checkRd: (-1) suggests.Rd:14: Lost braces; missing escapes or markup?
    14 | {suggests} aims to make that workflow as minimal and painless as possible,
       | ^
checkRd: (-1) sunburst.Rd:30: Lost braces; missing escapes or markup?
    30 | nested d3 JSON hierarchy with `{name:...,  children:[];}`.  \code{csvdata}
       |                                ^
checkRd: (-1) sunburst.Rd:88: Lost braces; missing escapes or markup?
    88 | \item{jsondata}{\code{deprecated} use data argument instead; data in nested d3 JSON hierarchy with `{name:...,  children:[];}`}
       |                                                                                                     ^
checkRd: (-1) sund2b.Rd:22: Lost braces; missing escapes or markup?
    22 | nested d3 JSON hierarchy with `{name:...,  children:[];}`.  \code{list}, \code{character},
       |                                ^
Auto-generated content requiring editing in Rd file 'supcluster-package.Rd':
  \references: ‘~~ Literature or other references for background information ~~’
checkRd: (-1) plot.supc.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) BiclustSet-class.Rd:19: Lost braces
    19 |     \item{\code{Number}:}{code{"numeric"}, number of biclusters in the set}
       |                               ^
checkRd: (-1) plot.Rd:42: Lost braces; missing escapes or markup?
    42 |  \item{color.off}{color code; specifying the color for set(s) which are "{absent}" for an intersection.}
       |                                                                          ^
Package suggested but not available for checking: ‘extraTrees’
checkRd: (-1) getFittedProbs.Rd:6-8: Lost braces
     6 | getFittedValues <- function(object) {
       |                                     ^
checkRd: (-1) getFittedProbs.Rd:14-16: Lost braces
    14 | getFittedValues <- function(object) {
       |                                     ^
surfaceSimulate : phytransform: no visible global function definition
  for ‘rescale’
Undefined global functions or variables:
  rescale
Packages suggested but not available for checking:
  'survHEinla', 'survHEhmc', 'INLA'
checkRd: (-1) tprob.Rd:138: Lost braces in \itemize; meant \describe ?
checkRd: (-1) tprob.Rd:139: Lost braces in \itemize; meant \describe ?
checkRd: (-1) tprob.Rd:140: Lost braces in \itemize; meant \describe ?
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checkRd: (-1) tprob.Rd:142: Lost braces in \itemize; meant \describe ?
checkRd: (-1) tprob.Rd:143: Lost braces in \itemize; meant \describe ?
checkRd: (-1) tprob.Rd:144: Lost braces in \itemize; meant \describe ?
checkRd: (-1) tprob.Rd:145: Lost braces in \itemize; meant \describe ?
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checkRd: (-1) coxph_mpl_dc.Rd:24: Lost braces; missing escapes or markup?
    24 | \item{mpl_h0t}{MPL estimates of the baseline hazard for T, i.e. h_{0T}(x_i)}
       |                                                                   ^
checkRd: (-1) coxph_mpl_dc.Rd:25: Lost braces; missing escapes or markup?
    25 | \item{mpl_h0c}{MPL estimates of the baseline hazard for C, i.e. h_{0C}(x_i)}
       |                                                                   ^
checkRd: (-1) coxph_mpl_dc.Rd:26: Lost braces; missing escapes or markup?
    26 | \item{mpl_H0t}{MPL estimates of the baseline cumulative hazard for T, i.e. H_{0T}(x_i)}
       |                                                                              ^
checkRd: (-1) coxph_mpl_dc.Rd:27: Lost braces; missing escapes or markup?
    27 | \item{mpl_H0c}{MPL estimates of the baseline cumulative hazard for C, i.e. H_{0c}(x_i)}
       |                                                                              ^
checkRd: (-1) coxph_mpl_dc.Rd:28: Lost braces; missing escapes or markup?
    28 | \item{mpl_S0t}{MPL estimates of the baseline survival for T, i.e. S_{0T}(x_i)}
       |                                                                     ^
checkRd: (-1) coxph_mpl_dc.Rd:29: Lost braces; missing escapes or markup?
    29 | \item{mpl_S0c}{MPL estimates of the baseline survival for C, i.e. S_{0C}(x_i)}
       |                                                                     ^
checkRd: (-1) sf.Rd:66: Lost braces; missing escapes or markup?
    66 | A {data.table} which is stored as an attribute of
       |   ^
checkRd: (-1) coxDT.Rd:76: Lost braces; missing escapes or markup?
    76 | The estimation procedure here is performed using coxph {survival} and inserting these estimated
       |                                                        ^
checkRd: (-1) predict.DNFOptim.Rd:28: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) predict.DNFOptim.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) predict.DNFOptim.Rd:30: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) predict.DNFOptim.Rd:34: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) predict.DNFOptim.Rd:35: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) predict.DNFOptim.Rd:36: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summary.DNFOptim.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summary.DNFOptim.Rd:30: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summary.DNFOptim.Rd:31: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summary.DNFOptim.Rd:32: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) koInstall.Rd:24: Lost braces; missing escapes or markup?
    24 | set, svKomodo loads {svSocket}, starts the socket server listening to the
       |                     ^
checkRd: (-1) svKomodo-package.Rd:18: Lost braces; missing escapes or markup?
    18 | Komodo and (2) the present {svKomodo} R package that work hand in hand to
       |                            ^
checkRd: (-1) svKomodo-package.Rd:28: Lost braces; missing escapes or markup?
    28 | Nevertheless, the SciViews-K Komodo addin and the {svKomodo} R package
       |                                                   ^
checkRd: (-1) svKomodo-package.Rd:31: Lost braces; missing escapes or markup?
    31 | communication protocols developed in the {svSocket} and {svHttp} R packages.
       |                                          ^
checkRd: (-1) svKomodo-package.Rd:31: Lost braces; missing escapes or markup?
    31 | communication protocols developed in the {svSocket} and {svHttp} R packages.
       |                                                         ^
checkRd: (-1) svKomodo-package.Rd:37: Lost braces; missing escapes or markup?
    37 | Both SciViews-K and {svKomodo} should be considered archived items. I keep
       |                     ^
checkRd: (-1) eff_n.Rd:32: Lost braces; missing escapes or markup?
    32 | \code{\link[survey:surveysummary]{survey::svymean()}} and related functions from the {survey}
       |                                                                                      ^
checkRd: (-1) swDsn.Rd:28: Lost braces
    28 | numeric (scalar or vector): Relative treatment effect upon crossing over from control. Note that this is not the treatment effect (the treatment effect is specified in the call to other functions such as \code{swPwr} or \code{swSim})!  If \code{tx.effect.frac} is set to a scalar with value of 1, the standard SW CRT treatment effect will be presumed. If code{tx.effect.frac} is set to a scalar with a fractional value between 0 and 1, then only the first time point upon crossing over from control will have fractional relative treatment effect; the remaining exposure times will have a relative treatment effect of 1. If a vector of fractional treatment effect is specified, each element of the vector corresponds to the (fractional) treatment effect upon crossing over from control; if the length of the vector is less than total number of exposure times, the remaining time points will have a relative treatment effect value of 1; if the length of the vector is greater than total number of time points after crossing over, not all elements of \code{tx.effect.frac} will be used. The default value is (scalar) 1.
       |                                                                                                                                                                                                                                                                                                                                                                        ^
Package suggested but not available for checking: ‘swephRdata’
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Additional functions and data sets
    Amendments to functions
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    pre-release switchboard (2020 - 2021)
checkRd: (-1) hyph.support.en.Rd:19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) hyph.support.en.Rd:20: Lost braces in \itemize; meant \describe ?
Packages suggested but not available for checking: 'sylly.de', 'sylly.es'
checkRd: (-1) kRp.hyphen-methods.Rd:84: Lost braces in \itemize; meant \describe ?
checkRd: (-1) kRp.hyphen-methods.Rd:85: Lost braces in \itemize; meant \describe ?
checkRd: (-1) kRp.hyphen-methods.Rd:86: Lost braces in \itemize; meant \describe ?
checkRd: (-1) kRp.hyphen-methods.Rd:87: Lost braces in \itemize; meant \describe ?
checkRd: (-1) manage.hyph.pat.Rd:53: Lost braces in \itemize; meant \describe ?
checkRd: (-1) manage.hyph.pat.Rd:54: Lost braces in \itemize; meant \describe ?
checkRd: (-1) manage.hyph.pat.Rd:55: Lost braces in \itemize; meant \describe ?
checkRd: (-1) manage.hyph.pat.Rd:56: Lost braces in \itemize; meant \describe ?
checkRd: (-1) elliptical.ts.Rd:18: Lost braces; missing escapes or markup?
    18 |   \item{epsilon}{positive convergence tolerance \emph{e}; the iterations converge when |fit - fit_{old}|/|fit| < \emph{e}. Default is \emph{e=1e-04}.}
       |                                                                                                   ^
Package suggested but not available for checking: ‘odeintr’
checkRd: (-1) coord2dist.Rd:14: Lost braces; missing escapes or markup?
    14 | \code{n} x 4 matrix of coordinates consisting of {lat or y, lon or x} pairs for each each site
       |                                                  ^
checkRd: (-1) create_synthetic_example.Rd:10: Lost braces in \itemize; meant \describe ?
checkRd: (-1) create_synthetic_example.Rd:11: Lost braces in \itemize; meant \describe ?
checkRd: (-1) create_synthetic_example.Rd:12: Lost braces in \itemize; meant \describe ?
checkRd: (-1) initial_estimates_example.Rd:10: Lost braces in \itemize; meant \describe ?
checkRd: (-1) initial_estimates_example.Rd:11: Lost braces in \itemize; meant \describe ?
checkRd: (-1) initial_estimates_example.Rd:12: Lost braces in \itemize; meant \describe ?
checkRd: (-1) robCov.Rd:19-20: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) robCov.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) robCov.Rd:22: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) robCov.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) slice.Rd:28: Lost braces
    28 | before plotting {ex: \code{trans = c(s = "exp", d = "exp")}}/}
       |                 ^
Found the following files/directories:
  ‘test.csv’
Running examples in ‘T2DFitTailor-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: TailorExercisePlan
> ### Title: Tailor Exercise Plan for T2D Patients
> ### Aliases: TailorExercisePlan
> 
> ### ** Examples
> 
> # Create a demo dataframe
> set.seed(16)
> df <- data.frame(
+ Age = sample(39:77, 8, replace = TRUE),
+ Sex = sample(0:1, 8, replace = TRUE),
+ BMI = sample(18:31, 8, replace = TRUE),
+ Duration_T2D = sample(1:26, 8, replace = TRUE),
+ HDL = sample(1:1.7, 8, replace = TRUE),
+ PCS = sample(27:54, 8, replace = TRUE),
+ WHtR = sample(0.4:0.6, 8, replace = TRUE)
+ )
> rownames(df) <- c("xiaoming", "xiaohong", "xiaohua", "xiaogang",
+                   "xiaoli", "zhangsan", "lisi", "wangwu")
> colnames(df) <- c("Age", "Sex", "BMI", "Duration_T2D (year)",
+                   "HDL (mmol/L)", "PCS", "WHtR")
> # Run the TailorExercisePlan function
> demo_result <- TailorExercisePlan(df)
Note: Sample_ID and the rownames of input data correspond on a one-to-one basis.
Error: lexical error: invalid char in json text.
                                       Please check your data format!
                     (right here) ------^
Execution halted
Documented arguments not in \usage in Rd file 'table_params_circle.Rd':
  ‘d’

Documented arguments not in \usage in Rd file 'table_params_rect.Rd':
  ‘d’ ‘scale_breaks’ ‘r_max’

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.
checkRd: (-1) table_ester.Rd:32: Lost braces; missing escapes or markup?
    32 | inside of curly brackets, i.e., { } . For instance, if estimate = 1.23
       |                                 ^
checkRd: (-1) table_ester.Rd:33: Lost braces; missing escapes or markup?
    33 | and error = 0.45, then \code{form} = "{estimate} ({error})" will return
       |                                       ^
checkRd: (-1) table_ester.Rd:33: Lost braces; missing escapes or markup?
    33 | and error = 0.45, then \code{form} = "{estimate} ({error})" will return
       |                                                   ^
checkRd: (-1) tmCtypes.Rd:22: Escaped LaTeX specials: \#
checkRd: (-1) tabmulti.Rd:68: Lost braces
    68 | \\code{yvarlabels = list(race = "Race/ethnicity", age_yrs = "Age (years)")}.}
       |       ^
checkRd: (-1) tabmulti.svy.Rd:67: Lost braces
    67 | \\code{yvarlabels = list(race = "Race/ethnicity", age_yrs = "Age (years)")}.}
       |       ^
checkRd: (-1) parse_logs.Rd:38: Lost braces
    38 |  '{{ip ip_address}} [{{date access_date}}]...'.
       |   ^
checkRd: (-1) parse_logs.Rd:38: Lost braces
    38 |  '{{ip ip_address}} [{{date access_date}}]...'.
       |                      ^
checkRd: (-1) SKPar.Rd:36: Lost braces in \itemize; meant \describe ?
checkRd: (-1) SKPar.Rd:37: Lost braces in \itemize; meant \describe ?
checkRd: (-1) SKPar.Rd:38: Lost braces in \itemize; meant \describe ?
checkRd: (-1) SKPar.Rd:39: Lost braces in \itemize; meant \describe ?
checkRd: (-1) SKPar.Rd:40: Lost braces in \itemize; meant \describe ?
checkRd: (-1) SKPar.Rd:41: Lost braces in \itemize; meant \describe ?
checkRd: (-1) SKPar.Rd:42: Lost braces in \itemize; meant \describe ?
checkRd: (-1) SKPar.Rd:43: Lost braces in \itemize; meant \describe ?
checkRd: (-1) tapnet-package.Rd:40: Escaped LaTeX specials: \&
checkRd: (-1) TAQ-functions.Rd:119: Lost braces
   119 | Brownlees, C. T., and Gallo, G. M. (2006). Financial Econometric Analysis at Ultra{--}High Frequency: Data Handling Concerns, \emph{Computational Statistics and Data Analysis} \bold{51}, 2232--2245.
       |                                                                                   ^
checkRd: (-1) TAQ-package.Rd:59: Lost braces
    59 | Brownlees, C. T., and Gallo, G. M. (2006). Financial Econometric Analysis at Ultra{--}High Frequency: Data Handling Concerns, \emph{Computational Statistics and Data Analysis} \bold{51}, 2232--2245.
       |                                                                                   ^
Package suggested but not available for checking: ‘tashudata’
checkRd: (-1) mean_ci.Rd:24: Lost braces
    24 | \item{na.rm}{logical code{TRUE/FALSE}. Remove NAs from the dataset. Defaults
       |                          ^
checkRd: (-1) median_ci.Rd:24: Lost braces
    24 | \item{na.rm}{logical code{TRUE/FALSE}. Remove NAs from the dataset. Defaults
       |                          ^
checkRd: (-1) tca.Rd:35: Lost braces; missing escapes or markup?
    35 | \item{C1.map}{An \code{p1} by \code{k} matrix of 0/1 values, indicating for each of the \code{p1} covariates in \code{C1} whether to consider its potential effects on the values of each of the \code{k} sources (e.g., if position \code{i,j} in \code{C1.map} is 1 then the potential effect of the \code{i}-th covariate in \code{C1} on the {j}-th source will be considered). If \code{C1.map == NULL} then effects for all covariates in \code{C1} will be considered in each of the sources. Note that \code{C1.map} is available only if \code{constrain_mu == TRUE}.}
       |                                                                                                                                                                                                                                                                                                                                                  ^
checkRd: (-1) windows/tk2reg.Rd:17: Escaped LaTeX specials: \_
checkRd: (-1) windows/tk2reg.Rd:18: Escaped LaTeX specials: \_ \_ \_
checkRd: (-1) windows/tk2reg.Rd:51: Escaped LaTeX specials: \_
checkRd: (-1) windows/tk2reg.Rd:52: Escaped LaTeX specials: \_ \_
checkRd: (-1) windows/tk2reg.Rd:53: Escaped LaTeX specials: \_ \_
checkRd: (-1) windows/tk2reg.Rd:57: Escaped LaTeX specials: \_ \_
checkRd: (-1) windows/tk2reg.Rd:58: Escaped LaTeX specials: \_ \_
checkRd: (-1) windows/tk2reg.Rd:60: Escaped LaTeX specials: \_
Package which this enhances but not available for checking: ‘R2wd’
checkRd: (-1) crossEntropy.Rd:32: Lost braces
    32 | link{squaredError}
       |     ^
Found the following HTML validation problems:
roll_circstats.html:101:1 (roll_circstats.Rd:53): Warning: trimming empty <dt>
checkRd: (-1) sendChatAction.Rd:16: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sendChatAction.Rd:17: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sendChatAction.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sendChatAction.Rd:19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sendChatAction.Rd:20: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sendChatAction.Rd:21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sendChatAction.Rd:22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sendChatAction.Rd:23: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sendChatAction.Rd:24: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sendChatAction.Rd:25: Lost braces in \itemize; meant \describe ?
checkRd: (-1) tcata.line.plot.Rd:72: Lost braces; missing escapes or markup?
    72 | \item{las}{numeric in {0,1,2,3}; the style of the axis labels. See \code{\link[graphics]{par}}.}
       |                       ^
checkRd: (-1) tds.plot.Rd:27: Lost braces; missing escapes or markup?
    27 | \item{las}{numeric in {0,1,2,3}; the style of the axis labels. See: \code{\link[graphics]{par}}}
       |                       ^
checkRd: (-1) Tendril.Rd:53: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Tendril.Rd:54: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Tendril.Rd:55: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Tendril.Rd:56: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Tendril.Rd:57: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Tendril.Rd:58: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Tendril.Rd:59: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Tendril.Rd:60: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Tendril.Rd:61: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Tendril.Rd:62: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Tendril.Rd:63: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Tendril.Rd:64: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Tendril.Rd:65: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Tendril.Rd:66: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Tendril.Rd:67: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) tenFM.rank.Rd:31: Lost braces; missing escapes or markup?
    31 | \item{penalty}{takes value in {1,2,3,4,5}, decides which penalty function to use for each tesnor mode \eqn{k}. Here \eqn{\nu} is a tuning parameter defined in the argument "\code{delta1}", and \eqn{d=\prod_{i=1}^{K} d_k }.
       |                               ^
checkRd: (-1) NEWS.Rd:427: Lost braces; missing escapes or markup?
   427 |       \item  Changes to \code{simulate.stergm} parameters: addition of \code{duration.dependent} parameter: {Logical: Whether the model terms in formula or model are duration dependent. E.g., if a duration-dependent term  is used in estimation/simulation model, the probability of forming or dissolving a tie may dependent on the age the dyad status. If TRUE, the matrix of tie ages will be allocated.}
       |                                                                                                             ^
checkRd: (-1) discordBDStratTNT-ergmProposal-9267ec8b.Rd:18: Lost braces
    18 | code{\link[ergm:blocks-ergmConstraint]{blocks}} constraints and
       |     ^
checkRd: (-1) discordTNT-ergmProposal-bc75dff0.Rd:9: Lost braces
     9 | code{discordance_fraction} of proposed toggles being made on the set of discordant dyads,
       |     ^
checkRd: (-1) MC_CRUDE.Rd:19: Lost braces; missing escapes or markup?
    19 | \item{lsf}{objective function with limit state function in form of function(x) {x[1]+x[2]...}}
       |                                                                                ^
checkRd: (-1) MC_IS.Rd:23: Lost braces; missing escapes or markup?
    23 | \item{lsf}{objective function with limit state function in form of function(x) {x[1]+x[2]...}}
       |                                                                                ^
checkRd: (-1) PROB_BASEVAR-class.Rd:14: Lost braces
    14 | \item{\code{Id}}{Place in vector of objective functional expression function(x){x[id]}}
       |                                                                                ^
checkRd: (-1) PROB_DETVAR-class.Rd:14: Lost braces
    14 | \item{\code{Id}}{Place in vector of objective functional expression function(x){x[id]}}
       |                                                                                ^
checkRd: (-1) SORM.Rd:10: Lost braces; missing escapes or markup?
    10 | \item{lsf}{objective function with limit state function in form of function(x) {x[1]+x[2]...}}
       |                                                                                ^
checkRd: (-1) SYS_LSF-class.Rd:16: Lost braces
    16 | \item{\code{func}}{prepared for objective functions like SYS_LSF$func <- function(x){return(x[1] + x[2])}}
       |                                                                                     ^
checkRd: (-1) lognormConstCVCI.Rd:19: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) lognormConstCVCI.Rd:20: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) lognormConstCVCI.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) normConstCVCI.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) normConstCVCI.Rd:22: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) normConstCVCI.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) testassay.Rd:32: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) testassay.Rd:33: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) testassay.Rd:34: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) testassay.Rd:35: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) testassay.Rd:36: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) testassay.Rd:37: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) testassay.Rd:38: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) testassay.Rd:39: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) testassay.Rd:40: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) getSolution-methods.Rd:23: Lost braces; missing escapes or markup?
    23 | \item{index_only}{if \code{TRUE}, only print item indices. if \code{FALSE}, print all item attributes. (default = {TRUE})}
       |                                                                                                                   ^
Package vignette with \VignetteEngine{} not specifying an engine package:
  ‘tester_introduction.Rnw’
Engines should be specified as \VignetteEngine{PKG::ENG}.
checkRd: (-1) permucycle.Rd:37: Lost braces; missing escapes or markup?
    37 |  {The 2 in the first row means there are two cycles;}
       |  ^
checkRd: (-1) permucycle.Rd:38: Lost braces; missing escapes or markup?
    38 |   {The second row means there is a cycle of length 2, with members  (1,3);}
       |   ^
checkRd: (-1) permucycle.Rd:39: Lost braces; missing escapes or markup?
    39 |  {The third row means  there is a cycle of length 1, with member  (2);}
       |  ^
checkRd: (-1) permucycle.Rd:40: Lost braces; missing escapes or markup?
    40 |  {The fourth row is redundant for this specific case.}
       |  ^
checkRd: (-1) permucycle.Rd:41: Lost braces; missing escapes or markup?
    41 |  {One can read from the output of permucycle() to obtain cycle notation (13)(2) of the permutation, and other information.}
       |  ^
checkRd: (-1) patch_table_env.Rd:25: Lost braces
    25 | \\renewcommand{\\multicolumnx}[3]{\\multicolumn{#1}{c}{#3}}
       |               ^
checkRd: (-1) patch_table_env.Rd:25: Lost braces
    25 | \\renewcommand{\\multicolumnx}[3]{\\multicolumn{#1}{c}{#3}}
       |                                  ^
checkRd: (-1) patch_table_env.Rd:25: Lost braces
    25 | \\renewcommand{\\multicolumnx}[3]{\\multicolumn{#1}{c}{#3}}
       |                                                ^
checkRd: (-1) patch_table_env.Rd:25: Lost braces
    25 | \\renewcommand{\\multicolumnx}[3]{\\multicolumn{#1}{c}{#3}}
       |                                                    ^
checkRd: (-1) patch_table_env.Rd:25: Lost braces
    25 | \\renewcommand{\\multicolumnx}[3]{\\multicolumn{#1}{c}{#3}}
       |                                                       ^
Packages which this enhances but not available for checking:
  'mnlogit', 'Zelig'
checkRd: (-1) lexicon_afinn.Rd:48: Lost braces; missing escapes or markup?
    48 | ``A new {ANEW:} Evaluation of a word list for sentiment analysis in
       |         ^
checkRd: (-1) lexicon_afinn.Rd:54: Lost braces; missing escapes or markup?
    54 | title     = \{A new {ANEW:} Evaluation of a word list for sentiment analysis in microblogs\}, \cr
       |                     ^
checkRd: (-1) infer_Z.Rd:16: Lost braces; missing escapes or markup?
    16 |   \item{nu}{Informally, the probability that the row document has the column treatment.  Formally, the parameter for the variatioanl approximation of z_{i,k}, which is a Bernoulli distribution.}
       |                                                                                                                                                         ^
checkRd: (-1) sibp.Rd:26: Lost braces
    26 | It is recommended to use link{sibp_param_search} instead of this function to search over multiple configurations of the most important parameters.  So long as only the training data is used, the analyst can freely experimient with as many parameter configurations as he likes without corrupting his causal inferences.  Once a parameter configuration is chosen, the user can then use \link{sibp_amce} on the test set to estimate the average marginal component effect (AMCE) for each treatment.}
       |                              ^
checkRd: (-1) sibp.Rd:28: Lost braces; missing escapes or markup?
    28 |   \item{nu}{Informally, the probability that the row document has the column treatment.  Formally, the parameter for the variational approximation of z_{i,k}, which is a Bernoulli distribution.}
       |                                                                                                                                                         ^
checkRd: (-1) sibp_amce.Rd:19: Lost braces
    19 |   \item{sibp.amce}{The table returned by code{sibp_amce}.}
       |                                              ^
checkRd: (-1) make.phrase.matrix.Rd:20: Lost braces
    20 |  \\tabular{rrrrr}{
       |           ^
checkRd: (-1) make.phrase.matrix.Rd:20-23: Lost braces
    20 |  \\tabular{rrrrr}{
       |                  ^
checkRd: (-1) tfd_von_mises_fisher.Rd:63: Lost braces; missing escapes or markup?
    63 | NOTE: Currently only n in {2, 3, 4, 5} are supported. For n=5 some numerical
       |                           ^
checkRd: (-1) predict.tfunHDDC.Rd:31-39: Lost braces
    31 | The teigen family. Stat Comput 22:1021{1029. <doi.org/10.1007/
       |                                       ^
checkRd: (-1) shoulders.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) shoulders.Rd:22: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) shoulders.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly
Documented arguments not in \usage in Rd file 'witcher.Rd':
  ‘palettes’

