk', 'dplyr', 'fontawesome', 'leaflet', 'rmarkdown',
  'shiny', 'sparkline', 'testthat', 'tippy', 'V8'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'htmltools', 'reactR'

Package suggested but not available for checking: ‘shiny’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'shiny', 'fontawesome', 'rmarkdown', 'htmltools', 'testthat'
Running examples in ‘reactlog-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: reactlog_module_ui
> ### Title: Reactlog Shiny Module
> ### Aliases: reactlog_module_ui reactlog_module_server
> 
> ### ** Examples
> 
> if (!require("shiny")) {
+   message("`shiny` required to run example")
+   return()
+ }
Loading required package: shiny
Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE,  :
  there is no package called ‘shiny’
`shiny` required to run example
Error: no function to return from, jumping to top level
Execution halted
Running ‘testthat.R’ [0s/0s]
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
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘htmltools’

Packages suggested but not available for checking:
  'htmlwidgets', 'rmarkdown', 'shiny', 'V8', 'usethis'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Packages required but not available:
  'readxl', 'dplyr', 'fst', 'tidyr', 'stringi', 'rvest', 'xml2',
  'labelled'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘test-all.R’ [0s/0s]
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 suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/0s]
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: ‘plyr’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'raster', 'stringr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) reader-package.Rd:38: Lost braces in \itemize; meant \describe ?
checkRd: (-1) reader-package.Rd:39: Lost braces in \itemize; meant \describe ?
checkRd: (-1) reader-package.Rd:40: Lost braces in \itemize; meant \describe ?
checkRd: (-1) reader-package.Rd:41: Lost braces in \itemize; meant \describe ?
checkRd: (-1) reader-package.Rd:42: Lost braces in \itemize; meant \describe ?
checkRd: (-1) reader-package.Rd:43: Lost braces in \itemize; meant \describe ?
checkRd: (-1) reader-package.Rd:44: Lost braces in \itemize; meant \describe ?
checkRd: (-1) reader-package.Rd:45: Lost braces in \itemize; meant \describe ?
checkRd: (-1) reader-package.Rd:46: Lost braces in \itemize; meant \describe ?
checkRd: (-1) reader-package.Rd:47: Lost braces in \itemize; meant \describe ?
checkRd: (-1) reader-package.Rd:48: Lost braces in \itemize; meant \describe ?
checkRd: (-1) reader-package.Rd:49: Lost braces in \itemize; meant \describe ?
checkRd: (-1) reader-package.Rd:50: Lost braces in \itemize; meant \describe ?
checkRd: (-1) reader-package.Rd:51: Lost braces in \itemize; meant \describe ?
checkRd: (-1) reader-package.Rd:52: Lost braces in \itemize; meant \describe ?
checkRd: (-1) reader-package.Rd:53: Lost braces in \itemize; meant \describe ?
checkRd: (-1) reader-package.Rd:54: Lost braces in \itemize; meant \describe ?
checkRd: (-1) reader-package.Rd:55: Lost braces in \itemize; meant \describe ?
Found the following files/directories:
  ‘temp.txt’ ‘temp2.csv’ ‘temp3.rda’
Package required but not available: ‘Rcpp’

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'readr', 'lubridate'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'haven', 'readr', 'readxl'

Packages suggested but not available for checking:
  'devtools', 'dplyr', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘stringr’

Packages suggested but not available for checking: 'rmarkdown', 'bookdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) Read.mnist.Rd:31: Lost braces
    31 | item{mark}{the remark of the Info}
       |     ^
checkRd: (-1) Read.mnist.Rd:31: Lost braces
    31 | item{mark}{the remark of the Info}
       |           ^
Auto-generated content requiring editing in Rd file 'readmnist-package.Rd':
  \details: ‘...the package, including the most important ~~ ~~ functions ~~’
'LazyData' is specified without a 'data' directory
Packages required but not available: 'xml2', 'readxl', 'plyr'

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.
Package required but not available: ‘fastmap’

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'spelling'

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', 'rgl', 'spelling'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'readr', 'stringi'

Packages suggested but not available for checking:
  'spelling', 'testthat', 'covr', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'xml2', 'rvest'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'readxl', 'tidyr', 'dplyr', 'xml2', 'rvest', 'stringr', 'lubridate'