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.
Documented arguments not in \usage in Rd file 'poisson_likelihood.Rd':
  ‘rate_exp’ ‘rate_ref’ ‘rate_pla’

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.
checkRd: (-1) CPdimensionalityplot.Rd:18: Escaped LaTeX specials: \&
checkRd: (-1) CPdimensionalityplot.Rd:19: Escaped LaTeX specials: \&
checkRd: (-1) Kinship.Rd:15: Escaped LaTeX specials: \&
checkRd: (-1) Kinship.Rd:23: Escaped LaTeX specials: \&
checkRd: (-1) T2func.Rd:44: Escaped LaTeX specials: \&
checkRd: (-1) T2funcrep.Rd:44: Escaped LaTeX specials: \&
checkRd: (-1) T3dimensionalityplot.Rd:18: Escaped LaTeX specials: \&
checkRd: (-1) T3func.Rd:43: Escaped LaTeX specials: \&
checkRd: (-1) T3func.Rd:44: Escaped LaTeX specials: \&
checkRd: (-1) T3funcrep.Rd:43: Escaped LaTeX specials: \&
checkRd: (-1) T3funcrep.Rd:44: Escaped LaTeX specials: \&
checkRd: (-1) TV.Rd:26: Escaped LaTeX specials: \& \& \&
checkRd: (-1) TV.Rd:30: Escaped LaTeX specials: \&
checkRd: (-1) TV.Rd:31: Escaped LaTeX specials: \&
checkRd: (-1) TV.Rd:32: Escaped LaTeX specials: \&
checkRd: (-1) TV.Rd:33: Escaped LaTeX specials: \&
checkRd: (-1) pcamean.Rd:33: Escaped LaTeX specials: \&
checkRd: (-1) threewayanova.Rd:24: Escaped LaTeX specials: \&
checkRd: (-1) 01-dataObjects.Rd:18-19: Lost braces
    18 |   \item \code{sigma}{: A list of length five; each entry is a covariance matrix
       |                     ^
checkRd: (-1) 01-dataObjects.Rd:20-23: Lost braces
    20 |   \item \code{savedSims}{: A list of length five; each entry is a
       |                         ^
checkRd: (-1) 01-dataObjects.Rd:24-26: Lost braces
    24 |   \item \code{savedReap}{: A list of length five; each entry is a
       |                         ^
checkRd: (-1) bin_cols.Rd:50: Lost braces in \itemize; meant \describe ?
checkRd: (-1) bin_cols.Rd:51: Lost braces in \itemize; meant \describe ?
checkRd: (-1) bin_cols.Rd:52: Lost braces in \itemize; meant \describe ?
checkRd: (-1) bin_cols.Rd:53: Lost braces in \itemize; meant \describe ?
checkRd: (-1) bin_cols.Rd:54: Lost braces in \itemize; meant \describe ?
checkRd: (-1) bin_cols.Rd:55: Lost braces in \itemize; meant \describe ?
checkRd: (-1) bin_cols.Rd:56: Lost braces in \itemize; meant \describe ?
checkRd: (-1) bin_cols.Rd:57: Lost braces in \itemize; meant \describe ?
checkRd: (-1) bin_cols.Rd:58: Lost braces in \itemize; meant \describe ?
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Initial Release (v0.1.0)
checkRd: (-1) json_schema.Rd:33: Lost braces; missing escapes or markup?
    33 |   \item object  -> {"name": <type>} e.g., {"age": 32} -> {"age": "number"}
       |                    ^
checkRd: (-1) json_schema.Rd:33: Lost braces; missing escapes or markup?
    33 |   \item object  -> {"name": <type>} e.g., {"age": 32} -> {"age": "number"}
       |                                           ^
checkRd: (-1) json_schema.Rd:33: Lost braces; missing escapes or markup?
    33 |   \item object  -> {"name": <type>} e.g., {"age": 32} -> {"age": "number"}
       |                                                          ^
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Minor changes:
checkRd: (-1) single_imputation.Rd:21-22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) single_imputation.Rd:23-27: Lost braces in \itemize; meant \describe ?
checkRd: (-1) separate_genes.Rd:14: Lost braces
    14 | microbial genes like AbcD, default [A-Za-z][a-z]{2}[A-Z0-9]+}
       |                                                 ^
checkRd: (-1) get_tidysq_options.Rd:37: Lost braces
    37 | \item tidysq_pillar_max_width [code{integer(1)}]\cr
       |                                    ^
checkRd: (-1) read_fasta.Rd:54-55: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) read_fasta.Rd:56: Lost braces in \itemize; \value handles \item{}{} directly
Found the following HTML validation problems:
generate_control.html:87:1 (generate_control.Rd:36): Warning: trimming empty <li>
generate_control.html:86:1 (generate_control.Rd:36): Warning: trimming empty <ol>
generate_weights.html:220:1 (generate_weights.Rd:102): Warning: trimming empty <li>
generate_weights.html:219:1 (generate_weights.Rd:102): Warning: trimming empty <ol>
checkRd: (-1) compare.Rd:46: Escaped LaTeX specials: \&
Invalid package aliases in Rd file 'timeSeq_1.0.4-package.Rd':
  ‘timeSeq_1.0.4-package’
checkRd: (-1) setup_sql_functions.Rd:5: Lost braces; missing escapes or markup?
     5 | \title{Install {timeseriesdb} System Functions}
       |                ^
checkRd: (-1) setup_sql_functions.Rd:17: Lost braces; missing escapes or markup?
    17 | Installs functions needed to operated {timeseriesdb} in
       |                                       ^
checkRd: (-1) setup_sql_grant_rights.Rd:5: Lost braces; missing escapes or markup?
     5 | \title{Grant execute on {timeseriesdb} functions}
       |                         ^
checkRd: (-1) setup_sql_grant_rights.Rd:17: Lost braces; missing escapes or markup?
    17 | Grant execute on {timeseriesdb} functions
       |                  ^
checkRd: (-1) setup_sql_tables.Rd:5: Lost braces; missing escapes or markup?
     5 | \title{Install {timeseriesdb} System Tables}
       |                ^
checkRd: (-1) setup_sql_tables.Rd:17: Lost braces; missing escapes or markup?
    17 | Installs tables needed to operated {timeseriesdb} in
       |                                    ^
checkRd: (-1) setup_sql_triggers.Rd:5: Lost braces; missing escapes or markup?
     5 | \title{Install {timeseriesdb} Triggers}
       |                ^
checkRd: (-1) POSIXst-class.Rd:247: Lost braces
   247 |   do any conversion on the POSIX{l,c}t objects).
       |                                 ^
checkRd: (-1) alcohol.Rd:16-18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) alcohol.Rd:19-21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) alcohol.Rd:22-26: Lost braces in \itemize; meant \describe ?
checkRd: (-1) add_md.Rd:10: Lost braces; missing escapes or markup?
    10 | \item{body}{an XML object generated via {tinkr}}
       |                                         ^
checkRd: (-1) md_ns.Rd:13: Lost braces; missing escapes or markup?
    13 | The {commonmark} package is used to translate markdown to XML, but it does
       |     ^
checkRd: (-1) md_ns.Rd:14: Lost braces; missing escapes or markup?
    14 | not assign a namespace prefix, which means that {xml2} will auto-assign a
       |                                                 ^
checkRd: (-1) stylesheet.Rd:5: Lost braces; missing escapes or markup?
     5 | \title{The {tinkr} stylesheet}
       |            ^
checkRd: (-1) stylesheet.Rd:14: Lost braces; missing escapes or markup?
    14 | This function returns the path to the {tinkr} stylesheet
       |                                       ^
checkRd: (-1) stylesheet.Rd:11: Lost braces; missing escapes or markup?
    11 | stylesheet used by {tinkr}.
       |                    ^
checkRd: (-1) partition_undirected_graph.Rd:20: Lost braces; missing escapes or markup?
    20 | \item{cutoff}{Numeric. The value max(0, g_{i,j} - cutoff) so that there are <\code{.num_components}> components in the graph.}
       |                                           ^
checkRd: (-1) tierChart.Rd:332: Lost braces
   332 |   If the input argument code{boxes} is \code{F}, the \code{lBox},
       |                             ^
Found an obsolete/platform-specific call in the following function:
  ‘.my.tkdev’
Found the platform-specific device:
  ‘X11’
dev.new() is the preferred way to open a new device, in the unlikely
event one is needed.
checkRd: (-1) pmvn.Rd:21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmvn.Rd:22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmvn.Rd:23: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmvt.Rd:23: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmvt.Rd:24: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmvt.Rd:25: Lost braces in \itemize; meant \describe ?
checkRd: (-1) tv_episode_changes.Rd:29: Lost braces; missing escapes or markup?
    29 | This method is used in conjunction with the /tv/{id}/changes method. This method uses the episode_id value found in the change entries.
       |                                                 ^
checkRd: (-1) tv_season_changes.Rd:29: Lost braces; missing escapes or markup?
    29 | This method is used in conjunction with the /tv/{id}/changes method. This method uses the season_id value found in the change entries.
       |                                                 ^
checkRd: (-1) estimateQ.Rd:22: Lost braces
    22 |   \item{SL.library}{specification of prediction algorithms, default is {(\sQuote{SL.glm}, \sQuote{SL.glmnet}, \sQuote{tmle.SL.dbarts2})}. In practice, including more prediction algorithms in the library improves results.}
       |                                                                        ^
checkRd: (-1) tmle.Sl.dbarts2.Rd:26: Lost braces
    26 | \item{id}{id}{id to group observations, not used}
       |              ^
checkRd: (-1) tmle.Sl.dbarts2.Rd:51: Lost braces
    51 | {object}{an object of type tmle.SL.dbarts2 used internally by \code{Super Learner}}
       |         ^
checkRd: (-1) pvalEffectPlot.Rd:90: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pvalEffectPlot.Rd:91: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pvalEffectPlot.Rd:92: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pvalEffectPlot.Rd:93: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pvalEffectPlot.Rd:94: Lost braces in \itemize; meant \describe ?
Packages suggested but not available for checking:
  'Rcampdf', 'tm.lexicon.GeneralInquirer'
checkRd: (-1) jsonStr.Rd:5: Lost braces; missing escapes or markup?
     5 | \title{Format data as a JSON object (like this: {"x": "120"}).}
       |                                                 ^
checkRd: (-1) jsonStr.Rd:18: Lost braces; missing escapes or markup?
    18 | Format data as a JSON object (like this: {"x": "120"}).
       |                                          ^
checkRd: (-1) fixed_width_no_modeling.Rd:26: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) fixed_width_no_modeling.Rd:27: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) fixed_width_no_modeling.Rd:28: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Data.Rd:10: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Data.Rd:11: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Data.Rd:12: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Data.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Data.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Data.Rd:15: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Data.Rd:16: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Data.Rd:17: Lost braces in \itemize; meant \describe ?
checkRd: (-1) TopDom.Rd:21: Lost braces; missing escapes or markup?
    21 | Recommended range is in {5, ..., 20}.}
       |                         ^
checkRd: (-1) getSegsExtra.Rd:14: Lost braces
    14 | \item{data}{data.table returned from function /code{tdtr}}
       |                                                    ^
checkRd: (-1) ETM.Rd:33: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ETM.Rd:34: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ETM.Rd:35: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ETM.Rd:36: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ETM.Rd:37: Lost braces in \itemize; \value handles \item{}{} directly
Packages suggested but not available for checking:
  'RGtk2', 'gWidgets2RGtk2'
Package suggested but not available for checking: ‘toscaData’
checkRd: (-1) norm_bin.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) norm_bin.Rd:19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) parse_beast_output_files.Rd:23: Lost braces
    23 |     item{\code{estimates}: parameter estimates}
       |         ^
checkRd: (-1) parse_beast_output_files.Rd:24-28: Lost braces
    24 |     item{
       |         ^
checkRd: (-1) parse_beast_output_files.Rd:29-31: Lost braces
    29 |     item{\code{operators}: the BEAST2 MCMC operator
       |         ^
checkRd: (-1) parse_beast_posterior.Rd:28: Lost braces
    28 |     item{\code{estimates}: parameter estimates}
       |         ^
checkRd: (-1) parse_beast_posterior.Rd:29-33: Lost braces
    29 |     item{
       |         ^
checkRd: (-1) Sim-Functions.Rd:99: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Sim-Functions.Rd:100-102: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Sim-Functions.Rd:108: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Sim-Functions.Rd:109-110: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Sim-Functions.Rd:111-113: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Sim-Functions.Rd:114-116: Lost braces in \itemize; meant \describe ?
checkRd: (-1) trait_missing.Rd:17-18: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) trait_missing.Rd:19-20: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) trait_missing.Rd:21-22: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) trait_missing.Rd:23-24: Lost braces in \itemize; \value handles \item{}{} directly
Package suggested but not available for checking: ‘taxidata’
checkRd: (-1) Blavet.Rd:15: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Blavet.Rd:16: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Blavet.Rd:17: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Blavet.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Blavet.Rd:19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Blavet.Rd:20: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Blavet.Rd:28: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Blavet.Rd:29: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Blavet.Rd:30: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Oudon.Rd:15: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Oudon.Rd:16: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Oudon.Rd:17: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Oudon.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Oudon.Rd:19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Oudon.Rd:20: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Oudon.Rd:28: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Oudon.Rd:29: Lost braces in \itemize; meant \describe ?
checkRd: (-1) trans.Rd:46: Lost braces; missing escapes or markup?
    46 | "Found {trans("file", .n = n_files)} in {trans("directory", .n = n_dirs)}".
       |        ^
checkRd: (-1) trans.Rd:46: Lost braces; missing escapes or markup?
    46 | "Found {trans("file", .n = n_files)} in {trans("directory", .n = n_dirs)}".
       |                                         ^
Package which this enhances but not available for checking: ‘fwelnet’
Packages suggested but not available for checking:
  'Eunomia', 'CohortGenerator', 'CirceR', 'Capr'
checkRd: (-1) trtsel.Rd:69: Lost braces; missing escapes or markup?
    69 | numeric with two values {0,1} and gaussian(link = "identity") otherwise.
       |                         ^
checkRd: (-1) dcc.Rd:227: Escaped LaTeX specials: \&
checkRd: (-1) seascorr.Rd:128: Escaped LaTeX specials: \&
Documented arguments not in \usage in Rd file 'correct_continuous.Rd':
  ‘x’

Documented arguments not in \usage in Rd file 'tc_correlation.Rd':
  ‘p’

Documented arguments not in \usage in Rd file 'tc_efunc.Rd':
  ‘p’

Documented arguments not in \usage in Rd file 'tc_mfunc.Rd':
  ‘p’

Documented arguments not in \usage in Rd file 'tc_response.Rd':
  ‘p’

Documented arguments not in \usage in Rd file 'truncate_input.Rd':
  ‘moving’

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: ‘TreeDistData’
checkRd: (-1) gen_mease.Rd:19: Lost braces
    19 | column (\code{yprob}) gives the true probabilities (i.e., Pr{Y = 1 | X = x}). 
       |                                                             ^
Auto-generated content requiring editing in Rd file 'treemisc-package.Rd':
  \references: ‘This optional section can contain literature or other refere...’
  \seealso: ‘Optional links to other man pages’
  \examples: ‘## Optional simple examples of the most important functions ...’
checkRd: (-1) ReadTntTree.Rd:37: Lost braces
    37 | \link{TNTOrder}{\code{tnt} order},
       |                ^
checkRd: (-1) coef.tridim_transformation.Rd:31: Lost braces
    31 | If summary=TRUE, a data.frame with columns "dv{index}" with mean for each dependent
       |                                               ^
checkRd: (-1) coef.tridim_transformation.Rd:32: Lost braces
    32 | variable plus optional quantiles columns with names "dv{index}_{quantile}".
       |                                                        ^
checkRd: (-1) coef.tridim_transformation.Rd:32: Lost braces; missing escapes or markup?
    32 | variable plus optional quantiles columns with names "dv{index}_{quantile}".
       |                                                                ^
checkRd: (-1) predict.tridim_transformation.Rd:24: Lost braces
    24 | If summary=TRUE, a data.frame with columns "dv{index}" with mean for each dependent
       |                                               ^
checkRd: (-1) predict.tridim_transformation.Rd:25: Lost braces
    25 | variable plus optional quantiles columns with names "dv{index}_{quantile}".
       |                                                        ^
checkRd: (-1) predict.tridim_transformation.Rd:25: Lost braces; missing escapes or markup?
    25 | variable plus optional quantiles columns with names "dv{index}_{quantile}".
       |                                                                ^
checkRd: (-1) variable_summary.Rd:18: Lost braces; missing escapes or markup?
    18 | data.frame with "{var_name}" column for the mean and
       |                  ^
checkRd: (-1) variable_summary.Rd:19: Lost braces; missing escapes or markup?
    19 | "{var_name}_{prob}" columns for each probability.
       |  ^
checkRd: (-1) variable_summary.Rd:19: Lost braces; missing escapes or markup?
    19 | "{var_name}_{prob}" columns for each probability.
       |             ^
Packages suggested but not available for checking: 'rrelaxiv', 'gurobi'
Found the following HTML validation problems:
ypr_sel.html:113:1 (ypr_sel.Rd:31): Warning: trimming empty <li>
ypr_sel.html:112:1 (ypr_sel.Rd:31): Warning: trimming empty <ul>
There are ::: calls to the package's namespace in its code. A package
  almost never needs to use ::: for its own objects:
  ‘log2console’
checkRd: (-1) summary.armasubsets.Rd:16: Lost braces
    16 | \item{matrix.logical}{With matrix=TRUE, the matrix is logical TRUE/FALSE or string "*"/code{" "}}
       |                                                                                            ^
checkRd: (-1) tsBSS-package.Rd:23: Lost braces in \itemize; meant \describe ?
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checkRd: (-1) diss.AR.LPC.CEPS.Rd:39: Lost braces; missing escapes or markup?
    39 | If \code{order.x} or {order.y} are \code{NULL}, their respective series will be fitted automatically using a AR model.
       |                      ^
checkRd: (-1) diss.AR.PIC.Rd:31: Lost braces; missing escapes or markup?
    31 | If \code{order.x} or {order.y} are \code{NULL}, their respective series will be fitted automatically using a AR model. If \code{permissive} is \code{TRUE} and no AR order is found automatically, an AR order of 1 will be imposed, if this case fails, then no order can be found and the function produces an error.
       |                      ^
checkRd: (-1) example.database2.Rd:18: Lost braces in \itemize; meant \describe ?
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    16 | Converts any variable with two possible values to a {0,1} binary
       |                                                     ^
checkRd: (-1) binary_transform.Rd:13: Lost braces; missing escapes or markup?
    13 | A vector with values in {0,1}.
       |                         ^
checkRd: (-1) repr_dwt.Rd:28: Lost braces; missing escapes or markup?
    28 | The final representation has length equal to floor(n / 2^{level}), where n is a length of original time series.
       |                                                          ^
Package vignette with \VignetteEngine{} not specifying an engine package:
  ‘turner_introduction.Rnw’
Engines should be specified as \VignetteEngine{PKG::ENG}.
checkRd: (-1) tweedie-internal.Rd:74: Lost braces
    74 |         doi{10.1093/biomet/74.2.221}
       |            ^
checkRd: (-1) fit_stm.Rd:25: Lost braces
    25 | \item{xcov}{Either a \[stats]{formula} with an empty left-hand side specifying external covariates
       |                              ^
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checkRd: (-1) twoway.Rd:66: Lost braces
    66 | code{\link{twoway.formula}}, code{\link[stats]{medpolish}}
       |     ^
checkRd: (-1) twoway.Rd:66: Lost braces
    66 | code{\link{twoway.formula}}, code{\link[stats]{medpolish}}
       |                                  ^
Package which this enhances but not available for checking: ‘sl3’
checkRd: (-1) est_g_exp.Rd:55: Lost braces; missing escapes or markup?
    55 |  {A - delta}, {A + delta}, and {A + 2 * delta}).
       |  ^
checkRd: (-1) est_g_exp.Rd:55: Lost braces; missing escapes or markup?
    55 |  {A - delta}, {A + delta}, and {A + 2 * delta}).
       |               ^
checkRd: (-1) est_g_exp.Rd:55: Lost braces; missing escapes or markup?
    55 |  {A - delta}, {A + delta}, and {A + 2 * delta}).
       |                                ^
checkRd: (-1) Lp.Rd:35-39: Lost braces
    35 | Lp<- function(a, data, sgl){
       |                            ^
checkRd: (-1) Lp.Rd:38: Lost braces
    38 | sapply(a,FUN=function(a){prod((psip(sgl,a)^ndlt)*((1-psip(sgl,a))^(npt-ndlt)))})
       |                         ^
checkRd: (-1) Lp.Rd:42-46: Lost braces
    42 | Lt<- function(a, data, sgl){
       |                            ^
checkRd: (-1) Lp.Rd:45: Lost braces
    45 | sapply(a,FUN=function(a){prod((psit(sgl,a)^ndlt)*((1-psit(sgl,a))^(npt-ndlt)))})
       |                         ^
checkRd: (-1) Lp.Rd:49-53: Lost braces
    49 | Ll<- function(a, data, sgl){
       |                            ^
checkRd: (-1) Lp.Rd:52: Lost braces
    52 | sapply(a,FUN=function(a){prod((psil(sgl,a)^ndlt)*((1-psil(sgl,a))^(npt-ndlt)))})
       |                         ^
checkRd: (-1) alt_gsmar.Rd:50: Lost braces; missing escapes or markup?
    50 |   In addition to the S3 methods listed under the topic "Methods (by generic)", the \code{predict} and {simulate} methods
       |                                                                                                       ^
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    uktrans_get is fixed when start_date is used (#2)
    Extra layer of of NULL returns to fail gracefully with an informative message.
    Removed travis & appveyor and using gh_actions instead.
    Using gh-pages to create the pkgdown website.
    Create an app as vignette page to search with the help of uklr.
Running ‘testthat.R’ [25s/34s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(umap)
  > 
  > test_check("umap")
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 248 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test_knn.R:161:3'): knn for large dataset queries a small number of distances ──
  `totdist2` is not strictly less than `totdist1`. Difference: 0.0119
  
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 248 ]
  Error: Test failures
  Execution halted
Argument items with no description in Rd file 'HC.Rd':
  ‘X’ ‘K’
Argument items with no description in Rd file 'KA.Rd':
  ‘X’ ‘K’ ‘distancemetric’
Argument items with no description in Rd file 'SOMs.Rd':
  ‘X’ ‘K’ ‘topo’ ‘rlen’ ‘alpha’ ‘n.hood’
Argument items with no description in Rd file 'binarise.Rd':
  ‘U’ ‘K’ ‘technique’ ‘parameter’
Argument items with no description in Rd file 'closestToSquareFactors.Rd':
  ‘n’
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  ‘U1’ ‘U2’ ‘X’ ‘criterion’
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  ‘C’
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  ‘X’ ‘K’ ‘D’ ‘methods’
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  ‘n’ ‘primeonly’
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  ‘X’ ‘type’
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  ‘X’ ‘x0’
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  ‘U’ ‘relabel_technique’ ‘w’ ‘X’ ‘distCriterion’ ‘K’ ‘GDM’
Argument items with no description in Rd file 'isValidBPM.Rd':
  ‘U’
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  ‘X’ ‘K’ ‘distancemetric’ ‘iter.max’ ‘nstart’ ‘algorithm’ ‘trace’
Argument items with no description in Rd file 'mnplots.Rd':
  ‘Vmse’ ‘mseCache’ ‘subplotdim’ ‘subplotind’ ‘minimiseDistance’
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  ‘X’ ‘B’ ‘normalise’
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    42 |         \item Metric input is not in {1,2,3}: Metric does not exist
       |                                      ^
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    33 |         \item Metric input is not in {1,2,3}: Metric does not exist
       |                                      ^
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checkRd: (-1) mllogitnorm.Rd:45: Lost braces
    45 | link[dlogitnorm]{dlogitnorm}for the normal density.
       |                 ^
checkRd: (-1) UNPaC_Copula.Rd:59: Lost braces; missing escapes or markup?
    59 | \item{\code{selected_features}}: {A vector of integers indicating the features retained by the feature filtering process.}
       |                                  ^
checkRd: (-1) UNPaC_Copula.Rd:60: Lost braces; missing escapes or markup?
    60 | \item{\code{sim_CI}}: {vector containing the cluster indices for each generated unimodal reference distribution}
       |                       ^
checkRd: (-1) UNPaC_Copula.Rd:61-62: Lost braces
    61 | \item{\code{pvalue_emp}}: {the empirical p-value:  the proportion of times the cluster index from the reference
       |                           ^
checkRd: (-1) UNPaC_Copula.Rd:63: Lost braces; missing escapes or markup?
    63 | \item{\code{pvalue_norm}}: {the normalized p-value: the simulated p-value based on comparison to a standard normal distribution }
       |                            ^
checkRd: (-1) UNPaC_num_clust.Rd:58-62: Lost braces
    58 | \item{\code{BestK}}: {A matrix with 1 row and 4 columns named: "Max_CI","Max_CI_wi_1SE","Max_scaled_CI" and "Max_logWCSS_wi_1SE".
       |                      ^
checkRd: (-1) UNPaC_num_clust.Rd:63-65: Lost braces
    63 | \item{\code{full_process}}: {A matrix containing the number of clusters, K, evaluated, the CI from the data, the average CI from the null
       |                             ^
checkRd: (-1) UNPaC_num_clust.Rd:66: Lost braces; missing escapes or markup?
    66 | \item{\code{selected_features}}: {A vector of integers indicating the features retained by the feature filtering process.}}
       |                                  ^
checkRd: (-1) encoder.Rd:32-37: Lost braces in \itemize; meant \describe ?
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Package suggested but not available for checking: ‘USA.state.boundaries.data’
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checkRd: (-1) partition_fold.Rd:21-22: Lost braces
    21 |    \code{train}{The mldr dataset with train examples, that includes all
       |                ^
checkRd: (-1) partition_fold.Rd:23-24: Lost braces
    23 |    \code{test}{The mldr dataset with test examples, defined by the
       |               ^
checkRd: (-1) partition_fold.Rd:25-26: Lost braces
    25 |    \code{validation}{Optionally, only if \code{has.validation = TRUE}.
       |                     ^
Packages suggested but not available for checking: 'vaers', 'vaersND'
Found the following files/directories:
  ‘PredValidationPlots.pdf’ ‘RepStructValidationPlots.pdf’
checkRd: (-1) sendTasks.Rd:41: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) sendTasks.Rd:43: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) sample_gen.Rd:18: Lost braces; missing escapes or markup?
    18 | Generate \code{n} random samples from multivariate Gaussian distribution N(0, (L^TL)^{-1})
       |                                                                                      ^
checkRd: (-1) vardannual.Rd:97: Lost braces
    97 | \item{ID_level2}{Optional}{variable for unit ID codes. One dimensional object convertible to one-column \code{data.table} or variable name as character, column number.}
       |                           ^
checkRd: (-1) vardannual.Rd:99: Lost braces
    99 | \item{dataset}{Optional}{survey data object convertible to \code{data.table}.}
       |                         ^
checkRd: (-1) vardcrospoor.Rd:122: Lost braces
   122 | \item{ind_gr}{Optional}{variable by which divided independently X matrix of the auxiliary variables for the calibration. One dimensional object convertible to one-column \code{data.table} or variable name as character, column number.}
       |                        ^
checkRd: (-1) vardcrospoor.Rd:124: Lost braces
   124 | \item{use.estVar}{Logical}{value. If value is \code{TRUE}, then \code{R} function \code{estVar} is used for the  estimation of covariance matrix of the residuals. If value is \code{FALSE}, then \code{R} function \code{estVar} is not used for the estimation of covariance matrix of the residuals.}
       |                           ^
checkRd: (-1) vardom_othstr.Rd:69: Lost braces
    69 | \item{percentratio}{Positive}{numeric value. All linearized variables are multiplied with \code{percentratio} value, by default - 1.}
       |                              ^
checkRd: (-1) varpoord.Rd:121: Lost braces
   121 | \item{month_at_work}{Variable}{for total number of month at work (sum of the number of months spent at full-time work as employee, number of months spent at part-time work as employee, number of months spent at full-time work as self-employed (including family worker), number of months spent at part-time work as self-employed (including family worker)).  One dimensional object convertible to one-column \code{data.table} or variable name as character, column number.}
       |                               ^
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     7 | \description{Computes the pdf, cdf, value at risk and expected shortfall for the beta Burr distribution due to Parana\'{i}ba et al. (2011) given by
       |                                                                                                                        ^
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     7 | \description{Computes the pdf, cdf, value at risk and expected shortfall for the beta Fr\'{e}chet distribution due to Barreto-Souza et al. (2011) given by
       |                                                                                           ^
checkRd: (-1) frechet.Rd:7: Lost braces
     7 | \description{Computes the pdf, cdf, value at risk and expected shortfall for the Fr\'{e}chet distribution due to Fr\'{e}chet (1927) given by
       |                                                                                      ^
checkRd: (-1) frechet.Rd:7: Lost braces
     7 | \description{Computes the pdf, cdf, value at risk and expected shortfall for the Fr\'{e}chet distribution due to Fr\'{e}chet (1927) given by
       |                                                                                                                      ^
checkRd: (-1) kumburr7.Rd:7: Lost braces
     7 | \description{Computes the pdf, cdf, value at risk and expected shortfall for the Kumaraswamy Burr XII distribution due to Parana\'{i}ba et al. (2013) given by
       |                                                                                                                                   ^
checkRd: (-1) get.miniseq.sample.files.Rd:15: Lost braces
    15 | \item{file.suffix}{Regex expression for end of file name. For example, `file.suffix = '_S\\d{1,2}_.*_R1_.*'` will match R1 files.1 files.}
       |                                                                                             ^
checkRd: (-1) randomVarImpsRFplot.Rd:97: Escaped LaTeX specials: \&
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checkRd: (-1) Acoef_sh.Rd:23: Lost braces; missing escapes or markup?
    23 | The function returns the K-by-K matrices {A_1, ..., A_p} as a list object.
       |                                          ^
checkRd: (-1) VARshrink.Rd:58: Lost braces; missing escapes or markup?
    58 | Consider VAR(p) model: y_t = A_1 y_{t-1} + ... + A_p y_{t-p} + C d_t + e_t,
       |                                    ^
checkRd: (-1) VARshrink.Rd:58: Lost braces; missing escapes or markup?
    58 | Consider VAR(p) model: y_t = A_1 y_{t-1} + ... + A_p y_{t-p} + C d_t + e_t,
       |                                                        ^
checkRd: (-1) decomposition.Rd:27: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) decomposition.Rd:28: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) decomposition.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) estimation.Rd:27: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) estimation.Rd:28: Lost braces in \itemize; \value handles \item{}{} directly
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checkRd: (-1) moving.decomposition.Rd:27-28: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) moving.decomposition.Rd:28: Lost braces
    28 | \item{W2}{nxn matrix of weights. Season is estimated as W2 \%}\% y, if y is the data vector}
       |      ^
checkRd: (-1) moving.decomposition.Rd:28: Lost braces
    28 | \item{W2}{nxn matrix of weights. Season is estimated as W2 \%}\% y, if y is the data vector}
       |          ^
checkRd: (-1) moving.estimation.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) moving.estimation.Rd:30: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) moving.estimation.Rd:31: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) datasets.Rd:15: Lost braces
    15 | and dimension information (\code{dim} or code{length}) of each item,
       |                                              ^
Documented arguments not in \usage in Rd file 'vein-deprecated.Rd':
  ‘object’

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.
checkRd: (-1) additiveBeta.Rd:40: Lost braces in \itemize; meant \describe ?
checkRd: (-1) additiveBeta.Rd:41: Lost braces in \itemize; meant \describe ?
checkRd: (-1) additiveBeta.Rd:43: Lost braces in \itemize; meant \describe ?
checkRd: (-1) additiveBeta.Rd:44: Lost braces in \itemize; meant \describe ?
checkRd: (-1) additiveBeta.Rd:45: Lost braces in \itemize; meant \describe ?
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checkRd: (-1) downloadPBDB.Rd:27: Lost braces in \itemize; meant \describe ?
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checkRd: (-1) multiplicativeBeta.Rd:31: Lost braces in \itemize; meant \describe ?
checkRd: (-1) multiplicativeBeta.Rd:32: Lost braces in \itemize; meant \describe ?
checkRd: (-1) multiplicativeBeta.Rd:33: Lost braces in \itemize; meant \describe ?
checkRd: (-1) predcomp.test.Rd:51: Lost braces; missing escapes or markup?
    51 | S = dbar/sqrt(2*pi*se_{d}(0)/N),
       |                       ^
checkRd: (-1) predcomp.test.Rd:53: Lost braces; missing escapes or markup?
    53 | where d is the loss differential, d = e1 - e2 (e1 = loss(x, xhat1) and e2 = loss(x, xhat2)), dbar is its sample mean, and se_{d}(0) is the standard error for d, which must be estimated, and N is the length of the series investigated.  Let V = 2*pi*se_{d}(0), then V is estimated by
       |                                                                                                                              ^
checkRd: (-1) predcomp.test.Rd:53: Lost braces; missing escapes or markup?
    53 | where d is the loss differential, d = e1 - e2 (e1 = loss(x, xhat1) and e2 = loss(x, xhat2)), dbar is its sample mean, and se_{d}(0) is the standard error for d, which must be estimated, and N is the length of the series investigated.  Let V = 2*pi*se_{d}(0), then V is estimated by
       |                                                                                                                                                                                                                                                            ^
checkRd: (-1) value.Rd:32: Escaped LaTeX specials: \$ \$
checkRd: (-1) ex121.Rd:18: Escaped LaTeX specials: \&
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checkRd: (-1) fit.vfp.Rd:79: Lost braces in \itemize; meant \describe ?
checkRd: (-1) fit.vfp.Rd:80: Lost braces in \itemize; meant \describe ?
checkRd: (-1) fit.vfp.Rd:81: Lost braces in \itemize; meant \describe ?
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checkRd: (-1) LinRegChol.Rd:21: Lost braces; missing escapes or markup?
    21 | Do linear regression of form (X^T O X + P)^{-1} X^T y where O is omega, P is
       |                                            ^
Argument items with no description in Rd file 'learnPartitionWithLLR.Rd':
  ‘type’ ‘procedure’ ‘ql’ ‘qq’ ‘BinaryLearningProcedure’
Argument items with no description in Rd file 'plotClassifRule.Rd':
  ‘object’
checkRd: (-1) VirtualArray-single-bracket-method.Rd:6: Lost braces
     6 | \title{Indexing to extract subsets of a 'code{\link[via:XArray-class]{VirtualArray}}'-class object}
       |                                              ^
checkRd: (-1) subset.Rd:20: Lost braces
    20 | \item{drop}{\code{logical} in case the result of subsetting is a single element, should the \\code{\link[via:XArray-class]{VirtualArray}} wrapper be dropped?}
       |                                                                                                   ^
checkRd: (-1) vic_param.Rd:311: Lost braces
   311 | albedo must be supplied in code{forcing_veg}. Default = 1.}
       |                                ^
checkRd: (-1) vic_param.Rd:323: Lost braces
   323 | supplied in code{forcing_veg}. Default = 1.}
       |                 ^
checkRd: (-1) vic_param.Rd:341: Lost braces
   341 | be supplied in code{forcing_veg} Default = 0.}
       |                    ^
checkRd: (-1) show_query.Rd:27: Lost braces in \itemize; meant \describe ?
checkRd: (-1) show_query.Rd:28: Lost braces in \itemize; meant \describe ?
checkRd: (-1) show_query.Rd:29: Lost braces in \itemize; meant \describe ?
checkRd: (-1) vietnamcode.Rd:28: Lost braces in \itemize; meant \describe ?
checkRd: (-1) vietnamcode.Rd:29: Lost braces in \itemize; meant \describe ?
checkRd: (-1) vietnamcode_data.Rd:10: Lost braces in \itemize; meant \describe ?
checkRd: (-1) vietnamcode_data.Rd:11: Lost braces in \itemize; meant \describe ?
checkRd: (-1) vietnamcode_data.Rd:12: Lost braces in \itemize; meant \describe ?
checkRd: (-1) vietnamcode_data.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) vietnamcode_data.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) vietnamcode_data.Rd:15: Lost braces in \itemize; meant \describe ?
checkRd: (-1) vietnamcode_data.Rd:16: Lost braces in \itemize; meant \describe ?
Documented arguments not in \usage in Rd file 'draw_map_shiny.Rd':
  ‘rigth.lim’

Documented arguments not in \usage in Rd file 'map_summary.Rd':
  ‘rigth.lim’