Packages suggested but not available for checking:
  'covr', 'testthat', 'rmarkdown', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcpp', 'qvalue', 'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘readr’

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'vroom', 'tzdb'

Packages suggested but not available for checking:
  'covr', 'rmarkdown', 'spelling', 'stringi', 'testthat', 'tzdb',
  'xml2'

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: 'stringr', 'xml2', 'dplyr', 'stringi'

Packages suggested but not available for checking:
  'testthat', 'igraph', 'rmarkdown', 'ggplot2', 'tidyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘Rcpp’

Packages suggested but not available for checking:
  'MatrixExtra', '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: 'readr', 'stringr', '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:
  'digest', 'pdftools', 'readODS', 'readxl', 'streamR', 'stringi',
  'striprtf', 'xml2'

Packages suggested but not available for checking:
  'pkgload', 'rmarkdown', 'quanteda', 'testthat', 'covr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'RSQLite', 'sf'

Packages suggested but not available for checking:
  'covr', 'pool', 'rmarkdown', 'testthat', 'units'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'covr', 'rmarkdown', 'testthat'
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/readxl.Rcheck/00install.out’ for details.
Packages required but not available: 'Rcpp', 'xml2'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘rvest’

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'imputeTS', 'mice'

Package suggested but not available for checking: ‘rmarkdown’

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:
  'broom', 'dplyr', 'flextable', 'ggplot2', 'ggpubr', 'officer',
  'readxl', 'tidyr', 'vcdExtra'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'plyr'

Packages suggested but not available for checking:
  'covr', 'ggplot2', 'testthat', 'tidyr', 'xpectr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
checkRd: (-1) Automotive.Rd:29: Lost braces
    29 | Wikipedia (2018): \dQuote{Automobilindustrie --- Wikipedia{,} Die freie Enzyklopaedie}. \url{https://de.wikipedia.org/wiki/Automobilindustrie} (accessed October 14, 2018). Own postprocessing.
       |                                                           ^
checkRd: (-1) Automotive.Rd:33: Lost braces
    33 | Wikipedia (2018): \dQuote{Automobilindustrie --- Wikipedia{,} Die freie Enzyklopaedie}. \url{https://de.wikipedia.org/wiki/Automobilindustrie} (accessed October 14, 2018). 
       |                                                           ^
Skipping checking math rendering: package 'V8' unavailable
Package suggested but not available for checking: ‘digest’
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘stringr’

Packages suggested but not available for checking:
  'rmarkdown', 'spelling', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘dplyr’

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'covr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/rebmix.Rcheck/00install.out’ for details.
Packages suggested but not available for checking: 'stringi', 'testthat'
'LazyData' is specified without a 'data' directory
Running examples in ‘rebus.base-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: Anchors
> ### Title: The start or end of a string.
> ### Aliases: Anchors START END exactly
> ### Keywords: datasets
> 
> ### ** Examples
> 
> START
<regex> ^
> END
<regex> $
> 
> # Usage
> x <- c("catfish", "tomcat", "cat")
> (rx_start <- START %R% "cat")
<regex> ^cat
> (rx_end <- "cat" %R% END)
<regex> cat$
> (rx_exact <- exactly("cat"))
<regex> ^cat$
> stringi::stri_detect_regex(x, rx_start)
Error in loadNamespace(x) : there is no package called ‘stringi’
Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
Running ‘testthat.R’ [0s/0s]
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’ [0s/0s]
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’
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/0s]
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’
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/1s]
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: ‘stringi’
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking: 'testthat', 'rmarkdown'
Running ‘testthat.R’ [0s/0s]
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:
  'digest', 'arrow', 'dplyr', 'future.apply', 'progressr', 'stringi'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'future'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘Rcpp’

Packages suggested but not available for checking:
  'devtools', 'dplyr', 'rgl', 'rmarkdown', 'roxygen2', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'dplyr', 'clock', 'ipred', 'lubridate', 'tidyr'

Packages suggested but not available for checking:
  'covr', 'ddalpha', 'dials', 'ggplot2', 'igraph', 'kernlab',
  'modeldata', 'parsnip', 'RANN', 'RcppRoll', 'rmarkdown', 'rsample',
  'RSpectra', 'splines2', 'testthat', 'workflows', 'xml2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘Rcpp’