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.
checkRd: (-1) RVineMatrix.Rd:90: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) RVineMatrix.Rd:91: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) RVineMatrix.Rd:92: Lost braces in \itemize; \value handles \item{}{} directly
Found the following HTML validation problems:
RVineClarkeTest.html:56:32 (RVineClarkeTest.Rd:31): Warning: trimming empty <code>
RVineClarkeTest.html:68:32 (RVineClarkeTest.Rd:41): Warning: trimming empty <code>
checkRd: (-1) viridis.Rd:50: Lost braces in \itemize; meant \describe ?
checkRd: (-1) viridis.Rd:51: Lost braces in \itemize; meant \describe ?
checkRd: (-1) viridis.Rd:52: Lost braces in \itemize; meant \describe ?
checkRd: (-1) viridis.Rd:53: Lost braces in \itemize; meant \describe ?
checkRd: (-1) viridis.Rd:54: Lost braces in \itemize; meant \describe ?
checkRd: (-1) viridis.Rd:55: Lost braces in \itemize; meant \describe ?
checkRd: (-1) viridis.Rd:56: Lost braces in \itemize; meant \describe ?
checkRd: (-1) viridis.Rd:57: Lost braces in \itemize; meant \describe ?
checkRd: (-1) viridis.map.Rd:24-30: Lost braces in \itemize; meant \describe ?
checkRd: (-1) viridis.map.Rd:31-34: Lost braces in \itemize; meant \describe ?
checkRd: (-1) viridis.map.Rd:35: Lost braces in \itemize; meant \describe ?
checkRd: (-1) viridis.map.Rd:36-37: Lost braces in \itemize; meant \describe ?
checkRd: (-1) viridis.map.Rd:10: Lost braces in \itemize; meant \describe ?
checkRd: (-1) viridis.map.Rd:11: Lost braces in \itemize; meant \describe ?
checkRd: (-1) viridis.map.Rd:12: Lost braces in \itemize; meant \describe ?
checkRd: (-1) viridis.map.Rd:13-14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) viridis.map.Rd:42: Lost braces in \itemize; meant \describe ?
checkRd: (-1) viridis.map.Rd:43: Lost braces in \itemize; meant \describe ?
checkRd: (-1) viridis.map.Rd:44: Lost braces in \itemize; meant \describe ?
checkRd: (-1) viridis.map.Rd:45: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulatePopulation.Rd:75: Lost braces; missing escapes or markup?
    75 |   \item \strong{Pollen productivity}: In each time step the model computes the pollen productivity (in relative values) of the population using the equation \eqn{P_{t} = \sum x_{it} \times max(S_{t}, B)}, where \emph{t} is time (a given simulation time step), \emph{P} is the pollen productivity of the population at a given time, \emph{x_{i}} represents the biomass of every adult individual, \emph{S} is the environmental suitability at the given time, \emph{B} is the contribution of biomass to pollen productivity regardless of environmental suitability (\emph{pollen.control} parameter in the simulation, 0 by default). If \emph{B} equals 1, \emph{P} is equal to the total biomass sum of the adult population, regardless of the environmental suitability. If \emph{B} equals 0, pollen productivity depends entirely on environmental suitability values.
       |                                                                                                                                                                                                                                                                                                                                                    ^
checkRd: (-1) NSpec.DB.Rd:16: Lost braces; missing escapes or markup?
    16 |   ...{currently not used}
       |      ^
checkRd: (-1) wavelength-methods.Rd:32: Lost braces; missing escapes or markup?
    32 | A call to {new} returns a newly allocated object from the class identified by the first argument.
       |           ^
checkRd: (-1) phasePortrait.Rd:350: Lost braces; missing escapes or markup?
   350 |   \code{vMod = xMod^(1/lambda)} and {vArg = xArg^(1/lambda)}\cr\cr
       |                                     ^
checkRd: (-1) compdesc.Rd:24: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) compdesc.Rd:25: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) compdesc.Rd:26: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) compdesc.Rd:27: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) compdesc.Rd:28: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) compdesc.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) compdesc.Rd:30: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) compdesc.Rd:31: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) compdesc.Rd:32: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ViSiElse.Rd:101-107: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSiElse.Rd:102: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSiElse.Rd:103: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSiElse.Rd:104: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSiElse.Rd:105-106: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSiElse.Rd:108-127: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSiElse.Rd:112-113: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSiElse.Rd:114-115: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSiElse.Rd:116: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSiElse.Rd:128-134: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSiElse.Rd:135-147: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSiElse.Rd:148-157: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSiElse.Rd:152-153: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSiElse.Rd:154-155: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSibook-class.Rd:24: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSibook-class.Rd:25: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSibook-class.Rd:29: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSibook-class.Rd:30: Lost braces in \itemize; meant \describe ?
checkRd: (-1) dim-ViSibook-methods.Rd:16: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) dim-ViSibook-methods.Rd:17-18: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summary-ViSigrid-methods.Rd:16: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summary-ViSigrid-methods.Rd:17: Lost braces in \itemize; \value handles \item{}{} directly
Found the following significant warnings:

  Warning in ggiraph(code = { : 'ggiraph' is deprecated.
  Warning in ggiraph(code = { : 'ggiraph' is deprecated.
  Warning in ggiraph(code = { : 'ggiraph' 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
vlda_plot 5.313   0.09   6.763
checkRd: (-1) aminoAcidFun.Rd:37: Lost braces
    37 | \item{ownVLFreduced}{ownVLFMatrix}{A matrix containing only those specimen that have VLFs as well as the amino acids at the positions that contain VLFs and NAs in all other positions of the sequence.  Only appears if own is not NULL.}
       |                                   ^
checkRd: (-1) vlfFun.Rd:36: Lost braces
    36 | \item{ownVLFreduced}{ownVLFMatrix}{A matrix containing only those specimen that have VLFs as well as the nucleotides at the positions that contain VLFs and NAs in all other positions of the sequence.  Only appears if own is not NULL.}
       |                                   ^
checkRd: (-1) getTurnType.Rd:38: Lost braces; missing escapes or markup?
    38 | Return one of {Vocalisation, GrpVocalisation, ...} or identifier.
       |               ^
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    vortexRdata pre-1.0.3
checkRd: (-1) compute.means.Rd:23: Escaped LaTeX specials: \&
checkRd: (-1) norm.wattfabricius.Rd:5: Escaped LaTeX specials: \&
checkRd: (-1) Data-Examples.Rd:39: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Data-Examples.Rd:40: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Data-Examples.Rd:41: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Data-Examples.Rd:30: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Data-Examples.Rd:31: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Data-Examples.Rd:32: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Data.trafo.Rd:19: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Data.trafo.Rd:20: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Data.trafo.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Toep.estimator.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Toep.estimator.Rd:24: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Toep.estimator.Rd:25: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Toep.estimator.Rd:26: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) aquaporin.Rd:10: Lost braces in \itemize; meant \describe ?
checkRd: (-1) vsts_create_release.Rd:33: Lost braces in \itemize; meant \describe ?
checkRd: (-1) vsts_create_release.Rd:34: Lost braces in \itemize; meant \describe ?
Found the following HTML validation problems:
get_logger.html:57:1 (get_logger.Rd:21): Warning: trimming empty <dt>
checkRd: (-1) WACS.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) WACS.Rd:19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) WACS.Rd:20: Lost braces in \itemize; meant \describe ?
checkRd: (-1) WACS.Rd:21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) WACS.Rd:22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) WACS.Rd:23: Lost braces in \itemize; meant \describe ?
checkRd: (-1) WACS.Rd:24: Lost braces in \itemize; meant \describe ?
checkRd: (-1) WACS.Rd:36-37: Lost braces in \itemize; meant \describe ?
checkRd: (-1) WACS.Rd:38-39: Lost braces in \itemize; meant \describe ?
checkRd: (-1) WACSreadAgroclim.Rd:15: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) WACSreadAgroclim.Rd:16-17: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) anchor_points_grey.Rd:9: Lost braces
     9 | Zeeden et al., (2013) and anchored to the code{\link{astrosignal_example}} \cr
       |                                               ^
checkRd: (-1) retrack_wt_MC.Rd:206: Lost braces
   206 | be off in certain intervals. the link[WaverideR]{retrack_wt_MC} mitigates
       |                                                 ^
checkRd: (-1) retrack_wt_MC.Rd:40: Lost braces
    40 | link[WaverideR]{analyze_wavelet} wavelet function
       |                ^
checkRd: (-1) retrack_wt_MC.Rd:41: Lost braces
    41 | To create a list use the link[base]{list} function}
       |                                    ^
checkRd: (-1) retrack_wt_MC.Rd:44: Lost braces
    44 | To create the matrix use the link[base]{cbind} function and only add the
       |                                        ^
Found the following files/directories:
  ‘ReconstructedData.txt’ ‘ReconstructedDataStDev.txt’
  ‘ResampledReconstructions.txt’
  ‘ResampledReconstructionsStandardVariation.txt’
checkRd: (-1) accessC.wst.rd:24: Lost braces
    24 | Note that coefficients returned by this function are in emph{packet order}. They can be used \emph{as is} but for many applications it might be more useful to deal with the coefficients in packets: see the function \code{\link{getpacket.wst}} for further details. 
       |                                                             ^
checkRd: (-1) griddata.rd:18: Lost braces
    18 | \code{G}{Codes the value of the linear interpolant matrix for the corresponding entry in \code{gridt}. The value at each point corresponds to the proportion of the original data point pointed to by \code{Gindex} that contributes to the new value at the corresponding \code{gridt} value. See Kovac, (1997), page 81 for further information.}
       |         ^
checkRd: (-1) makegrid.rd:13: Lost braces; missing escapes or markup?
    13 | \item{gridn}{The number of grid points in the dyadic grid that the (x,y) gets interpolated to. By default this is the next power of two larger than the length of {x}.}
       |                                                                                                                                                                   ^
checkRd: (-1) makewpstDO.rd:29: Lost braces
    29 | /bold{12}, 45-56.
       |      ^
checkRd: (-1) wd.object.rd:47: Lost braces
    47 | The wd class of objects has methods for the following generic functions: \code{\link{plot}}, \code{\link{threshold}}, \code{\link{summary}}, \code{\link{print}}, code{\link{draw}}.
       |                                                                                                                                                                       ^
Package suggested but not available for checking: ‘prepr’
checkRd: (-1) wdpa_clean.Rd:23: Lost braces
    23 | \item{crs}{\code{character} or code{integer} object representing a
       |                                    ^
checkRd: (-1) get_cid.Rd:58-59: Lost braces
    58 | <structure search> is assembled as "{\code{substructure} |
       |                                     ^
checkRd: (-1) get_cid.Rd:59-60: Lost braces
    59 | \code{superstructure} | \code{similarity} | \code{identity}} / {\code{smiles}
       |                                                                ^
checkRd: (-1) get_cid.Rd:70-71: Lost braces
    70 | "{\code{fastidentity} | \code{fastsimilarity_2d} | \code{fastsimilarity_3d} |
       |  ^
checkRd: (-1) get_cid.Rd:71-72: Lost braces
    71 | \code{fastsubstructure} | \code{fastsuperstructure}}/{\code{smiles} |
       |                                                      ^
checkRd: (-1) Session.Rd:146: Lost braces
   146 | sQuote{page load} timeout specifies a time to wait for the page loading
       |       ^
checkRd: (-1) image_func.Rd:20: Lost braces; missing escapes or markup?
    20 | This is a convenience function for applying {magick} functions that take an image as the first argument and return an image. It's fully vectorised, so you can set separate argument values for each image.
       |                                             ^
Documented arguments not in \usage in Rd file 'read_img.Rd':
  ‘imgfile’

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: 'iptools', 'rgeolocate'
checkRd: (-1) predict.SDMfit.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) predict.SDMfit.Rd:24: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) busTrace.Rd:15: Lost braces
    15 | /href{https://crawdad.org/coppe-ufrj/RioBuses/20180319/}
       |      ^
checkRd: (-1) WeightedROC.Rd:10: Lost braces; missing escapes or markup?
    10 | integer/numeric with values all in {0=negative,1=positive} or
       |                                    ^
checkRd: (-1) WeightedROC.Rd:11: Lost braces; missing escapes or markup?
    11 | {1=negative,2=positive} or {-1=negative,1=positive}.}
       | ^
checkRd: (-1) WeightedROC.Rd:11: Lost braces; missing escapes or markup?
    11 | {1=negative,2=positive} or {-1=negative,1=positive}.}
       |                            ^
checkRd: (-1) CLIC.Rd:149: Lost braces
   149 | Composite likelihood {E}{M} algorithm with applications to
       |                         ^
Argument items with no description in Rd file 'zdifference_ordinal.Rd':
  ‘na.rm’
S3 methods shown with full name in Rd file 'QIC.gee.Rd':
  ‘QIC.gee’

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.
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Major changes
    Minor changes
checkRd: (-1) get.deriv.smooth.hist.Rd:5: Lost braces; missing escapes or markup?
     5 | \title{Gets $n^{th}$ derivative of smoothed histogram}
       |                ^
checkRd: (-1) get_geo_box.Rd:37-38: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get_geo_box.Rd:39-40: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get_geo_box.Rd:41: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get_geo_box.Rd:42: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get_geo_box.Rd:43-44: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get_geo_entity.Rd:27-28: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get_geo_entity.Rd:29-30: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get_geo_entity.Rd:31: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get_geo_entity.Rd:32: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get_geo_entity.Rd:33-34: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) milakes.Rd:10: Lost braces in \itemize; meant \describe ?
checkRd: (-1) milakes.Rd:11: Lost braces in \itemize; meant \describe ?
checkRd: (-1) milakes.Rd:12: Lost braces in \itemize; meant \describe ?
checkRd: (-1) milakes.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) milakes.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) milakes.Rd:15: Lost braces in \itemize; meant \describe ?
checkRd: (-1) milakes.Rd:16: Lost braces in \itemize; meant \describe ?
checkRd: (-1) milakes.Rd:17: Lost braces in \itemize; meant \describe ?
checkRd: (-1) milakes.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) milakes.Rd:19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) milakes.Rd:20: Lost braces in \itemize; meant \describe ?
checkRd: (-1) milakes.Rd:21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) milakes.Rd:22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) secondDerivative.Rd:14: Lost braces
    14 | This must be a function of the form FUN <- function(x, ...){...}
       |                                                            ^
checkRd: (-1) windAC.Rd:31: Lost braces in \itemize; meant \describe ?
checkRd: (-1) windAC.Rd:32: Lost braces in \itemize; meant \describe ?
checkRd: (-1) windAC.Rd:33: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Hoover.Rd:21: Lost braces; missing escapes or markup?
    21 | Let x_{i} be the income of the i-th person and \eqn{\overline{x}} be the mean income. Then the Hoover index H is:
       |       ^
checkRd: (-1) RicciSchutz.Rd:21: Lost braces; missing escapes or markup?
    21 | In the case of an empirical distribution with n elements where y_{i} denotes the wealth of household i and \eqn{\overline{y}} the sample average, the Ricci and Schutz coefficient can be expressed as:
       |                                                                  ^
Found the following HTML validation problems:
benefits.html:96:1 (benefits.Rd:39): Warning: trimming empty <h3>
beveridge.html:66:1 (beveridge.Rd:29): Warning: trimming empty <h3>
happiness.html:141:1 (happiness.Rd:54): Warning: trimming empty <h3>
hprice3.html:99:1 (hprice3.Rd:40): Warning: trimming empty <h3>
checkRd: (-1) word2vec_similarity.Rd:30: Lost braces in \itemize; meant \describe ?
checkRd: (-1) word2vec_similarity.Rd:31: Lost braces in \itemize; meant \describe ?
checkRd: (-1) wordpiece_cache_dir.Rd:16-17: Lost braces in \itemize; meant \describe ?
checkRd: (-1) wordpiece_cache_dir.Rd:18-19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) wordpiece_cache_dir.Rd:20-21: Lost braces in \itemize; meant \describe ?
Documented arguments not in \usage in Rd file 'new_givens_path.Rd':
  ‘generate’

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.
checkRd: (-1) theme_wpa.Rd:16: Lost braces; missing escapes or markup?
    16 | you can use this font, install and load {extrafont} prior to
       |                                         ^
checkRd: (-1) wql-package.Rd:7: Lost braces
     7 | \title{c("\\Sexpr[results=rd,stage=build]{tools:::Rd_package_title(\"#1\")}",
       |                                          ^
checkRd: (-1) wql-package.Rd:10: Lost braces
    10 | c("\\Sexpr[results=rd,stage=build]{tools:::Rd_package_description(\"#1\")}",
       |                                   ^
checkRd: (-1) wql-package.Rd:61: Lost braces
    61 | c("\\Sexpr[results=rd,stage=build]{tools:::Rd_package_author(\"#1\")}",
       |                                   ^
checkRd: (-1) wql-package.Rd:65: Lost braces
    65 | c("\\Sexpr[results=rd,stage=build]{tools:::Rd_package_maintainer(\"#1\")}",
       |                                   ^
checkRd: (-1) item.side.Rd:35: Lost braces
    35 |         code{TRUE}. If any other value, the axis is not drawn.}
       |             ^
checkRd: (-1) createDemandSite.Rd:26: Lost braces
    26 |   \item{suppliers}{(optional) A list of object(s) inherited from the folowing classes: \code{\link[WRSS]{createAquifer}}, \code{\link[WRSS]{createRiver}}, \code{\link[WRSS]{createReservoir}}, code{\link[WRSS]{createDiversion}}.}
       |                                                                                                                                                                                                     ^
checkRd: (-1) createDemandSite.base.Rd:26: Lost braces
    26 |   \item{suppliers}{(optional) A list of object(s) inherited from the folowing classes: \code{\link[WRSS]{createAquifer}}, \code{\link[WRSS]{createRiver}}, \code{\link[WRSS]{createReservoir}}, code{\link[WRSS]{createDiversion}}.}
       |                                                                                                                                                                                                     ^
checkRd: (-1) createDemandSite.default.Rd:32: Lost braces
    32 |   \item{suppliers}{(optional) A list of object(s) inherited from the folowing classes: \code{\link[WRSS]{createAquifer}}, \code{\link[WRSS]{createRiver}}, \code{\link[WRSS]{createReservoir}}, code{\link[WRSS]{createDiversion}}.}
       |                                                                                                                                                                                                     ^
checkRd: (-1) wtest.Rd:61-64: Lost braces
    61 | {When \code{w.order} =2, the \code{wtest()} will automatically calculate the main effect first and then do a pre-filter before calculating interactions.
       | ^
checkRd: (-1) wtest.high.Rd:61-64: Lost braces
    61 | {When \code{w.order} > 2, the \code{wtest()} will automatically calculate the main effect first and then do a pre-filter before calculating interactions.
       | ^
Documented arguments not in \usage in Rd file 'Cut.off.Rd':
  ‘main’

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.
checkRd: (-1) batch_modwt_wvar_cpp.Rd:36: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) batch_modwt_wvar_cpp.Rd:37: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) batch_modwt_wvar_cpp.Rd:38: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ci_eta3.Rd:19: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ci_eta3.Rd:20: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ci_eta3.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ci_eta3_robust.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ci_eta3_robust.Rd:22: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ci_eta3_robust.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ci_wave_variance.Rd:32: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ci_wave_variance.Rd:33: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ci_wave_variance.Rd:34: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) modwt_wvar_cpp.Rd:36: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) modwt_wvar_cpp.Rd:37: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) modwt_wvar_cpp.Rd:38: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) wvar_cpp.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) wvar_cpp.Rd:24: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) wvar_cpp.Rd:25: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) exploreSignatures.Rd:47: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) exploreSignatures.Rd:48: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) exploreSignatures.Rd:49-50: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) exploreSignatures.Rd:56: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) exploreSignatures.Rd:57: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) exploreSignatures.Rd:58-59: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) exploreSignatures.Rd:65-66: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) exploreSignatures.Rd:67-69: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) generateData.Rd:47: Lost braces
    47 | \bold{code{data}} \tab the generated data \cr
       |           ^
checkRd: (-1) generateData.Rd:53: Lost braces
    53 | Refer to \bold{\emph{code{\link{retrieveDataFactory}}}} and to
       |                          ^
checkRd: (-1) qualifyFunctionArguments.Rd:14: Lost braces
    14 | A emph{\code{list}} with following names
       |       ^
checkRd: (-1) qualifyFunctionArguments.Rd:26: Lost braces
    26 | \item{code{arguments}}{a \code{pairList} of argument names and values.
       |           ^
checkRd: (-1) completeManualPage.Rd:12: Lost braces
    12 | See \emph{\bold{code{\link{ProcessingContext}}}}. Only
       |                     ^
checkRd: (-1) produceAllManualPagesFromObject.Rd:14: Lost braces
    14 | See \emph{\bold{\\code{\link{ProcessingContext}}}}.}
       |                       ^
checkRd: (-1) xbrlSECdev01.Rd:20: Lost braces in \itemize; meant \describe ?
checkRd: (-1) xshow.Rd:19: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) xshow.Rd:20: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) chemnet.Rd:111: Lost braces in \itemize; meant \describe ?
checkRd: (-1) chemnet.Rd:112: Lost braces in \itemize; meant \describe ?
checkRd: (-1) knecht.Rd:103: Lost braces in \itemize; meant \describe ?
checkRd: (-1) knecht.Rd:104: Lost braces in \itemize; meant \describe ?
checkRd: (-1) knecht.Rd:105: Lost braces in \itemize; meant \describe ?
Found the following files/directories:
  ‘xgb.txt’
checkRd: (-1) XMLGetters-methods.Rd:165: Lost braces in \itemize; meant \describe ?
checkRd: (-1) XMLGetters-methods.Rd:166: Lost braces in \itemize; meant \describe ?
checkRd: (-1) XMLGetters-methods.Rd:167: Lost braces in \itemize; meant \describe ?
checkRd: (-1) XMLGetters-methods.Rd:168-169: Lost braces in \itemize; meant \describe ?
checkRd: (-1) XMLGetters-methods.Rd:170: Lost braces in \itemize; meant \describe ?
checkRd: (-1) XMLGetters-methods.Rd:171: Lost braces in \itemize; meant \describe ?
checkRd: (-1) XMLGetters-methods.Rd:172: Lost braces in \itemize; meant \describe ?
checkRd: (-1) XMLGetters-methods.Rd:179-182: Lost braces in \itemize; meant \describe ?
checkRd: (-1) XMLGetters-methods.Rd:191: Lost braces in \itemize; meant \describe ?
checkRd: (-1) xml_to_df.Rd:144: Lost braces; missing escapes or markup?
   144 | Default {NULL} means the workbook will not be protected with a password}
       |         ^
Package suggested but not available for checking: ‘rbokeh’
Invalid package aliases in Rd file 'XRjulia-package.Rd':
  ‘XRjulia-package’
Found the following files/directories:
  ‘xtable.html’ ‘xtable.tex’
Argument items with no description in Rd file 'getCondition.Rd':
  ‘object’
Argument items with no description in Rd file 'screen.Rd':
  ‘fac’ ‘condition’ ‘position’
Found the following files/directories:
  ‘OPT.csv’ ‘testTecan_defaultLiquid.csv’ ‘testTecan_setLiquid.csv’
checkRd: (-1) xwfGridsearch.Rd:27: Lost braces; missing escapes or markup?
    27 | \item{iter}{Number of levels in the adaptive grid search. The resolution in b obtained is 2^{-1-iter}.}
       |                                                                                             ^
checkRd: (-1) cat_sim.Rd:110: Lost braces; missing escapes or markup?
   110 | \code{min} and {max} are mandatory for setting limits on the test length. User-defined
       |                ^
checkRd: (-1) boot.yhat.Rd:3: Lost braces
     3 | \title{Bootstrap metrics produced from /code{calc.yhat}}
       |                                             ^
checkRd: (-1) boot.yhat.Rd:19: Lost braces
    19 |     Ouput of /code{lm}
       |                   ^
checkRd: (-1) boot.yhat.Rd:22: Lost braces
    22 |     Output of /code{calc.yhat}
       |                    ^
checkRd: (-1) booteval.yhat.rd:3: Lost braces
     3 | \title{Evaluate bootstrap metrics produced from /code{calc.yhat}}
       |                                                      ^
checkRd: (-1) booteval.yhat.rd:5: Lost braces
     5 |   This function evaluates the bootstrap metrics produced from /code{boot.yhat}.   
       |                                                                    ^
checkRd: (-1) combCI.rd:26: Lost braces
    26 |   This function evaluates the bootstrap metrics produced from /code{boot.yhat}.   
       |                                                                    ^
checkRd: (-1) commonality.rd:12: Lost braces
    12 |     Output from /code{aps}
       |                      ^
checkRd: (-1) dombin.rd:12: Lost braces
    12 |     Output from /code{dominance}
       |                      ^
checkRd: (-1) dominance.rd:12: Lost braces
    12 |     Output from /code{aps}
       |                      ^
checkRd: (-1) plotCI.yhat.rd:5: Lost braces
     5 |   This function plots CIs that have been produced from /code{booteval.yhat}.
       |                                                             ^
checkRd: (-1) plotCI.yhat.rd:32: Lost braces
    32 |   This function plots CIs that have been produced from /code{booteval.yhat}.   
       |                                                             ^
checkRd: (-1) plotCI.yhat.rd:35: Lost braces
    35 | This returns a plot of CIs that have been produced from /code{booteval.yhat}.
       |                                                              ^
Packages suggested but not available for checking:
  'RNRCS', 'metScanR', 'rnoaa'
checkRd: (-1) glm.cons.Rd:54: Lost braces; missing escapes or markup?
    54 | \item{method}{the method used in fitting the model. The default method "\code{glm.fit.cons}" uses function {nnnpls} from package nnls instead of \code{lm.fit} to impose the sign of the coefficients. As in \code{glm}, the alternative method "\code{model.frame}" returns the model frame and does no fitting.}
       |                                                                                                            ^
Auto-generated content requiring editing in Rd file 'ZIBseq-package.Rd':
  \seealso: ‘~~ Optional links to other man pages, e.g. ~~ ~~ \code{\link...’
checkRd: (-1) label_kansuji.Rd:48: Lost braces; missing escapes or markup?
    48 | but if TRUE and installed '{scales}` package, 1.10 will be displayed.}
       |                            ^
Found the following HTML validation problems:
kana.html:65:1 (kana.Rd:33): Warning: trimming empty <dt>
checkRd: (-1) inside2trans.Rd:124: Lost braces
   124 | \bold{Linking number --- {Wikipedia}{,} The Free Encyclopedia}.
       |                                     ^
checkRd: (-1) ZIClass.Rd:87: Escaped LaTeX specials: \_
checkRd: (-1) ZITrain.Rd:72: Escaped LaTeX specials: \_
checkRd: (-1) ZITrain.Rd:74: Escaped LaTeX specials: \_
checkRd: (-1) zid.Rd:45: Escaped LaTeX specials: \_
checkRd: (-1) zim.Rd:63: Escaped LaTeX specials: \_
checkRd: (-1) zim.Rd:182: Lost braces
   182 |   dQuote{tab-delimited text file} when you have done and close the spreadsheet
       |         ^
checkRd: (-1) in.zoom.Rd:34: Lost braces in \itemize; meant \describe ?
checkRd: (-1) in.zoom.Rd:35: Lost braces in \itemize; meant \describe ?
checkRd: (-1) in.zoom.Rd:36: Lost braces in \itemize; meant \describe ?
checkRd: (-1) in.zoom.Rd:37: Lost braces in \itemize; meant \describe ?
checkRd: (-1) in.zoom.Rd:38: Lost braces in \itemize; meant \describe ?
checkRd: (-1) in.zoom.Rd:39: Lost braces in \itemize; meant \describe ?
checkRd: (-1) zm.Rd:30: Lost braces in \itemize; meant \describe ?
checkRd: (-1) zm.Rd:31: Lost braces in \itemize; meant \describe ?
checkRd: (-1) zm.Rd:32: Lost braces in \itemize; meant \describe ?
checkRd: (-1) zm.Rd:12: Lost braces in \itemize; meant \describe ?
checkRd: (-1) zm.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) update_ztable.Rd:75: Lost braces; missing escapes or markup?
    75 | must be NULL or contain only elements of {"h","t","b","p","!","H"}.}
       |                                          ^
checkRd: (-1) ztable_sub.Rd:78: Lost braces; missing escapes or markup?
    78 | must be NULL or contain only elements of {"h","t","b","p","!","H"}.
       |                                          ^
Found the following calls to attach():
File ‘apollo/R/apollo_attach.R’:
  attach(as.list(apollo_beta), warn.conflicts = FALSE)
  attach(database, warn.conflicts = FALSE)
  attach(draws, warn.conflicts = FALSE)
  attach(randcoeff, warn.conflicts = FALSE)
  attach(lcpars, warn.conflicts = FALSE)
See section ‘Good practice’ in ‘?attach’.
Re-building vignettes had CPU time 3 times elapsed time
Running ‘testthat.R’ [3s/5s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(canadianmaps)
  > 
  > test_check("canadianmaps")
  [ FAIL 2 | WARN 0 | SKIP 0 | PASS 4 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-functions.R:14:3'): check-functions: scale_fill_map() returns a ggplot manual fill object ──
  output$scale_name (`actual`) not equal to "manual" (`expected`).
  
  `actual` is NULL
  `expected` is a character vector ('manual')
  ── Failure ('test-functions.R:23:3'): check-functions: scale_color_map() returns a ggplot manual fill object ──
  output$scale_name (`actual`) not equal to "manual" (`expected`).
  
  `actual` is NULL
  `expected` is a character vector ('manual')
  
  [ FAIL 2 | WARN 0 | SKIP 0 | PASS 4 ]
  Error: Test failures
  Execution halted
Error(s) in re-building vignettes:
  ...
--- re-building ‘Overview.Rmd’ using rmarkdown

Quitting from lines 46-63 [fetch] (Overview.Rmd)
Error: processing vignette 'Overview.Rmd' failed with diagnostics:
Timeout was reached: [climmob.net] Failed to connect to climmob.net port 443 after 10002 ms: Timeout was reached
--- failed re-building ‘Overview.Rmd’

SUMMARY: processing the following file failed:
  ‘Overview.Rmd’

Error: Vignette re-building failed.
Execution halted
Error(s) in re-building vignettes:
  ...
--- re-building ‘cobalt.Rmd’ using rmarkdown
--- finished re-building ‘cobalt.Rmd’

--- re-building ‘faq.Rmd’ using rmarkdown
--- finished re-building ‘faq.Rmd’

--- re-building ‘longitudinal-treat.Rmd’ using rmarkdown
--- finished re-building ‘longitudinal-treat.Rmd’

--- re-building ‘love.plot.Rmd’ using rmarkdown
--- finished re-building ‘love.plot.Rmd’

--- re-building ‘optimizing-balance.Rmd’ using rmarkdown
--- finished re-building ‘optimizing-balance.Rmd’

--- re-building ‘other-packages.Rmd’ using rmarkdown
--- finished re-building ‘other-packages.Rmd’

--- re-building ‘segmented-data.Rmd’ using rmarkdown

Quitting from lines 202-208 [unnamed-chunk-15] (segmented-data.Rmd)
Error: processing vignette 'segmented-data.Rmd' failed with diagnostics:
`use.mlogit` is no longer accepted and will be ignored; use `multi.method` instead. See `help("method_glm")` for details.
--- failed re-building ‘segmented-data.Rmd’

SUMMARY: processing the following file failed:
  ‘segmented-data.Rmd’

Error: Vignette re-building failed.
Execution halted
Running ‘testthat.R’ [4s/18s]
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)
  > library(cryptotrackr)
  > 
  > test_check("cryptotrackr")
  No encoding supplied: defaulting to UTF-8.
  [1] " {\"jsonrpc\":\"2.0\",\"error\":{\"code\":429,\"message\":\"Too many requests for a specific RPC call, contact your app developer or support@rpcpool.com.\"}, \"id\": null } \r\n"
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 92 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-solana.R:4:3'): the "solana_get_signature_for_address" function returns a list ──
  Error in `solana_api_call(url, request_body)`: Request failed with status code: 429
  Backtrace:
      ▆
   1. └─cryptotrackr::solana_get_signature_for_address(url, address) at test-solana.R:4:3
   2.   └─cryptotrackr::solana_api_call(url, request_body)
  
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 92 ]
  Error: Test failures
  Execution halted
Error(s) in re-building vignettes:
  ...
--- re-building ‘A-introduction.Rmd’ using rmarkdown
--- finished re-building ‘A-introduction.Rmd’

--- re-building ‘B-search.Rmd’ using rmarkdown

Quitting from lines 21-24 [unnamed-chunk-1] (B-search.Rmd)
Error: processing vignette 'B-search.Rmd' failed with diagnostics:
Internal Server Error (HTTP 500). Failed to Exception running search for [Gary King] with filterQueries [dvObjectType:(dataverses OR datasets OR files), ] and paginationStart [0]: edu.harvard.iq.dataverse.search.SearchException: Internal Dataverse Search Engine Error org.apache.solr.client.solrj.SolrServerException org.apache.solr.client.solrj.SolrServerException: Timeout occurred while waiting response from server at: http://dvn-cloud-solr.lib.harvard.edu:8983/solr/collection1 java.net.SocketTimeoutException java.net.SocketTimeoutException: Read timed out .
--- failed re-building ‘B-search.Rmd’

--- re-building ‘C-download.Rmd’ using rmarkdown

Quitting from lines 46-50 [unnamed-chunk-3] (C-download.Rmd)
Error: processing vignette 'C-download.Rmd' failed with diagnostics:
Bad Request (HTTP 400). Failed to Search Syntax Error: Error from server at http://dvn-cloud-solr.lib.harvard.edu:8983/solr/collection1: Circuit Breakers tripped CPU Circuit Breaker triggered as seen CPU usage is above allowed threshold.Seen CPU usage 86.13 and allocated threshold 85.0
.
--- failed re-building ‘C-download.Rmd’

SUMMARY: processing the following files failed:
  ‘B-search.Rmd’ ‘C-download.Rmd’

Error: Vignette re-building failed.
Execution halted
Found the following significant warnings:
  emd-rubner.c:810:20: warning: ‘minI’ is used uninitialized [-Wuninitialized]
  emd-rubner.c:810:26: warning: ‘minJ’ is used uninitialized [-Wuninitialized]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/emdist.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-13 (Debian 13.2.0-13) 13.2.0’
Running ‘testthat.R’ [3s/7s]
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)
  > library(fishRman)
  > 
  > test_check("fishRman")
  The resource you requested cannot be served. Error message:
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 8 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-fish.R:16:3'): the right dataframe is returned from the API ────
  Error in `curl::curl_fetch_memory(url, handle = handle)`: Failed to connect to fishrman.ddnsfree.com port 443 after 3213 ms: Couldn't connect to server
  Backtrace:
      ▆
   1. └─fishRman::fish(bait) at test-fish.R:16:3
   2.   └─base::tryCatch(...)
   3.     └─base (local) tryCatchList(expr, classes, parentenv, handlers)
   4.       ├─base (local) tryCatchOne(...)
   5.       │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
   6.       └─base (local) tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
   7.         └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
   8.           └─value[[3L]](cond)
  
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 8 ]
  Error: Test failures
  Execution halted
Running examples in ‘geneset-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: getEnrichrdb
> ### Title: Get EnrichrDB geneset and geneset_name Geneset is a data.frame
> ###   of 2 columns with term id and gene id
> ### Aliases: getEnrichrdb
> 
> ### ** Examples
> 
> x = getEnrichrdb(org = "human", library = "COVID-19_Related_Gene_Sets",
+ data_dir = tempdir())
Warning in utils::download.file(url, destfile, quiet = TRUE, method = "auto",  :
  downloaded length 3626 != reported length 469757
Warning in utils::download.file(url, destfile, quiet = TRUE, method = "auto",  :
  URL 'https://genekitr-china.oss-accelerate.aliyuncs.com/anno/enrichrdb/human/COVID-19_Related_Gene_Sets_geneset.fst': Timeout of 60 seconds was reached
Auto download failed...
Please download manually via: https://genekitr-china.oss-accelerate.aliyuncs.com/anno/enrichrdb/human/COVID-19_Related_Gene_Sets_geneset.fst
Then save to: /home/hornik/tmp/scratch/Rtmp4xJ98q/anno/enrichrdb/

Error in fstretrieve(file_name, columns, from, to) : 
  embedded nul in string: '\xa7\xe8!\x95\xad>\0b\026\x88\xf0\002\xba\xfca#\xe63\x9b0zk6b{\xad\004#\x84Xe\xe2\xdb+\x8a\xe7%S7bS_\xbc\xda\001b)\xa2\xa6'q\xe6:"~\xc1o\035\x95p '
Calls: getEnrichrdb
Execution halted
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/ggtern.Rcheck/00install.out’ for details.
Missing link or links in Rd file 'gisco_countrycode.Rd':
  ‘[countrycode:countrycode-package]{countrycode::countrycode-package}’

See section 'Cross-references' in the 'Writing R Extensions' manual.
Running ‘spelling.R’ [0s/1s]
  Running ‘testthat.R’ [6s/10s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(glancedata)
  > 
  > test_check("glancedata")
  [ FAIL 5 | WARN 4 | SKIP 0 | PASS 13 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-plot_numerical_vars.R:7:3'): histogram mode is a list of length 9 ──
  mymode == "list" & mylength == 9 is not TRUE
  
  `actual`:   FALSE
  `expected`: TRUE 
  ── Failure ('test-plot_numerical_vars.R:14:3'): density is a list of length 9 ──
  mymode == "list" & mylength == 9 is not TRUE
  
  `actual`:   FALSE
  `expected`: TRUE 
  ── Failure ('test-plot_numerical_vars.R:22:3'): boxplot is a list of length 9 ──
  mymode == "list" & mylength == 9 is not TRUE
  
  `actual`:   FALSE
  `expected`: TRUE 
  ── Failure ('test-plot_numerical_vars.R:30:3'): violin is a list of length 9 ───
  mymode == "list" & mylength == 9 is not TRUE
  
  `actual`:   FALSE
  `expected`: TRUE 
  ── Failure ('test-plot_numerical_vars.R:37:3'): qqplot is a list of length 9 ───
  mymode == "list" & mylength == 9 is not TRUE
  
  `actual`:   FALSE
  `expected`: TRUE 
  
  [ FAIL 5 | WARN 4 | SKIP 0 | PASS 13 ]
  Error: Test failures
  Execution halted
Running ‘testthat.R’ [105s/161s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(lintr)
  > 
  > # suppress printing environment name (noisy)
  > invisible({
  +   loadNamespace("patrick")
  +   loadNamespace("withr")
  + })
  > 
  > test_check("lintr")
  [ FAIL 1 | WARN 0 | SKIP 1 | PASS 5154 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • data.table cannot be loaded (1): 'test-methods.R:155:3'
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-get_source_expressions.R:97:5'): Multi-byte character truncated by parser is ignored ──
  error$message (`actual`) not identical to "unexpected input" (`expected`).
  
  `actual`:   "unexpected invalid token"
  `expected`: "unexpected input"        
  Backtrace:
      ▆
   1. └─lintr (local) with_content_to_parse(...) at test-get_source_expressions.R:96:3
   2.   └─base::eval(substitute(code), envir = content_env) at test-get_source_expressions.R:12:3
   3.     └─base::eval(substitute(code), envir = content_env)
   4.       └─testthat::expect_identical(error$message, "unexpected input") at test-get_source_expressions.R:97:5
  
  [ FAIL 1 | WARN 0 | SKIP 1 | PASS 5154 ]
  Error: Test failures
  Execution halted
Found the following significant warnings:
  Warning: replacing previous import ‘ggmulti::coord_radial’ by ‘ggplot2::coord_radial’ when loading ‘loon.ggplot’
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/loon.ggplot.Rcheck/00install.out’ for details.
trim:
  function(x, ...)
trim.wimids:
  function(w, at, lower, ...)
See section ‘Generic functions and methods’ in the ‘Writing R
Extensions’ manual.
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/multilevelcoda.Rcheck/00install.out’ for details.
Running examples in ‘psychonetrics-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: CIplot
> ### Title: Plot Analytic Confidence Intervals
> ### Aliases: CIplot
> 
> ### ** Examples
> 
> ### Example from ?ggm ###
> # Load bfi data from psych package:
> library("psychTools")
> data(bfi)
> 
> # Also load dplyr for the pipe operator:
> library("dplyr")

Attaching package: ‘dplyr’

The following object is masked from ‘package:psychTools’:

    recode

The following objects are masked from ‘package:stats’:

    filter, lag

The following objects are masked from ‘package:base’:

    intersect, setdiff, setequal, union

> 
> # Let's take the agreeableness items, and gender:
> ConsData <- bfi %>% 
+   select(A1:A5, gender) %>% 
+   na.omit # Let's remove missingness (otherwise use Estimator = "FIML)
> 
> # Define variables:
> vars <- names(ConsData)[1:5]
> 
> # Let's fit an empty GGM:
> mod0 <- ggm(ConsData, vars = vars)
Error in .nextMethod(.Object = .Object, ... = ...) : 
  cannot use object of class “matrix” in new():  class “corMatrix” does not extend that class
Calls: ggm ... initialize -> initialize -> callNextMethod -> .nextMethod
Execution halted
Running ‘testthat.R’ [2s/4s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(receptiviti)
  > 
  > test_check("receptiviti")
  Status: ERROR
  Message: URL is unreachable
  [ FAIL 1 | WARN 0 | SKIP 2 | PASS 16 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • no API key (2): 'test-receptiviti.R:31:1', 'test-receptiviti_status.R:17:1'
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-receptiviti_status.R:6:3'): failures works ───────────────────
  ...[] (`actual`) not identical to "Message: 404" (`expected`).
  