Package suggested but not available for checking: ‘simplermarkdown’

VignetteBuilder package required for checking but not installed: ‘simplermarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ape', 'picante', 'phangorn', 'phytools'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'GA', 'Rcpp'

Packages suggested but not available for checking:
  'rmarkdown', 'shiny', 'testthat', 'tufte'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'meteor', 'terra', 'Rcpp'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'stringr', 'tidyr', 'haven', 'dplyr'

Package suggested but not available for checking: ‘testthat’

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:
  'shiny', 'magick', 'opencv', 'sf'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'imager', 'pavo', 'raster'

Packages suggested but not available for checking: 'rmarkdown', 'smoothr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
checkRd: (-1) recombinator.Rd:32-34: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) recombinator.Rd:35-38: Lost braces in \enumerate; meant \describe ?
'LazyData' is specified without a 'data' directory
Running ‘test-all.R’ [0s/1s]
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: 'Rcpp', 'MatrixExtra'

Packages suggested but not available for checking:
  'recommenderlab', 'rmarkdown', 'kableExtra', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘recommenderlab’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘recommenderlab’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘recosystem’

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.
Packages suggested but not available for checking: 'dplyr', 'ggplot2'
'LazyData' is specified without a 'data' directory
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'dplyr', 'survminer'

Packages suggested but not available for checking: 'rmarkdown', '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 suggested but not available for checking: 'testthat', 'rmarkdown'
Running ‘testthat.R’ [0s/0s]
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: 'RSQLite', 'ff', 'e1071', 'ipred'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Malformed Description field: should contain one or more complete sentences.
Package required but not available: ‘ggplot2’

Packages suggested but not available for checking: 'ggpubr', '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: 'rmarkdown', 'prettydoc'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'geepack', 'stringr', 'prodlim'

Packages suggested but not available for checking: 'rmarkdown', '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', 'prevR', 'scales', 'fields', 'move', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'visNetwork', 'readr', 'shiny', 'shinyjs', 'DT',
  'colourpicker', 'rintrojs'

Packages suggested but not available for checking: 'rmarkdown', 'igraph'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'ggplot2', 'splines2', 'RcppArmadillo'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'car', 'UsingR'
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package required but not available: ‘lubridate’

Packages suggested but not available for checking:
  'testthat', 'Hmisc', 'mockery'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'REDCapR', 'tidyr'

Packages suggested but not available for checking:
  'spelling', 'testthat', 'Hmisc', 'readr', 'rmarkdown', 'gt',
  'usethis', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'janitor', 'openxlsx', 'REDCapR', 'stringr', 'tidyr',
  'stringi', 'labelled'

Packages suggested but not available for checking:
  'rmarkdown', 'kableExtra'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘lubridate’

Packages suggested but not available for checking:
  'devtools', 'fs', 'qwraps2', 'rmarkdown', 'rjson', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'readr', 'tidyr'

Packages suggested but not available for checking:
  'spelling', 'covr', 'kableExtra', 'odbc', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'lobstr', 'lubridate', 'REDCapR', 'stringi', 'stringr',
  'tidyr', 'formattable'

Packages suggested but not available for checking:
  'covr', 'labelled', 'lintr', 'openxlsx2', 'readr', 'rmarkdown',
  'skimr', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'rmarkdown', 'dplyr', 'ggplot2', 'tidyr'
Package required but not available: ‘RJSONIO’

Packages suggested but not available for checking:
  'rmarkdown', 'mockery', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'terra', 'reshape'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘REddyProc’

Packages suggested but not available for checking: 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'dplyr', 'readr', 'solartime', 'bigleaf'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'ggplot2', 'tidyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'tidyr', 'lubridate'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/1s]
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: ‘rmarkdown’
Package required but not available: ‘PoissonBinomial’

Packages suggested but not available for checking:
  'rmarkdown', 'BiocStyle', 'dplyr', 'kableExtra', 'magick', 'qvalue'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'sf', 'Rcpp', 'dplyr', 'geos', 'wk', 'RcppArmadillo', 'RcppThread'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'redistmetrics', 'Rcpp', 'stringr', 'dplyr', 'sf', 'doRNG', 'servr',
  'ggplot2', 'patchwork', 'RcppArmadillo', 'RcppThread'

Packages suggested but not available for checking:
  'rmarkdown', 'rmapshaper', 'scales', 'units', 'RSpectra', 'testthat',
  'spelling'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘roxygen2’

Packages suggested but not available for checking:
  'spelling', 'testthat', 'rmarkdown', 'stringi'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'raster', 'plyr', 'sf', 'terra'

Packages suggested but not available for checking:
  'devtools', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcpp', 'RcppThread'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'plumber', 'testthat'
Running ‘testthat.R’ [0s/0s]
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:
  'BAT', 'dismo', 'gdistance', 'geosphere', 'terra', 'predicts'

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.
Package required but not available: ‘storr’

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘AER’
Running examples in ‘REEMtree-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: REEMtree
> ### Title: Create a RE-EM tree
> ### Aliases: REEMtree
> ### Keywords: tree models
> 
> ### ** Examples
> 
> data(simpleREEMdata)
> REEMresult<-REEMtree(Y~D+t+X, data=simpleREEMdata, random=~1|ID)
> 
> # Estimation allowing for autocorrelation
> REEMresult<-REEMtree(Y~D+t+X, data=simpleREEMdata, random=~1|ID,
+ 	correlation=corAR1())
> 
> # Random parameters model for the random effects
> REEMresult<-REEMtree(Y~D+t+X, data=simpleREEMdata, random=~1+X|ID)
> 
> # Estimation with a subset
> sub <- rep(c(rep(TRUE, 10), rep(FALSE, 2)), 50)
> REEMresult<-REEMtree(Y~D+t+X, data=simpleREEMdata, random=~1|ID,
+ 	subset=sub)
> 
> # Dataset from the R library "AER"
> data("Grunfeld", package = "AER")
Error in find.package(package, lib.loc, verbose = verbose) : 
  there is no package called ‘AER’
Calls: data -> find.package
Execution halted
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'readr', 'dplyr', 'stringr', 'tidyr', 'bold', 'taxize', 'xml2',
  'bioseq', 'ape', 'igraph', 'ggplot2', 'ggraph', 'rmarkdown',
  'leaflet'

Packages suggested but not available for checking: 'testthat', 'covr', 'DT'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘extremevalues’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available:
  'sf', 'spdep', 'MCMCglmm', 'classInt', 'dplyr', 'ggplot2'

Packages suggested but not available for checking: 'rmarkdown', 'rcrossref'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'future', 'future.apply'

Package suggested but not available for checking: ‘rmarkdown’

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcpp', 'stringi'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'dplyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'caret', 'dplyr', 'scales'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
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: 'xml2', 'plyr', 'lubridate', '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: 'ks', 'ggplot2', 'stringr', 'rgl'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'stringr', 'lubridate', 'dplyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
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’ [0s/0s]
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: ‘dplyr’

Packages suggested but not available for checking:
  'covr', 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'fda', 'gamm4', 'lme4', 'RLRsim', 'ggplot2'

Packages suggested but not available for checking: 'reshape2', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'tidyr', 'shiny', 'reshape2', 'dplyr', 'lme4', 'plotly',
  'refund'

Packages suggested but not available for checking: 'testthat', 'registr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'car', 'pROC'

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', 'tidyverse', 'dplyr'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘bestglm’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'kableExtra', 'Hmisc', 'geometry'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rfast', 'Rfast2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Found export directive that requires package ‘methods’:
  ‘exportMethods’
Remove all such namespace directives (if obsolete) or ensure that the
DESCRIPTION Depends or Imports field contains ‘methods’.
Packages suggested but not available for checking:
  'testthat', 'covr', 'rmarkdown'
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/regDIF.Rcheck/00install.out’ for details.
Found the following files/directories:
  ‘EnvironmentalA.txt’ ‘EnvironmentalB.txt’ ‘Example.txt’
  ‘Example_Predictions.txt’ ‘Example_RRDist.txt’
  ‘Example_RRDistCol.TIF’ ‘Example_RRDistGrey.TIF’ ‘GeneticA.txt’
  ‘GeneticB.txt’ ‘Inds.txt’
'LazyData' is specified without a 'data' directory
Packages required but not available: 'shiny', 'shinyjs'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'e1071', 'FNN', 'gbm', 'modelr', 'UBL', 'infotheo', 'ggplot2', 'sf'