  `actual`:   "Message: 500"
  `expected`: "Message: 404"
  
  [ FAIL 1 | WARN 0 | SKIP 2 | PASS 16 ]
  Error: Test failures
  Execution halted
Running examples in ‘REDCapR-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: redcap_next_free_record_name
> ### Title: Determine free available record ID
> ### Aliases: redcap_next_free_record_name
> 
> ### ** Examples
> 
> uri      <- "https://bbmc.ouhsc.edu/redcap/api/"
> token    <- "9A81268476645C4E5F03428B8AC3AA7B"
> # Returns 6
> REDCapR::redcap_next_free_record_name(redcap_uri = uri, token = token)
Error in curl::curl_fetch_memory(url, handle = handle) : 
  Timeout was reached: [bbmc.ouhsc.edu] Failed to connect to bbmc.ouhsc.edu port 443 after 10002 ms: Timeout was reached
Calls: <Anonymous> ... request_fetch -> request_fetch.write_memory -> <Anonymous>
Execution halted
Error(s) in re-building vignettes:
  ...
--- re-building ‘BasicREDCapROperations.Rmd’ using rmarkdown

Quitting from lines 73-76 [return_all] (BasicREDCapROperations.Rmd)
Error: processing vignette 'BasicREDCapROperations.Rmd' failed with diagnostics:
Timeout was reached: [bbmc.ouhsc.edu] Failed to connect to bbmc.ouhsc.edu port 443 after 10002 ms: Timeout was reached
--- failed re-building ‘BasicREDCapROperations.Rmd’

--- re-building ‘SecurityDatabase.Rmd’ using rmarkdown
--- finished re-building ‘SecurityDatabase.Rmd’

--- re-building ‘TroubleshootingApiCalls.Rmd’ using rmarkdown
--- finished re-building ‘TroubleshootingApiCalls.Rmd’

--- re-building ‘advanced-redcapr-operations.Rmd’ using rmarkdown
--- finished re-building ‘advanced-redcapr-operations.Rmd’

--- re-building ‘workflow-read.Rmd’ using rmarkdown
--- finished re-building ‘workflow-read.Rmd’

SUMMARY: processing the following file failed:
  ‘BasicREDCapROperations.Rmd’

Error: Vignette re-building failed.
Execution halted
Note: information on .o files is not available
File ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rJava/libs/rJava.so’:
  Found ‘_exit’, possibly from ‘_exit’ (C)
  Found ‘stderr’, possibly from ‘stderr’ (C)
  Found ‘stdout’, possibly from ‘stdout’ (C)
File ‘rJava/libs/rJava.so’:
  Found non-API calls to R: ‘R_CStackLimit’, ‘R_CStackStart’

Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor use Fortran I/O
nor system RNGs nor [v]sprintf. The detected symbols are linked into
the code but might come from libraries and not actually be called.
Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Running examples in ‘rliger-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: createH5LigerDataset
> ### Title: Create on-disk ligerDataset Object
> ### Aliases: createH5LigerDataset
> 
> ### ** Examples
> 
> h5Path <- system.file("extdata/ctrl.h5", package = "rliger")
> ld <- createH5LigerDataset(h5Path)
Error in H5File.open(filename, mode, file_create_pl, file_access_pl) : 
  HDF5-API Errors:
    error #000: ../../../src/H5F.c in H5Fopen(): line 412: unable to open file
        class: HDF5
        major: File accessibility
        minor: Unable to open file

    error #001: ../../../src/H5Fint.c in H5F_open(): line 1655: unable to open file: time = Mon Mar 25 03:05:40 2024
, name = '/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rliger/extdata/ctrl.h5', tent_flags = 1
        class: HDF5
        major: File accessibility
        minor: Unable to open file

    error #002: ../../../src/H5FD.c in H5FD_open(): line 722: open failed
        class: HDF5
        major: Virtual File Layer
        minor: Unable to initialize object

    error #003: ../../../src/H5FDsec2.c in H5FD__sec2_open(): line 351: unable to open file: name = '/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rliger/extdata/ctrl.h5', errno = 30, error message = 'Read-only file system', flags = 1, o_flags         class: HDF5
        major: File accessibility
        mi
Calls: createH5LigerDataset -> <Anonymous> -> initialize -> H5File.open
Execution halted
Note: information on .o files is not available
File ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rserve/libs/Rserve.so’:
  Found ‘exit’, possibly from ‘exit’ (C)
  Found ‘rand’, possibly from ‘rand’ (C)
  Found ‘random’, possibly from ‘random’ (C)
  Found ‘srandom’, possibly from ‘srandom’ (C)
  Found ‘stderr’, possibly from ‘stderr’ (C)
File ‘Rserve/libs/Rserve.so’:
  Found non-API calls to R: ‘R_Consolefile’, ‘R_InputHandlers’,
    ‘R_Outputfile’, ‘R_TempDir’, ‘R_Visible’, ‘addInputHandler’,
    ‘ptr_R_Busy’, ‘ptr_R_ClearerrConsole’, ‘ptr_R_FlushConsole’,
    ‘ptr_R_ReadConsole’, ‘ptr_R_ResetConsole’, ‘ptr_R_ShowMessage’,
    ‘ptr_R_WriteConsole’, ‘ptr_R_WriteConsoleEx’

Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor use Fortran I/O
nor system RNGs nor [v]sprintf. The detected symbols are linked into
the code but might come from libraries and not actually be called.
Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
‘sandwich-CL.Rnw’... [10s/17s] NOTE
differences from ‘sandwich-CL.Rout.save’
82c82
< Classes and Methods for R originally developed in the
---
> Classes and Methods for R developed in the
85,87c85,87
< Stanford University (2002-2015),
< by and under the direction of Simon Jackman.
< hurdle and zeroinfl functions by Achim Zeileis.
---
> Stanford University
> Simon Jackman
> hurdle and zeroinfl functions by Achim Zeileis
  ‘sandwich-OOP.Rnw’... [2s/4s] OK
  ‘sandwich.Rnw’... [1s/2s] OK
Running ‘testthat.R’ [133s/228s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > 
  > library("testthat")
  > library("sentopics")
  > 
  > if (Sys.getenv("R_COVR") != "true") {
  +   test_check("sentopics")
  + } else {
  +   test_check("sentopics", reporter = default_reporter())
  +   # test_check("sentopics", reporter = LocationReporter)
  + }
  [ FAIL 1 | WARN 2 | SKIP 1 | PASS 326 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-parallel_chains.R:97:5'
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-others.R:2:3'): get_ECB_conferences works ──────────────────────
  Error in ``[.data.table`(res, , c({
      tmp <- data.table::rbindlist(sections)
      tmp[, `:=`(paragraph_id, paste0(doc_id, "_", .I))]
      tmp
  }), by = c("date", "doc_id", "title"))`: j doesn't evaluate to the same number of columns for each group
  Backtrace:
      ▆
   1. └─sentopics:::get_ECB_press_conferences(years = 1998) at test-others.R:2:3
   2.   ├─...[]
   3.   └─data.table::`[.data.table`(...)
  
  [ FAIL 1 | WARN 2 | SKIP 1 | PASS 326 ]
  Error: Test failures
  Execution halted
  
   *** caught segfault ***
  address 0x20, cause 'memory not mapped'
  An irrecoverable exception occurred. R is aborting now ...
Running ‘testthat.R’ [2s/4s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(stablespec)
  > 
  > test_check("stablespec")
  [ FAIL 1 | WARN 0 | SKIP 2 | PASS 54 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On CRAN (2): 'test-modelFitness.R:60:3', 'test-stablespec.R:186:3'
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-repairCycle.R:45:3'): Correct input arguments yield expected output in repairCyclicModel. ──
  length(...) not equal to 30.
  1/1 mismatches
  [1] 36 - 30 == 6
  
  [ FAIL 1 | WARN 0 | SKIP 2 | PASS 54 ]
  Error: Test failures
  Execution halted
Found the following significant warnings:

  Warning in ggiraph(code = { : 'ggiraph' is deprecated.
  Warning in ggiraph(code = { : 'ggiraph' is deprecated.
  Warning in ggiraph(code = { : 'ggiraph' 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
vlda_plot 4.71  0.117   6.235
Namespace in Imports field not imported from: ‘MASS’
  All declared Imports should be used.
installed size is 13.7Mb
  sub-directories of 1Mb or more:
    include  13.6Mb
Namespace in Imports field not imported from: ‘tibble’
  All declared Imports should be used.
File ‘acc/libs/acc.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
File ‘ACDm/libs/ACDm.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is 11.7Mb
  sub-directories of 1Mb or more:
    htmlwidgets  11.6Mb
Namespace in Imports field not imported from: ‘testthat’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘hunspell’
  All declared Imports should be used.
installed size is 13.7Mb
  sub-directories of 1Mb or more:
    R  13.6Mb
Namespace in Imports field not imported from: ‘svglite’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘tidyr’
  All declared Imports should be used.
Imports includes 25 non-default packages.
Importing from so many packages makes the package vulnerable to any of
them becoming unavailable.  Move as many as possible to Suggests and
use conditionally.
Namespaces in Imports field not imported from:
  ‘MASS’ ‘RcppProgress’
  All declared Imports should be used.
installed size is  7.6Mb
  sub-directories of 1Mb or more:
    doc   7.1Mb
Namespace in Imports field not imported from: ‘Benchmarking’
  All declared Imports should be used.
installed size is  6.4Mb
  sub-directories of 1Mb or more:
    R      1.4Mb
    data   3.0Mb
Namespace in Imports field not imported from: ‘sp’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘jsonlite’
  All declared Imports should be used.
installed size is  9.5Mb
  sub-directories of 1Mb or more:
    data   9.3Mb
installed size is  5.1Mb
  sub-directories of 1Mb or more:
    doc   4.7Mb
installed size is  6.2Mb
  sub-directories of 1Mb or more:
    doc   3.7Mb
Undeclared packages ‘timereg’, ‘rms’, ‘ranger’ in Rd xrefs
Namespace in Imports field not imported from: ‘Rdpack’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘fields’ ‘knitr’
  All declared Imports should be used.
installed size is  5.8Mb
  sub-directories of 1Mb or more:
    tutorials   5.7Mb
Namespaces in Imports field not imported from:
  ‘BayesFactor’ ‘GGally’ ‘Hmisc’ ‘WRS2’ ‘boot’ ‘car’ ‘dplyr’ ‘effects’
  ‘effsize’ ‘forcats’ ‘ggplot2’ ‘lm.beta’ ‘nlme’ ‘readr’ ‘robust’
  ‘sandwich’ ‘sjstats’ ‘tidyr’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘flextable’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘DBI’ ‘assertthat’ ‘tibble’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘docstring’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘mathjaxr’
  All declared Imports should be used.
Undeclared packages ‘epiR’, ‘cccrm’ in Rd xrefs
File ‘ahaz/libs/ahaz.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘devtools’ ‘mixexp’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘knitr’ ‘randomNames’ ‘tidyr’
  All declared Imports should be used.
Undeclared packages ‘multcomp’, ‘gmodels’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘Rsolnp’ ‘SuperLearner’ ‘future.apply’ ‘ggplot2’ ‘progressr’ ‘stats’
  ‘utils’
  All declared Imports should be used.
installed size is  8.0Mb
  sub-directories of 1Mb or more:
    ShinyGR   4.3Mb
    doc       3.5Mb
Undeclared package ‘SnowballC’ in Rd xrefs
File ‘AlgDesign/libs/AlgDesign.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Undeclared package ‘hyperSpec’ in Rd xrefs
File ‘alphabetr/libs/alphabetr.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Package suggested but not available for checking: ‘metaboliteIDmapping’
Namespaces in Imports field not imported from:
  ‘magrittr’ ‘tidyverse’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘devtools’ ‘dplyr’ ‘gridExtra’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘kernlab’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘car’ ‘datasets’ ‘dplyr’ ‘ggplot2’ ‘plotly’ ‘shiny’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘DescTools’ ‘HH’ ‘datasets’ ‘dplyr’ ‘rhandsontable’ ‘shiny’
  All declared Imports should be used.
installed size is 34.5Mb
  sub-directories of 1Mb or more:
    R  34.4Mb
Namespaces in Imports field not imported from:
  ‘Rdpack’ ‘mcclust’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘R6’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘curl’ ‘httr’
  All declared Imports should be used.
Undeclared packages ‘geepack’, ‘dispmod’ in Rd xrefs
Imports includes 22 non-default packages.
Importing from so many packages makes the package vulnerable to any of
them becoming unavailable.  Move as many as possible to Suggests and
use conditionally.
Namespace in Imports field not imported from: ‘RcppParallel’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘AER’ ‘ChainLadder’ ‘ISLR’ ‘ggplot2’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘pls’
  All declared Imports should be used.
installed size is  6.9Mb
  sub-directories of 1Mb or more:
    extdata   5.4Mb
installed size is  5.4Mb
  sub-directories of 1Mb or more:
    R      1.2Mb
    data   1.6Mb
    doc    1.7Mb
installed size is  7.2Mb
  sub-directories of 1Mb or more:
    doc   5.8Mb
Namespaces in Imports field not imported from:
  ‘bannerCommenter’ ‘config’ ‘feather’ ‘here’ ‘knitr’ ‘log4r’ ‘ps’
  ‘rmarkdown’ ‘skimr’ ‘snakecase’ ‘testthat’ ‘tidyverse’
  All declared Imports should be used.
Undeclared package ‘rmarkdown’ in Rd xrefs
Namespace in Imports field not imported from: ‘methods’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘purrr’ ‘shinyBS’ ‘shinydashboard’ ‘shinyjs’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘mvtnorm’
  All declared Imports should be used.
Undeclared packages ‘survey’, ‘Matching’ in Rd xrefs
installed size is  5.9Mb
  sub-directories of 1Mb or more:
    R             2.3Mb
    help          1.2Mb
    testScripts   1.3Mb
installed size is  5.4Mb
  sub-directories of 1Mb or more:
    data   5.1Mb
installed size is 48.6Mb
  sub-directories of 1Mb or more:
    R      4.3Mb
    libs  43.6Mb
Namespace in Imports field not imported from: ‘purrr’
  All declared Imports should be used.
File ‘ash/libs/ash.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  6.6Mb
  sub-directories of 1Mb or more:
    include   6.5Mb
Undeclared packages ‘assertive.properties’, ‘assertive.types’ in Rd xrefs
Unknown packages ‘assertive.properties’, ‘assertive.types’ in Rd xrefs
Namespace in Imports field not imported from: ‘knitr’
  All declared Imports should be used.
Running examples in ‘astrochron-Ex.R’ failed
The error most likely occurred in:

> ### Name: asm
> ### Title: Average Spectral Misfit
> ### Aliases: asm
> 
> ### ** Examples
> 
> ## These frequencies are from modelA (type '?astrochron' for more information). 
> ## They are for an 8 meter window, centered at 22 meters height. Units are cycles/m . 
> freq <- c(0.1599833,0.5332776,1.5998329,2.6797201,3.2796575,3.8795948,5.5194235,6.5459830)
> freq <- data.frame(freq)
> 
> ## Rayleigh frequency in cycles/m
> rayleigh <- 0.1245274
> 
> ## Nyquist frequency in cycles/m
> nyquist <- 6.66597
> 
> ## orbital target in 1/ky. Predicted periods for 94 Ma (see Meyers et al., 2012)
> target <- c(1/405.47,1/126.98,1/96.91,1/37.66,1/22.42,1/18.33)
> 
> ## percent uncertainty in orbital target
> fper=c(0.023,0.046,0.042,0.008,0.035,0.004)
> 
> asm(freq=freq,target=target,fper=fper,rayleigh=rayleigh,nyquist=nyquist,sedmin=0.5,sedmax=3,
+     numsed=100,linLog=1,iter=100000,output=FALSE)

----- PERFORMING AVERAGE SPECTRAL MISFIT ANALYSIS -----

 *** caught segfault ***
address 0x7ffe177c98f0, cause 'memory not mapped'

Traceback:
 1: asm1.8(freq[, 1], numfreq, target[, 1], numtarg, fper[, 1], rayleigh,     nyquist, sedmin, sedmax, numsed, linLog, ispecgen, irepl,     isetfreq, iter)
 2: asm(freq = freq, target = target, fper = fper, rayleigh = rayleigh,     nyquist = nyquist, sedmin = 0.5, sedmax = 3, numsed = 100,     linLog = 1, iter = 1e+05, output = FALSE)
An irrecoverable exception occurred. R is aborting now ...
Undeclared package ‘iterators’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘DT’ ‘lubridate’ ‘openair’ ‘plotly’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘R.rsp’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘dlnm’ ‘ggplot2’ ‘mvmeta’ ‘pbs’ ‘tsModel’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘abind’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘MASS’ ‘broom’ ‘diptest’ ‘ggplot2’ ‘hexbin’ ‘moments’
  All declared Imports should be used.
Undeclared package ‘tensorflow’ in Rd xrefs
Namespace in Imports field not imported from: ‘usethis’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘plotly’ ‘shinycssloaders’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘Hmisc’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘readxl’ ‘reshape2’ ‘stringr’ ‘tidyr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘DT’ ‘bslib’ ‘rclipboard’ ‘rmarkdown’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘openssl’
  All declared Imports should be used.
Undeclared package ‘AzureAuth’ in Rd xrefs
Namespace in Imports field not imported from: ‘curl’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘R6’ ‘jose’ ‘openssl’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘httr’ ‘openssl’
  All declared Imports should be used.
Found the following files/directories:
  ‘containers-user-1234’
installed size is  5.4Mb
  sub-directories of 1Mb or more:
    data   5.3Mb
Undeclared packages ‘InvariantCausalPrediction’, ‘CompareCausalNetworks’ in Rd xrefs
installed size is  9.0Mb
  sub-directories of 1Mb or more:
    libs   7.2Mb
installed size is  9.5Mb
  sub-directories of 1Mb or more:
    libs   7.7Mb
Namespaces in Imports field not imported from:
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  All declared Imports should be used.
installed size is  6.1Mb
  sub-directories of 1Mb or more:
    data   1.1Mb
    libs   4.2Mb
Undeclared package ‘tidyselect’ in Rd xrefs
installed size is  5.9Mb
  sub-directories of 1Mb or more:
    R     2.5Mb
    doc   1.8Mb
installed size is  5.6Mb
  sub-directories of 1Mb or more:
    data   4.7Mb
Undeclared package ‘YaleToolkit’ in Rd xrefs
File ‘Barnard/libs/Barnard.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  9.4Mb
  sub-directories of 1Mb or more:
    java   9.4Mb
File ‘base64enc/libs/base64enc.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Undeclared packages ‘jsonlite’, ‘arrow’ in Rd xrefs
Namespace in Imports field not imported from: ‘splines’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘circlize’ ‘hexbin’ ‘scales’ ‘sna’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘vtable’
  All declared Imports should be used.
File ‘batman/libs/batman.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is 10.0Mb
  sub-directories of 1Mb or more:
    doc    1.9Mb
    libs   6.5Mb
Namespaces in Imports field not imported from:
  ‘magrittr’ ‘rstantools’
  All declared Imports should be used.
File ‘BayesComm/libs/BayesComm.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  9.8Mb
  sub-directories of 1Mb or more:
    doc    1.0Mb
    libs   8.2Mb
Namespace in Imports field not imported from: ‘rstantools’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘MASS’ ‘MatrixModels’
  All declared Imports should be used.
installed size is 12.5Mb
  sub-directories of 1Mb or more:
    doc  10.9Mb
Installation failed.
See ‘/data/gannet/ripley/R/packages/tests-clang/BayesFM.Rcheck/00install.out’ for details.
installed size is  9.5Mb
  sub-directories of 1Mb or more:
    libs   8.0Mb
Namespaces in Imports field not imported from:
  ‘RcppParallel’ ‘StanHeaders’ ‘astsa’
  All declared Imports should be used.
installed size is  8.9Mb
  sub-directories of 1Mb or more:
    libs   7.8Mb
Namespaces in Imports field not imported from:
  ‘MASS’ ‘RcppParallel’ ‘mlbench’ ‘rstantools’
  All declared Imports should be used.
installed size is  9.8Mb
  sub-directories of 1Mb or more:
    libs   9.2Mb
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    libs   3.6Mb
Namespace in Imports field not imported from: ‘plyr’
  All declared Imports should be used.
File ‘bayesianETAS/libs/bayesianETAS.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  8.1Mb
  sub-directories of 1Mb or more:
    data   1.3Mb
    help   1.9Mb
    libs   3.8Mb
Namespace in Imports field not imported from: ‘FastGP’
  All declared Imports should be used.
Undeclared packages ‘rworldmap’, ‘snowFT’ in Rd xrefs
installed size is  5.9Mb
  sub-directories of 1Mb or more:
    doc    2.9Mb
    libs   1.4Mb
installed size is  6.3Mb
  sub-directories of 1Mb or more:
    help   6.0Mb
installed size is  5.3Mb
  sub-directories of 1Mb or more:
    data   3.8Mb
    doc    1.0Mb
installed size is  6.5Mb
  sub-directories of 1Mb or more:
    R     1.9Mb
    doc   3.8Mb
Namespaces in Imports field not imported from:
  ‘HDInterval’ ‘MCMCpack’ ‘R2WinBUGS’ ‘R2jags’ ‘carData’ ‘rjags’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘MASS’ ‘Matrix’ ‘matrixcalc’ ‘stats’
  All declared Imports should be used.
installed size is  6.7Mb
  sub-directories of 1Mb or more:
    libs   6.3Mb
installed size is  5.4Mb
  sub-directories of 1Mb or more:
    data   1.5Mb
    doc    1.4Mb
    libs   1.6Mb
Undeclared package ‘mvtnorm’ in Rd xrefs
installed size is  5.8Mb
  sub-directories of 1Mb or more:
    ex-data   4.7Mb
File ‘BayesTree/libs/BayesTree.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘dplyr’
  All declared Imports should be used.
installed size is 11.8Mb
  sub-directories of 1Mb or more:
    libs  11.7Mb
Namespaces in Imports field not imported from:
  ‘ggfortify’ ‘ggplot2’ ‘matrixStats’ ‘reshape2’ ‘scales’
  All declared Imports should be used.
Undeclared package ‘formula.tools’ in Rd xrefs
Undeclared package ‘betareg’ in Rd xrefs
File ‘BCBCSF/libs/BCBCSF.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    doc       1.2Mb
    extdata   3.3Mb
Namespaces in Imports field not imported from:
  ‘coda’ ‘knitr’ ‘plyr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘knitr’ ‘rlang’
  All declared Imports should be used.
installed size is  5.3Mb
  sub-directories of 1Mb or more:
    doc       3.6Mb
    extdata   1.2Mb
installed size is  9.2Mb
  sub-directories of 1Mb or more:
    libs   7.6Mb
Namespaces in Imports field not imported from:
  ‘Rcpp’ ‘chron’ ‘colorspace’ ‘gtable’ ‘htmltools’ ‘htmlwidgets’
  ‘httpuv’ ‘magrittr’ ‘munsell’ ‘plyr’ ‘scales’ ‘stringi’ ‘xtable’
  ‘yaml’
  All declared Imports should be used.
installed size is  7.8Mb
  sub-directories of 1Mb or more:
    java   7.7Mb
installed size is  5.8Mb
  sub-directories of 1Mb or more:
    data   1.7Mb
    libs   3.5Mb
Found the following files/directories:
  ‘pulse-PKdhtXMmr18n’
File ‘BenfordTests/libs/BenfordTests.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘BiDAG’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘compiler’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘DT’ ‘dplyr’ ‘ggplot2’ ‘readxl’ ‘rlist’ ‘shinyBS’ ‘shinyWidgets’
  ‘shinydashboard’ ‘shinyjs’ ‘shinythemes’ ‘stringr’ ‘tidyr’
  All declared Imports should be used.
File ‘betategarch/libs/betategarch.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Imports includes 27 non-default packages.
Importing from so many packages makes the package vulnerable to any of
them becoming unavailable.  Move as many as possible to Suggests and
use conditionally.
installed size is  8.1Mb
  sub-directories of 1Mb or more:
    libs   7.3Mb
installed size is  6.2Mb
  sub-directories of 1Mb or more:
    doc    3.4Mb
    help   1.1Mb
Installation failed.
See ‘/data/gannet/ripley/R/packages/tests-clang/bgw.Rcheck/00install.out’ for details.
Undeclared package ‘conf.design’ in Rd xrefs
installed size is 153.3Mb
  sub-directories of 1Mb or more:
    include  153.2Mb
File ‘BiasedUrn/libs/BiasedUrn.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Imports includes 23 non-default packages.
Importing from so many packages makes the package vulnerable to any of
them becoming unavailable.  Move as many as possible to Suggests and
use conditionally.
Namespaces in Imports field not imported from:
  ‘DAAG’ ‘datasets’ ‘expm’ ‘mvtnorm’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘nycflights13’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘RBGL’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘httr’
  All declared Imports should be used.
File ‘biglm/libs/biglm.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘rmio’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘survival’
  All declared Imports should be used.
Undeclared packages ‘tint’, ‘pinp’, ‘linl’ in Rd xrefs
File ‘binom/libs/binom.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘gtools’
  All declared Imports should be used.
installed size is  7.7Mb
  sub-directories of 1Mb or more:
    libs   7.2Mb
File ‘bioPN/libs/bioPN.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  5.6Mb
  sub-directories of 1Mb or more:
    data      1.6Mb
    extdata   2.0Mb
installed size is  5.5Mb
  sub-directories of 1Mb or more:
    data   1.6Mb
    help   2.6Mb
installed size is  5.7Mb
  sub-directories of 1Mb or more:
    extdata   4.8Mb
Namespace in Imports field not imported from: ‘Rcpp’
  All declared Imports should be used.
installed size is  6.2Mb
  sub-directories of 1Mb or more:
    doc   5.6Mb
Namespaces in Imports field not imported from:
  ‘stats’ ‘utils’
  All declared Imports should be used.
Undeclared package ‘RColorBrewer’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘R6’ ‘knitr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘digest’ ‘ergm’ ‘foreign’ ‘gWidgets2’ ‘gWidgets2tcltk’ ‘haven’
  ‘plot3D’ ‘plot3Drgl’ ‘rgl’ ‘sna’ ‘statnet.common’
  All declared Imports should be used.
installed size is 11.4Mb
  sub-directories of 1Mb or more:
    R          1.2Mb
    libs       8.5Mb
    testdata   1.4Mb
Namespaces in Imports field not imported from:
  ‘knitr’ ‘rmarkdown’
  All declared Imports should be used.
installed size is  5.1Mb
  sub-directories of 1Mb or more:
    data   3.5Mb
Namespace in Imports field not imported from: ‘RcppArmadillo’
  All declared Imports should be used.
File ‘blockTools/libs/blockTools.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘shiny’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘caret’ ‘datasets’ ‘dplyr’ ‘e1071’ ‘ggplot2’ ‘rhandsontable’ ‘shiny’
  All declared Imports should be used.
installed size is 13.0Mb
  sub-directories of 1Mb or more:
    libs  12.2Mb
installed size is  8.4Mb
  sub-directories of 1Mb or more:
    libs   7.8Mb
installed size is  9.3Mb
  sub-directories of 1Mb or more:
    libs   5.9Mb
Namespaces in Imports field not imported from:
  ‘Rgraphviz’ ‘fastDummies’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘caret’ ‘e1071’
  All declared Imports should be used.
installed size is  7.2Mb
  sub-directories of 1Mb or more:
    data   7.0Mb
Package suggested but not available for checking: ‘sangerseqR’
installed size is 46.6Mb
  sub-directories of 1Mb or more:
    include  10.8Mb
    lib      35.4Mb
installed size is  6.2Mb
  sub-directories of 1Mb or more:
    libs   5.6Mb
Namespace in Imports field not imported from: ‘sna’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘HSAUR3’ ‘knitr’ ‘rmarkdown’
  All declared Imports should be used.
File ‘bootruin/libs/bootruin.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Error(s) in re-building vignettes:
--- re-building ‘BOSO.Rmd’ using rmarkdown

Quitting from lines 475-492 [plot_comparison_BOSOvsREST] (BOSO.Rmd)
Error: processing vignette 'BOSO.Rmd' failed with diagnostics:
The `legend.pos` theme element is not defined in the element hierarchy.
--- failed re-building ‘BOSO.Rmd’

SUMMARY: processing the following file failed:
  ‘BOSO.Rmd’

Error: Vignette re-building failed.
Execution halted
Undeclared packages ‘data.table’, ‘readxl’, ‘openxlsx’ in Rd xrefs
Namespace in Imports field not imported from: ‘graphics’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘CCA’ ‘brainR’ ‘elasticnet’
  All declared Imports should be used.
File ‘Branching/libs/Branching.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Undeclared package ‘generics’ in Rd xrefs
Namespace in Imports field not imported from: ‘kableExtra’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘Rcpp’ ‘profileModel’
  All declared Imports should be used.
installed size is  8.7Mb
  sub-directories of 1Mb or more:
    R     3.7Mb
    doc   3.6Mb
installed size is  7.3Mb
  sub-directories of 1Mb or more:
    libs   6.6Mb
Namespaces in Imports field not imported from:
  ‘rworldxtra’ ‘sp’
  All declared Imports should be used.
Undeclared package ‘data.table’ in Rd xrefs
Undeclared package ‘weibullness’ in Rd xrefs
installed size is 12.6Mb
  sub-directories of 1Mb or more:
    fonts   3.7Mb
    lib     5.4Mb
Namespaces in Imports field not imported from:
  ‘Matrix’ ‘grDevices’ ‘graphics’
  All declared Imports should be used.
installed size is  7.1Mb
  sub-directories of 1Mb or more:
    data   1.1Mb
    doc    2.8Mb
    libs   2.6Mb
Namespaces in Imports field not imported from:
  ‘mvtnorm’ ‘ssmn’
  All declared Imports should be used.
installed size is  9.5Mb
  sub-directories of 1Mb or more:
    libs   8.6Mb
installed size is  5.3Mb
  sub-directories of 1Mb or more:
    doc   4.9Mb
Undeclared package ‘mitools’ in Rd xrefs
Imports includes 32 non-default packages.
Importing from so many packages makes the package vulnerable to any of
them becoming unavailable.  Move as many as possible to Suggests and
use conditionally.
installed size is  6.2Mb
  sub-directories of 1Mb or more:
    doc       2.3Mb
    extdata   3.4Mb
Undeclared package ‘googledrive’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘Hmisc’ ‘magrittr’ ‘rmarkdown’
  All declared Imports should be used.
Undeclared packages ‘Hmisc’, ‘gtools’ in Rd xrefs
File ‘bvarsv/libs/bvarsv.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Undeclared packages ‘quadprog’, ‘nnls’ in Rd xrefs
File ‘bvls/libs/bvls.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘markdown’
  All declared Imports should be used.
File ‘CAMAN/libs/CAMAN.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Package suggested but not available for checking: ‘tesseract’
installed size is  7.5Mb
  sub-directories of 1Mb or more:
    doc        2.2Mb
    pictures   4.2Mb
Undeclared package ‘plotrix’ in Rd xrefs
Namespace in Imports field not imported from: ‘sf’
  All declared Imports should be used.
Running ‘testthat.R’
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(canadianmaps)
  > 
  > test_check("canadianmaps")
  [ FAIL 2 | WARN 0 | SKIP 0 | PASS 4 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-functions.R:14:3'): check-functions: scale_fill_map() returns a ggplot manual fill object ──
  output$scale_name (`actual`) not equal to "manual" (`expected`).
  
  `actual` is NULL
  `expected` is a character vector ('manual')
  ── Failure ('test-functions.R:23:3'): check-functions: scale_color_map() returns a ggplot manual fill object ──
  output$scale_name (`actual`) not equal to "manual" (`expected`).
  
  `actual` is NULL
  `expected` is a character vector ('manual')
  
  [ FAIL 2 | WARN 0 | SKIP 0 | PASS 4 ]
  Error: Test failures
  Execution halted
Undeclared packages ‘yacca’, ‘CCA’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘htmltools’ ‘shinydashboard’
  All declared Imports should be used.
installed size is  5.9Mb
  sub-directories of 1Mb or more:
    doc   5.7Mb
Namespaces in Imports field not imported from:
  ‘Hmisc’ ‘methods’ ‘readr’ ‘recipes’ ‘sf’ ‘stringr’ ‘utils’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘R.utils’
  All declared Imports should be used.
installed size is 12.4Mb
  sub-directories of 1Mb or more:
    www  12.3Mb
installed size is  6.7Mb
  sub-directories of 1Mb or more:
    doc   5.4Mb
Namespaces in Imports field not imported from:
  ‘R6’ ‘crayon’ ‘dplyr’ ‘tidyr’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘Matrix’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘broom’ ‘epitools’
  All declared Imports should be used.
installed size is 20.3Mb
  sub-directories of 1Mb or more:
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Undeclared packages ‘pixmap’, ‘XML’, ‘exactRankTests’, ‘coin’, ‘ROCR’, ‘Epi’, ‘verification’, ‘Hmisc’, ‘gtools’, ‘magic’, ‘zoo’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘epitools’ ‘forcats’ ‘purrr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘CBPS’ ‘spelling’
  All declared Imports should be used.
installed size is 16.3Mb
  sub-directories of 1Mb or more:
    libs  15.7Mb
Namespace in Imports field not imported from: ‘GeneNet’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘fields’
  All declared Imports should be used.
OMP: Warning #96: Cannot form a team with 24 threads, using 2 instead.
OMP: Hint Consider unsetting KMP_DEVICE_THREAD_LIMIT (KMP_ALL_THREADS), KMP_TEAMS_THREAD_LIMIT, and OMP_THREAD_LIMIT (if any are set).

It looks like this package (or a package it requires) has a startup
message which cannot be suppressed: see ?packageStartupMessage.
installed size is  6.6Mb
  sub-directories of 1Mb or more:
    data   3.2Mb
    doc    2.0Mb
Namespace in Imports field not imported from: ‘data.table’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘base’ ‘stats’ ‘tidyr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘DT’ ‘batchtools’ ‘data.table’ ‘dplyr’ ‘ggplot2’ ‘htmltools’
  ‘jsonlite’ ‘magrittr’ ‘methods’ ‘plotly’ ‘reshape’ ‘rlang’ ‘shiny’
  ‘shinyWidgets’ ‘shinyjqui’ ‘shinyjs’ ‘shinymaterial’ ‘sortable’ ‘ssh’
  ‘xml2’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘lmtest’
  All declared Imports should be used.
installed size is 38.5Mb
  sub-directories of 1Mb or more:
    include  38.3Mb
File ‘cgAUC/libs/cgAUC.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘tidyverse’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘grDevices’
  All declared Imports should be used.
Undeclared packages ‘bigBits’, ‘dplyr’, ‘matrixStats’, ‘filesstrings’, ‘pracma’, ‘sf’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘bench’ ‘ggplot2’
  All declared Imports should be used.
installed size is  5.1Mb
  sub-directories of 1Mb or more:
    extdata   4.7Mb
Namespaces in Imports field not imported from:
  ‘AER’ ‘graphics’ ‘lmtest’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  'knitr' 'rmarkdown'
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘dbplyr’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘gamlss.dist’
  All declared Imports should be used.
Imports includes 29 non-default packages.
Importing from so many packages makes the package vulnerable to any of
them becoming unavailable.  Move as many as possible to Suggests and
use conditionally.
File ‘ChIPtest/libs/ChIPtest.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  6.8Mb
  sub-directories of 1Mb or more:
    doc    2.1Mb
    libs   2.0Mb
installed size is  5.5Mb
  sub-directories of 1Mb or more:
    doc    1.5Mb
    help   2.2Mb
installed size is 18.0Mb
  sub-directories of 1Mb or more:
    data  17.9Mb
Namespace in Imports field not imported from: ‘readr’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘htmltools’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘base’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘DT’ ‘dplyr’ ‘prettydoc’ ‘rmdformats’ ‘skimr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘Matrix’ ‘stringr’
  All declared Imports should be used.
installed size is  8.0Mb
  sub-directories of 1Mb or more:
    doc       5.7Mb
    extdata   2.1Mb
installed size is  6.7Mb
  sub-directories of 1Mb or more:
    R         1.7Mb
    extdata   4.3Mb
Namespace in Imports field not imported from: ‘magrittr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘circlize’ ‘utils’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘RInside’ ‘circular’
  All declared Imports should be used.
installed size is  7.5Mb
  sub-directories of 1Mb or more:
    doc   7.3Mb
Namespace in Imports field not imported from: ‘RColorBrewer’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘networkD3’
  All declared Imports should be used.
installed size is  6.0Mb
  sub-directories of 1Mb or more:
    data   1.1Mb
    doc    3.6Mb
    help   1.0Mb
installed size is  6.1Mb
  sub-directories of 1Mb or more:
    libs   5.8Mb
Undeclared package ‘reshape’ in Rd xrefs
Undeclared packages ‘bslib’, ‘shiny’ in Rd xrefs
File ‘ClickClust/libs/ClickClust.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Note: found 494 marked Latin-1 strings
  Note: found 11871 marked UTF-8 strings
installed size is  5.6Mb
  sub-directories of 1Mb or more:
    data   3.4Mb
    doc    1.9Mb
installed size is 48.7Mb
  sub-directories of 1Mb or more:
    extdata  48.5Mb
installed size is  5.6Mb
  sub-directories of 1Mb or more:
    doc   4.3Mb
installed size is  6.5Mb
  sub-directories of 1Mb or more:
    doc   5.4Mb
File ‘clogitboost/libs/clogitboost.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
File ‘clogitL1/libs/clogitL1.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Undeclared packages ‘mlbench’, ‘fpc’ in Rd xrefs
Namespace in Imports field not imported from: ‘utils’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘DT’
  All declared Imports should be used.
File ‘clustering.sc.dp/libs/clustering.sc.dp.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
File ‘ClusterStability/libs/ClusterStability.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘sp’ ‘spdep’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘stringi’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘MASS’ ‘cluster’ ‘datasets’ ‘dplyr’ ‘klaR’ ‘psycho’ ‘shiny’
  All declared Imports should be used.
File ‘clv/libs/clv.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  5.3Mb
  sub-directories of 1Mb or more:
    data   5.2Mb
Namespace in Imports field not imported from: ‘MPV’
  All declared Imports should be used.
File ‘cmprsk/libs/cmprsk.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘FNN’ ‘R.utils’ ‘SearchTrees’ ‘colorspace’ ‘colourpicker’
  ‘data.table’ ‘maps’ ‘ncdf4’ ‘raster’ ‘shinyFiles’ ‘shinyWidgets’
  ‘shinyjs’ ‘shinythemes’ ‘tcltk’ ‘xml2’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘Matrix’ ‘caret’ ‘e1071’ ‘epitools’ ‘shiny’ ‘shinyMatrix’
  All declared Imports should be used.
Undeclared package ‘wavethresh’ in Rd xrefs
installed size is  5.3Mb
  sub-directories of 1Mb or more:
    doc       3.2Mb
    extdata   1.7Mb
Namespace in Imports field not imported from: 'Hmisc'
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘Matrix’ ‘nnet’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘graphics’ ‘jsonlite’ ‘rlang’ ‘tidyselect’ ‘vctrs’
  All declared Imports should be used.
File ‘coenoflex/libs/coenoflex.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Error(s) in re-building vignettes:
--- re-building ‘a01_Single_event_of_interest.Rmd’ using rmarkdown

Quitting from lines 47-53 [unnamed-chunk-5] (a01_Single_event_of_interest.Rmd)
Error: processing vignette 'a01_Single_event_of_interest.Rmd' failed with diagnostics:
No known SQL translation
--- failed re-building ‘a01_Single_event_of_interest.Rmd’

Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
Warning: Database is garbage-collected, use dbDisconnect(con, shutdown=TRUE) or duckdb::duckdb_shutdown(drv) to avoid this.
--- re-building ‘a02_Competing_risk_survival.Rmd’ using rmarkdown

Quitting from lines 55-63 [unnamed-chunk-5] (a02_Competing_risk_survival.Rmd)
Error: processing vignette 'a02_Competing_risk_survival.Rmd' failed with diagnostics:
No known SQL translation
--- failed re-building ‘a02_Competing_risk_survival.Rmd’

Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
Warning: Database is garbage-collected, use dbDisconnect(con, shutdown=TRUE) or duckdb::duckdb_shutdown(drv) to avoid this.
SUMMARY: processing the following files failed:
  ‘a01_Single_event_of_interest.Rmd’ ‘a02_Competing_risk_survival.Rmd’