Packages suggested but not available for checking: 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ggplot2', 'lme4'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'philentropy', 'terra'

Packages suggested but not available for checking:
  'supercells', 'sf', 'testthat', 'covr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'textshaping'

Packages suggested but not available for checking: 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'tidyr', 'readxl', 'stringr'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'covr', 'spelling', 'devtools', 'eurostat',
  'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'tidyr', 'dplyr', 'Rcpp', 'gamm4', 'lme4', 'RcppArmadillo'

Packages suggested but not available for checking:
  'testthat', 'rmarkdown', 'cowplot', 'ggplot2', 'fastglm'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘plgp’
Packages suggested but not available for checking:
  'furrr', 'future', 'geepack', 'mice', 'modelr', 'rmarkdown',
  'stringr', 'testthat', 'tidyverse', 'formattable', 'kableExtra'
Running ‘testthat.R’ [0s/1s]
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: 'igraph', 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking: 'testthat', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'glmnet', 'glmnetUtils', 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking:
  'covr', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'glmnet', 'Rcpp', 'igraph', 'RcppArmadillo'

Packages suggested but not available for checking: 'testthat', 'covr'

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: ‘lme4’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'broom.helpers', 'dplyr'

Packages suggested but not available for checking:
  'roxygen2', 'see', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Package required but not available: ‘ggplot2’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'broom', 'dplyr', 'ggplot2', 'nullabor', 'tidyr'

Packages suggested but not available for checking:
  'rmarkdown', 'patchwork', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘MfUSampler’
checkRd: (-1) fbase1.binomial.Rd:32: Lost braces; missing escapes or markup?
    32 | In all base log-likelihood functions, we have dropped any additive terms that are independent of the distribution parameter, e.g. constant terms or those terms that are dependent on the response variable only. This is done for computational efficiency. Therefore, these functions cannot be used to obtain the absolute values of log-likelihood functions but only in the context of optimization and/or sampling. Users can write thin wrappers around these functions to add the constant terms to the function value. (Derivatives do not need correction. For binomial family, all factorial terms are ignored since they only depend on \code{n} and {y}.)
       |                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  ^
Packages required but not available:
  'DT', 'dplyr', 'shiny', 'golem', 'glmnet', 'loadeR', 'shinyjs',
  'traineR', 'shinyAce', 'echarts4r', 'htmltools', 'shinydashboard',
  'shinycustomloader', 'shinydashboardPlus'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'tidyr', 'usdm', 'scales', 'stringr', 'ggplot2'

Package suggested but not available for checking: ‘testthat’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘SSBtools’

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:
  'GA', 'caret', 'glmnet', 'lbfgs', 'nloptr', 'optimx', 'semPlot',
  'plyr', 'stringr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'formattable', 'plyr', 'sjPlot', 'sjmisc'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'FNN', 'car', 'glmnet', 'text2vec'

Packages suggested but not available for checking:
  'rmarkdown', 'OpenImageR', 'cdparcoord', 'keras', 'magick',
  'partools'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'ape', 'bookdown', 'gap', 'rmarkdown', 'testthat', 'vcfR'
checkRd: (-1) plot.ehh.Rd:27: Lost braces
    27 | \item{type}{plot type (see code{\link[graphics]{plot.default}} and \code{\link[graphics]{matplot}}). 
       |                                ^
checkRd: (-1) plot.ehhs.Rd:27: Lost braces
    27 | \item{type}{plot type (see code{\link[graphics]{plot.default}}.
       |                                ^
Running ‘testthat.R’ [0s/0s]
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: ‘dplyr’

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', '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', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/0s]
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', 'viridis', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘survey’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'testthat', 'rmarkdown'
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking: 'Rglpk', 'Rsymphony'
Running examples in ‘relations-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: choice
> ### Title: Relation-Based Choices
> ### Aliases: relation_choice
> ### Keywords: math
> 
> ### ** Examples
> 
> data("SVM_Benchmarking_Classification")
> ## Determine the three best classification learners in the above sense.
> relation_choice(SVM_Benchmarking_Classification, k = 3)
Error in loadNamespace(x) : there is no package called ‘Rglpk’
Calls: relation_choice ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
Error(s) in re-building vignettes:
  ...
--- re-building ‘relations.Rnw’ using Sweave
Loading required package: Rgraphviz
Loading required package: graph
Loading required package: BiocGenerics

Attaching package: ‘BiocGenerics’

The following objects are masked from ‘package:stats’:

    IQR, mad, sd, var, xtabs

The following objects are masked from ‘package:base’:

    Filter, Find, Map, Position, Reduce, anyDuplicated, aperm, append,
    as.data.frame, basename, cbind, colnames, dirname, do.call,
    duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
    lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
    pmin.int, rank, rbind, rownames, sapply, setdiff, table, tapply,
    union, unique, unsplit, which.max, which.min

Loading required package: grid

Error: processing vignette 'relations.Rnw' failed with diagnostics:
 chunk 26 (label = consensus1b) 
Error in loadNamespace(x) : there is no package called ‘Rglpk’

--- failed re-building ‘relations.Rnw’

SUMMARY: processing the following file failed:
  ‘relations.Rnw’

Error: Vignette re-building failed.
Execution halted
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘densEstBayes’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'EstimationTools', 'lamW'

Packages suggested but not available for checking:
  'rmarkdown', 'viridis', 'autoimage', 'V8'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'readxl', 'ggforce', 'ggplot2', 'dplyr', 'sf', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
checkRd: (-1) rem.dyad.Rd:121: Lost braces; missing escapes or markup?
   121 | \item Single or multiple covariates, time varying: For \code{CovSnd}, \code{CovRec}, or \code{CovInt}, an \code{m} by \code{p} by {n} array whose respective dimensions index time (i.e., event number), covariate, and actor.  For \code{CovEvent}, a \code{m} by \code{p} by \code{n} by \code{n} array, whose dimensions are analogous to the previous case.
       |                                                                                                                                   ^
Skipping checking math rendering: package 'V8' unavailable
Package required but not available: ‘glmnet’

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'tidyr', 'ggplot2', 'ggExtra', 'dplyr', 'bde'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'relaimpo', 'Rmisc', 'caret', 'ggplot2', 'reshape2'

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: ‘Rcmdr’
Packages required but not available: 'Rcpp', 'Ryacas0', 'RcppArmadillo'

Packages suggested but not available for checking: 'ggExtra', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'multicool', 'rvest', 'stringr', 'xml2', 'Rcpp'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'ggplot2', 'pammtools', 'scales'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'ggplot2', 'reshape2', 'Rcpp', 'EnvStats', 'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'sf', 'units'

Packages suggested but not available for checking:
  'dplyr', 'ggplot2', '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', 'rmarkdown'

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
Packages suggested but not available for checking: 'covr', 'testthat'
Packages suggested but not available for checking: 'testthat', 'rmarkdown'
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/0s]
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: ‘fda’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'Rcpp', 'igraph', 'RcppArmadillo'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘rmarkdown’
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'JointAI', 'rjags', 'future', 'doFuture', 'ggplot2', 'progressr',
  'mcmcse'

Packages suggested but not available for checking:
  'rmarkdown', 'bookdown', 'R.rsp', 'ggpubr', 'testthat', 'spelling'

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: 'igraph', 'stream'

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’
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
  > # * https://testthat.r-lib.org/articles/special-files.html
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available:
  'geosphere', 'Rcpp', 'CompQuadForm', 'RcppEigen'

Packages suggested but not available for checking:
  'dplyr', 'rmarkdown', 'sqldf', 'devtools', 'ggplot2', 'reshape2',
  'sf'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'raster', 'latticeExtra', 'scales'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'covr', 'mockery', 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
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: ‘dplyr’

Packages suggested but not available for checking:
  'flextable', 'ggplot2', 'see', 'ggrepel', 'ggsignif', 'qqplotr',
  'broom', 'ggpubr', 'interactions', 'openxlsx2', 'patchwork',
  'testthat', '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: 'statnet', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Packages required but not available: 'Rcpp', 'RcppArmadillo'

Packages suggested but not available for checking: 'remify', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'Rcpp', 'remify', 'remstats', 'mvnfast', 'RcppArmadillo'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'optimx', 'AER', 'lme4', 'Rcpp', 'RcppEigen'

Packages suggested but not available for checking:
  'testthat', 'covr', 'R.rsp'

VignetteBuilder package required for checking but not installed: ‘R.rsp’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking: 'testthat', 'rmarkdown'
checkRd: (-1) rentrez.Rd:17-21: Lost braces
    17 | /enumerated{
       |            ^
Running ‘test-all.R’ [0s/0s]
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
Skipping checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking:
  'covr', 'devtools', 'miniUI', 'reticulate', 'rmarkdown', 'shiny',
  'testthat'
Running ‘testthat.R’ [0s/0s]
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: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
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', 'lubridate', 'rmarkdown', 'readr', 'pool', 'openxlsx',
  'digest'

Packages suggested but not available for checking:
  'spelling', 'testthat', 'RSQLite', 'RPostgres', 'duckdb'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Packages required but not available: 'ddalpha', 'geometry', 'rgl'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Skipping checking math rendering: package 'V8' unavailable
'LazyData' is specified without a 'data' directory
Packages required but not available: 'dplyr', 'stringr'

Packages suggested but not available for checking:
  'rmarkdown', 'kableExtra'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'igraph', 'reshape2', 'stringi', '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: ‘R.rsp’

VignetteBuilder package required for checking but not installed: ‘R.rsp’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'kableExtra', 'rmarkdown', 'testthat'
Package required but not available: ‘dat’

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:
  'readxl', 'PowerTOST', 'lmerTest', 'pbkrtest'

Packages suggested but not available for checking:
  'rmarkdown', 'testthat', 'devtools'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'spatstat', 'spatstat.geom', 'spatstat.explore'

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 suggested but not available for checking: 'roxygen2', 'testthat'
Running ‘run-all.R’ [0s/0s]
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: 'ggplot2', 'shiny', 'colourpicker'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'digest', 'plyr', 'R.cache'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'flextable', 'lme4', 'lmerTest', 'officer'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘rmarkdown’

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'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘digest’

Packages suggested but not available for checking:
  'igraph', 'shiny', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'janitor', 'lubridate'

Packages suggested but not available for checking:
  'devtools', 'ggplot2', 'ggrepel', 'rmarkdown', 'scales', 'tufte',
  'spelling'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'fmtr', 'stringi'

Packages suggested but not available for checking:
  'testthat', 'dplyr', 'tidyr', 'readr', 'rmarkdown', 'ggplot2',
  'survminer', 'covr', 'libr', 'devEMF', 'patchwork'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'pcutils', 'scales', 'ggnewscale', 'reshape2',
  'stringr'

Packages suggested but not available for checking:
  'rmarkdown', 'plyr', 'e1071', 'factoextra', 'pheatmap', 'readr',
  'ggrepel', 'clusterProfiler', 'enrichplot', 'pathview', 'MetaNet',
  'igraph'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'fs', 'rmarkdown'

Packages suggested but not available for checking: 'testthat', 'covr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'brms', 'ivreg', 'lme4', 'dplyr', 'rmarkdown', 'rstanarm', 'testthat'
Skipping checking math rendering: package 'V8' unavailable
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'cowplot', 'geepack', 'ggplot2', 'ggpubr', 'kableExtra', 'pander',
  'plyr', 'rstatix', 'scales'

Packages suggested but not available for checking: 'rmarkdown', 'testthat'

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package required but not available: ‘pROC’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/0s]
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 checking math rendering: package 'V8' unavailable
Packages suggested but not available for checking: 'tourr', 'amap'
Running examples in ‘REPPlab-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: EPPlab
> ### Title: Function for Exploratory Projection Pursuit.
> ### Aliases: EPPlab
> 
> ### ** Examples
> 
> 
>   library(tourr)
Error in library(tourr) : there is no package called ‘tourr’
Execution halted
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'shiny', 'DT'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'dplyr', 'Rcpp'

Packages suggested but not available for checking: 'rmarkdown', 'ggplot2'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'testthat', 'rmarkdown'
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [0s/0s]
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: 'fs', 'rmarkdown'

Packages suggested but not available for checking:
  'covr', 'miniUI', 'shiny', 'spelling', 'styler', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'GetoptLong', 'ggplot2', 'lme4', 'openxlsx', 'readr',
  'reshape', 'stringr', '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: 'digest', 'fs', 'lobstr'

Packages suggested but not available for checking:
  'covr', 'fastdigest', 'future', 'geodata', 'googledrive', 'qs',
  'raster', 'rmarkdown', 'RSQLite', 'sf', 'terra', 'testthat'

VignetteBuilder package required for checking but not installed: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'testthat', 'covr'
Running ‘testthat.R’ [0s/0s]
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: ‘htmltools’

Packages suggested but not available for checking:
  'stringr', 'testthat', 'leaflet'

Packages which this enhances but not available for checking:
  'htmlwidgets', 'vegalite', 'plotly', 'geojsonio'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Package required but not available: ‘flux’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking: 'testthat', 'xml2'
Running ‘testthat.R’ [0s/0s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  Error in library(testthat) : there is no package called 'testthat'
  Execution halted
Packages required but not available: 'stringi', 'urltools', 'xml2'

Packages suggested but not available for checking:
  'fiery', 'testthat', 'covr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘testthat’
Packages suggested but not available for checking: 'lintr', 'testthat'
Running ‘testthat.R’ [0s/0s]
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: ‘covr’
Package suggested but not available for checking: ‘rmarkdown’
'LazyData' is specified without a 'data' directory
Packages required but not available:
  'crul', 'dplyr', 'digest', 'hoardr', 'lubridate', 'xml2'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'dplyr', 'ggplot2', 'plotdap', 'readr', 'rerddap', 'sf'

Packages suggested but not available for checking:
  'gganimate', 'lubridate', 'rmarkdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'optimx', 'ggplot2', 'reda', 'Rcpp', 'RcppArmadillo'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) NCBirths2004.Rd:16: Lost braces
    16 |     \item{\code{Smoker}}{Mother a smoker? code{No}, \code{Yes}}
       |                                               ^
checkRd: (-1) ExpandProbs.Rd:35: Lost braces; missing escapes or markup?
    35 |      {z_probs2 sqrt((n-1)/n) = t_probs,n-1}
       |      ^
Skipping checking math rendering: package 'V8' unavailable
Skipping checking math rendering: package 'V8' unavailable
Packages required but not available: 'plyr', 'ggplot2'

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:
  'prospectr', 'testthat', 'rmarkdown', 'bookdown'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'reticulate', 'testthat', 'ggplot2', 'ggpubr', 'janitor', 'dplyr'

Packages suggested but not available for checking:
  'rmarkdown', 'covr', 'kableExtra', 'slider', 'tidyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available:
  'keras', 'nloptr', 'Rcpp', 'RcppParallel', 'RcppArmadillo'

Packages suggested but not available for checking:
  'covr', 'dplyr', 'flextable', 'formattable', 'furrr', 'ggplot2',
  'ggridges', 'logKDE', 'officer', 'patchwork', 'reticulate',
  'rmarkdown', 'tensorflow', 'testthat', 'tidyr'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages suggested but not available for checking:
  'Seurat', 'SeuratObject', 'sctransform'
Packages suggested but not available for checking: 'rmarkdown', 'testthat'
Running ‘testthat.R’ [0s/0s]
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', 'Rcpp', 'stringr'

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: ‘plyr’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package which this enhances but not available for checking: ‘SmartMeterAnalytics’
Packages required but not available:
  'ggplot2', 'dplyr', 'fastDummies', 'qgraph', 'igraph', 'wCorr',
  'DirectedClustering'

Package suggested but not available for checking: ‘rmarkdown’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Packages required but not available: 'car', 'ggplot2'

Packages suggested but not available for checking:
  'geepack', 'lme4', 'regtools', 'rmarkdown', 'testthat'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) resistance.Rd:52: Lost braces
    52 |     \item B. Bollob\'{a}s, 1998.  \emph{Modern Graph Theory}.  Springer.
       |                      ^