Error: Vignette re-building failed.
Execution halted
Namespaces in Imports field not imported from:
  ‘Rdpack’ ‘coin’ ‘ggplot2’ ‘plyr’
  All declared Imports should be used.
Note: found 89 marked Latin-1 strings
  Note: found 1203 marked UTF-8 strings
File ‘collUtils/libs/collUtils.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    doc   4.9Mb
Namespaces in Imports field not imported from:
  ‘magrittr’ ‘qpdf’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘grid’ ‘gridExtra’
  All declared Imports should be used.
installed size is  5.4Mb
  sub-directories of 1Mb or more:
    doc       2.4Mb
    extdata   2.1Mb
Namespaces in Imports field not imported from:
  ‘chi’ ‘dplyr’ ‘spatstat.utils’ ‘utils’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘GGally’ ‘RColorBrewer’ ‘abind’ ‘diagram’ ‘ggplot2’ ‘grid’ ‘gtable’
  ‘igraph’ ‘magrittr’ ‘plyr’ ‘purrr’ ‘reshape2’ ‘scales’ ‘useful’
  All declared Imports should be used.
File ‘compareC/libs/compareC.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘PearsonDS’ ‘VGAM’ ‘actuar’ ‘fExtremes’ ‘rmutil’
  All declared Imports should be used.
File ‘ConConPiWiFun/libs/ConConPiWiFun.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Undeclared packages ‘DescTools’, ‘epiR’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘kernlab’ ‘purrr’ ‘survminer’ ‘tidyverse’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘base’ ‘lwgeom’ ‘s2’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘DT’ ‘Hmisc’ ‘dplyr’ ‘foreign’ ‘lavaan’ ‘openxlsx’ ‘purrr’ ‘semTools’
  ‘shinyWidgets’ ‘stringr’ ‘summarytools’ ‘waiter’
  All declared Imports should be used.
installed size is  5.1Mb
  sub-directories of 1Mb or more:
    htmlwidgets   3.9Mb
Namespaces in Imports field not imported from:
  ‘scales’ ‘sna’
  All declared Imports should be used.
Undeclared package ‘ggplot2’ in Rd xrefs
File ‘ConsReg/libs/ConsReg.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  6.2Mb
  sub-directories of 1Mb or more:
    libs   4.9Mb
File ‘contoureR/libs/contoureR.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  7.6Mb
  sub-directories of 1Mb or more:
    doc             2.3Mb
    vignette_data   2.6Mb
installed size is  7.8Mb
  sub-directories of 1Mb or more:
    R     2.1Mb
    doc   3.5Mb
File ‘cord/libs/cord.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘devtools’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘RColorBrewer’ ‘ggplot2’ ‘re2’ ‘rmarkdown’ ‘shinyWidgets’
  ‘shinydashboard’ ‘shinyjs’
  All declared Imports should be used.
Package suggested but not available for checking: ‘xcms’
installed size is 18.1Mb
  sub-directories of 1Mb or more:
    extdata  17.8Mb
installed size is  5.0Mb
  sub-directories of 1Mb or more:
    doc   4.8Mb
installed size is  7.2Mb
  sub-directories of 1Mb or more:
    doc   6.7Mb
Namespace in Imports field not imported from: ‘jpeg’
  All declared Imports should be used.
Undeclared packages ‘xaringan’, ‘beepr’ in Rd xrefs
Namespace in Imports field not imported from: ‘gstat’
  All declared Imports should be used.
File ‘covBM/libs/covBM.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  5.1Mb
  sub-directories of 1Mb or more:
    doc       1.6Mb
    extdata   2.7Mb
Note: found 1934235 marked UTF-8 strings
Namespace in Imports field not imported from: ‘lubridate’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘httr’ ‘stringr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘mapview’ ‘plotly’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘Rcpp’ ‘gsl’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘ggplot2’ ‘misc3d’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘mediation’
  All declared Imports should be used.
installed size is  7.6Mb
  sub-directories of 1Mb or more:
    libs   7.4Mb
installed size is 10.4Mb
  sub-directories of 1Mb or more:
    libs   9.8Mb
File ‘CoxPlus/libs/CoxPlus.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘Rdpack’ ‘grDevices’
  All declared Imports should be used.
File ‘cpm/libs/cpm.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘RcppProgress’
  All declared Imports should be used.
File ‘cqrReg/libs/cqrReg.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  5.4Mb
  sub-directories of 1Mb or more:
    doc   5.1Mb
Note: found 11 marked Latin-1 strings
  Note: found 57 marked UTF-8 strings
File ‘credule/libs/credule.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Package suggested but not available for checking: ‘BSgenome.Scerevisiae.UCSC.sacCer3’
Namespaces in Imports field not imported from:
  ‘DT’ ‘gbm’
  All declared Imports should be used.
installed size is  6.6Mb
  sub-directories of 1Mb or more:
    doc   6.4Mb
Packages suggested but not available for checking: 'conos', 'pagoda2'
Namespaces in Imports field not imported from:
  ‘R6’ ‘dplyr’ ‘r6extended’
  All declared Imports should be used.
File ‘crrSC/libs/crrSC.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  5.8Mb
  sub-directories of 1Mb or more:
    data   5.7Mb
Namespaces in Imports field not imported from:
  ‘DT’ ‘dplyr’ ‘geosphere’ ‘mapdata’ ‘maps’ ‘marmap’ ‘shinydashboard’
  ‘shinyjs’ ‘stringr’ ‘swfscDAS’
  All declared Imports should be used.
Running examples in ‘cryptotrackr-Ex.R’ failed
The error most likely occurred in:

> ### Name: solana_get_signature_for_address
> ### Title: solana_get_signature_for_address
> ### Aliases: solana_get_signature_for_address
> 
> ### ** Examples
> 
> url <- "https://api.devnet.solana.com"
> address <- "Vote111111111111111111111111111111111111111"
> data <- solana_get_signature_for_address(url,address)
No encoding supplied: defaulting to UTF-8.
[1] " {\"jsonrpc\":\"2.0\",\"error\":{\"code\":429,\"message\":\"Too many requests for a specific RPC call, contact your app developer or support@rpcpool.com.\"}, \"id\": null } \r\n"
Error in solana_api_call(url, request_body) : 
  Request failed with status code: 429
Calls: solana_get_signature_for_address -> solana_api_call
Execution halted
Running ‘testthat.R’ [7s/20s]
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)
  > library(cryptotrackr)
  > 
  > test_check("cryptotrackr")
  No encoding supplied: defaulting to UTF-8.
  [1] " {\"jsonrpc\":\"2.0\",\"error\":{\"code\":429,\"message\":\"Too many requests for a specific RPC call, contact your app developer or support@rpcpool.com.\"}, \"id\": null } \r\n"
  [ FAIL 2 | WARN 0 | SKIP 0 | PASS 91 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-magic_eden.R:17:3'): the "magic_eden_transactions" function returns a dataframe ──
  Error: lexical error: invalid char in json text.
                                         upstream connect error or disco
                       (right here) ------^
  
  Backtrace:
      ▆
   1. └─cryptotrackr::magic_eden_transactions(wallet) at test-magic_eden.R:17:3
   2.   └─jsonlite::fromJSON(rawToChar(res$content))
   3.     └─jsonlite:::parse_and_simplify(...)
   4.       └─jsonlite:::parseJSON(txt, bigint_as_char)
   5.         └─jsonlite:::parse_string(txt, bigint_as_char)
  ── Error ('test-solana.R:4:3'): the "solana_get_signature_for_address" function returns a list ──
  Error in `solana_api_call(url, request_body)`: Request failed with status code: 429
  Backtrace:
      ▆
   1. └─cryptotrackr::solana_get_signature_for_address(url, address) at test-solana.R:4:3
   2.   └─cryptotrackr::solana_api_call(url, request_body)
  
  [ FAIL 2 | WARN 0 | SKIP 0 | PASS 91 ]
  Error: Test failures
  Execution halted
Imports includes 21 non-default packages.
Importing from so many packages makes the package vulnerable to any of
them becoming unavailable.  Move as many as possible to Suggests and
use conditionally.
Namespaces in Imports field not imported from:
  ‘extrafont’ ‘future’
  All declared Imports should be used.
installed size is  5.7Mb
  sub-directories of 1Mb or more:
    data   3.8Mb
    doc    1.6Mb
installed size is  8.2Mb
  sub-directories of 1Mb or more:
    doc   7.9Mb
installed size is  7.7Mb
  sub-directories of 1Mb or more:
    data   7.6Mb
installed size is  6.6Mb
  sub-directories of 1Mb or more:
    data   1.9Mb
    doc    1.6Mb
    libs   2.2Mb
Namespaces in Imports field not imported from:
  ‘epitools’ ‘rpivotTable’ ‘shinyMatrix’
  All declared Imports should be used.
installed size is 16.3Mb
  sub-directories of 1Mb or more:
    R      1.1Mb
    data   1.7Mb
    libs  12.1Mb
Found the following files/directories:
  ‘par-7269706c6579’
Namespaces in Imports field not imported from:
  ‘caret’ ‘datasets’ ‘dplyr’ ‘e1071’ ‘party’ ‘rhandsontable’ ‘rpart’
  ‘rpart.plot’ ‘shiny’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘pspearman’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘TCGAbiolinks’
  All declared Imports should be used.
Packages which this enhances but not available for checking:
  'Rcplex', 'gurobi', 'rcbc'
installed size is  5.7Mb
  sub-directories of 1Mb or more:
    R     2.7Mb
    doc   1.2Mb
File ‘cycleRtools/libs/cycleRtools.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  6.8Mb
  sub-directories of 1Mb or more:
    libs   5.9Mb
installed size is  6.0Mb
  sub-directories of 1Mb or more:
    docs          1.0Mb
    extdata       1.4Mb
    htmlwidgets   1.5Mb
installed size is  5.0Mb
  sub-directories of 1Mb or more:
    img   4.4Mb
Namespace in Imports field not imported from: ‘titanic’
  All declared Imports should be used.
Note: found 4 marked Latin-1 strings
  Note: found 21 marked UTF-8 strings
Note: found 212 marked Latin-1 strings
  Note: found 12719 marked UTF-8 strings
File ‘DALY/libs/DALY.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    doc   4.4Mb
installed size is  7.6Mb
  sub-directories of 1Mb or more:
    java   7.5Mb
Undeclared package ‘DRquality’ in Rd xrefs
Namespace in Imports field not imported from: ‘lattice’
  All declared Imports should be used.
Note: found 72720 marked Latin-1 strings
Undeclared package ‘performance’ in Rd xrefs
Undeclared package ‘sfsmisc’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘knitr’ ‘tidyverse’ ‘vctrs’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘softImpute’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘ggplot2’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘html5’
  All declared Imports should be used.
installed size is  5.6Mb
  sub-directories of 1Mb or more:
    libs   5.4Mb
Undeclared package ‘fda.usc’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘MASS’ ‘qpdf’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘shinydisconnect’
  All declared Imports should be used.
installed size is  5.0Mb
  sub-directories of 1Mb or more:
    extdata   4.9Mb
Note: found 1 marked Latin-1 string
  Note: found 46826 marked UTF-8 strings
Namespaces in Imports field not imported from:
  ‘reticulate’ ‘tensorflow’
  All declared Imports should be used.
Undeclared packages ‘e1071’, ‘nloptr’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘knitr’ ‘shinyBS’ ‘shinyMatrix’
  All declared Imports should be used.
installed size is  5.8Mb
  sub-directories of 1Mb or more:
    data   1.2Mb
    doc    3.1Mb
    help   1.3Mb
installed size is  5.4Mb
  sub-directories of 1Mb or more:
    doc   4.2Mb
Undeclared package ‘DEoptim’ in Rd xrefs
installed size is  7.1Mb
  sub-directories of 1Mb or more:
    doc       4.8Mb
    extdata   2.1Mb
Undeclared packages ‘FactoMineR’, ‘vcd’ in Rd xrefs
Namespace in Imports field not imported from: ‘datasets’
  All declared Imports should be used.
Undeclared package ‘htmlwidgets’ in Rd xrefs
installed size is  6.1Mb
  sub-directories of 1Mb or more:
    R      1.7Mb
    doc    1.8Mb
    help   1.6Mb
Undeclared packages ‘ineq’, ‘randtests’, ‘Hmisc’, ‘plotrix’, ‘caret’, ‘pcaPP’, ‘polycor’, ‘lmtest’, ‘car’, ‘gmp’, ‘vcdExtra’, ‘chron’, ‘coin’, ‘caTools’, ‘forecast’, ‘sfsmisc’, ‘vcd’, ‘areaplot’, ‘corrgram’, ‘UsingR’, ‘memisc’, ‘gtools’, ‘BSDA’, ‘prettyR’ in Rd xrefs
Undeclared package ‘RcppArmadillo’ in Rd xrefs
Package suggested but not available for checking: ‘OSAT’
Packages which this enhances but not available for checking:
  'gurobi', 'Rcplex'
installed size is  5.6Mb
  sub-directories of 1Mb or more:
    data          1.8Mb
    htmlwidgets   3.7Mb
Namespaces in Imports field not imported from:
  ‘DT’ ‘utils’
  All declared Imports should be used.
installed size is  9.8Mb
  sub-directories of 1Mb or more:
    libs   9.7Mb
installed size is  5.5Mb
  sub-directories of 1Mb or more:
    doc   5.1Mb
Namespace in Imports field not imported from: ‘rlang’
  All declared Imports should be used.
Undeclared packages ‘uwot’, ‘embed’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘R6’ ‘dplyr’ ‘purrr’
  All declared Imports should be used.
installed size is 10.9Mb
  sub-directories of 1Mb or more:
    doc  10.8Mb
File ‘diffIRT/libs/diffIRT.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘sandwich’
  All declared Imports should be used.
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    libs   4.9Mb
installed size is  7.4Mb
  sub-directories of 1Mb or more:
    libs   6.6Mb
Namespaces in Imports field not imported from:
  ‘dplyr’ ‘readr’
  All declared Imports should be used.
Undeclared packages ‘airway’, ‘fdrDiscreteNull’ in Rd xrefs
installed size is  6.2Mb
  sub-directories of 1Mb or more:
    doc       1.5Mb
    extdata   4.2Mb
Namespaces in Imports field not imported from:
  ‘dplyr’ ‘proxy’
  All declared Imports should be used.
Undeclared package ‘robustbase’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘dplyr’ ‘rlang’
  All declared Imports should be used.
Undeclared package ‘RobAStBase’ in Rd xrefs
Undeclared package ‘distrTEst’ in Rd xrefs
Namespace in Imports field not imported from: ‘truncnorm’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘ggmulti’ ‘loon’ ‘loon.data’ ‘loon.ggplot’ ‘loon.shiny’ ‘loon.tourr’
  ‘stats’ ‘zenplots’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘gridExtra’ ‘plotly’ ‘pryr’ ‘rpart’
  All declared Imports should be used.
Undeclared package ‘palaeoverse’ in Rd xrefs
installed size is 16.6Mb
  sub-directories of 1Mb or more:
    include  16.3Mb
Namespaces in Imports field not imported from:
  ‘GOstats’ ‘caTools’ ‘fdrtool’
  All declared Imports should be used.
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    data   4.8Mb
installed size is  8.2Mb
  sub-directories of 1Mb or more:
    doc   6.5Mb
installed size is  6.4Mb
  sub-directories of 1Mb or more:
    R         2.0Mb
    data      1.9Mb
    extdata   2.3Mb
Namespace in Imports field not imported from: ‘gridExtra’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘DT’ ‘DoseFinding’ ‘Rsolnp’ ‘ggplot2’ ‘kableExtra’ ‘knitr’
  ‘latticeExtra’ ‘purrr’ ‘readxl’ ‘shinyBS’ ‘shinyWidgets’ ‘shinyjs’
  ‘stringr’ ‘utils’
  All declared Imports should be used.
installed size is  5.3Mb
  sub-directories of 1Mb or more:
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    doc      2.1Mb
Namespaces in Imports field not imported from:
  ‘tidyr’ ‘tidyverse’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘R6’ ‘dplyr’ ‘ggplot2’ ‘nloptr’
  All declared Imports should be used.
Undeclared package ‘RcppEigen’ in Rd xrefs
Undeclared package ‘SimMultiCorrData’ in Rd xrefs
installed size is  5.4Mb
  sub-directories of 1Mb or more:
    data      1.6Mb
    extdata   3.2Mb
installed size is  6.1Mb
  sub-directories of 1Mb or more:
    doc   2.9Mb
installed size is  5.3Mb
  sub-directories of 1Mb or more:
    appinformation   4.1Mb
Namespace in Imports field not imported from: ‘mnormt’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘rJava’ ‘tools’
  All declared Imports should be used.
installed size is  5.4Mb
  sub-directories of 1Mb or more:
    libs   4.9Mb
Undeclared packages ‘dstat’, ‘sensitivity2x2xk’ in Rd xrefs
installed size is  6.8Mb
  sub-directories of 1Mb or more:
    htmlwidgets   5.8Mb
installed size is  5.1Mb
  sub-directories of 1Mb or more:
    libs   4.8Mb
File ‘dualtrees/libs/dualtrees.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘digest’ ‘dplyr’
  All declared Imports should be used.
installed size is 43.1Mb
  sub-directories of 1Mb or more:
    libs  42.3Mb
Namespaces in Imports field not imported from:
  ‘GenEst’ ‘expint’ ‘numDeriv’
  All declared Imports should be used.
Undeclared package ‘quadprog’ in Rd xrefs
Undeclared package ‘stringdist’ in Rd xrefs
installed size is 13.4Mb
  sub-directories of 1Mb or more:
    R      3.5Mb
    data   9.0Mb
Namespaces in Imports field not imported from:
  ‘NatureSounds’ ‘av’ ‘magrittr’ ‘stats’
  All declared Imports should be used.
Undeclared package ‘warbleR’ in Rd xrefs
Undeclared package ‘CausalImpact’ in Rd xrefs
File ‘dynpred/libs/dynpred.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  5.3Mb
  sub-directories of 1Mb or more:
    data   2.5Mb
    doc    1.4Mb
installed size is  5.1Mb
  sub-directories of 1Mb or more:
    extdata   4.8Mb
Namespace in Imports field not imported from: ‘hms’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘rprojroot’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘qcr’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘pander’
  All declared Imports should be used.
Error(s) in re-building vignettes:
--- re-building ‘convergence_problems.Rmd’ using rmarkdown
--- finished re-building ‘convergence_problems.Rmd’

--- re-building ‘introduction_EcoDiet.Rmd’ using rmarkdown

Quitting from lines 373-374 [unnamed-chunk-35] (introduction_EcoDiet.Rmd)
Error: processing vignette 'introduction_EcoDiet.Rmd' failed with diagnostics:
The `legend.byrow` theme element must be a <logical> object.
--- failed re-building ‘introduction_EcoDiet.Rmd’

--- re-building ‘realistic_example.Rmd’ using rmarkdown
--- finished re-building ‘realistic_example.Rmd’

SUMMARY: processing the following file failed:
  ‘introduction_EcoDiet.Rmd’

Error: Vignette re-building failed.
Execution halted
installed size is  9.1Mb
  sub-directories of 1Mb or more:
    libs   8.0Mb
Namespaces in Imports field not imported from:
  ‘Rmisc’ ‘rlang’
  All declared Imports should be used.
Undeclared package ‘magrittr’ in Rd xrefs
Undeclared packages ‘tidyr’, ‘scales’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘dplyr’ ‘magrittr’ ‘tibble’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘PCovR’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘progress’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘rmarkdown’
  All declared Imports should be used.
Undeclared package ‘carData’ in Rd xrefs
Undeclared packages ‘carData’, ‘faraway’ in Rd xrefs
installed size is  8.7Mb
  sub-directories of 1Mb or more:
    libs   8.0Mb
installed size is 10.5Mb
  sub-directories of 1Mb or more:
    doc       5.1Mb
    extdata   5.1Mb
Namespace in Imports field not imported from: ‘snow’
  All declared Imports should be used.
Undeclared package ‘EloRating’ in Rd xrefs
installed size is  6.2Mb
  sub-directories of 1Mb or more:
    libs   5.0Mb
File ‘elsa/libs/elsa.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Undeclared package ‘textrecipes’ in Rd xrefs
installed size is  7.0Mb
  sub-directories of 1Mb or more:
    emoji_fonts   6.5Mb
Undeclared packages ‘Kendall’, ‘geoR’ in Rd xrefs
Note: found 23639 marked Latin-1 strings
Namespaces in Imports field not imported from:
  ‘Biostrings’ ‘DECIPHER’ ‘ggplot2’ ‘reshape2’ ‘usethis’
  All declared Imports should be used.
installed size is  7.4Mb
  sub-directories of 1Mb or more:
    data   7.3Mb
File ‘EntropyEstimation/libs/EntropyEstimation.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Packages suggested but not available for checking: 'xcms', 'MSnbase'
installed size is  6.6Mb
  sub-directories of 1Mb or more:
    R      2.3Mb
    help   3.6Mb
Note: found 1 marked Latin-1 string
  Note: found 1508 marked UTF-8 strings
installed size is  5.7Mb
  sub-directories of 1Mb or more:
    doc    2.9Mb
    help   2.5Mb
Namespace in Imports field not imported from: ‘colorspace’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘tinytest’
  All declared Imports should be used.
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    libs   4.7Mb
installed size is  5.7Mb
  sub-directories of 1Mb or more:
    libs   4.8Mb
installed size is 11.6Mb
  sub-directories of 1Mb or more:
    help   2.1Mb
    libs   8.4Mb
Package suggested but not available for checking: ‘taskscheduleR’

Imports includes 34 non-default packages.
Importing from so many packages makes the package vulnerable to any of
them becoming unavailable.  Move as many as possible to Suggests and
use conditionally.
Namespaces in Imports field not imported from:
  ‘httpuv’ ‘knitr’ ‘plyr’ ‘tidyverse’ ‘xml2’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘xts’
  All declared Imports should be used.
File ‘equivalence/libs/equivalence.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘cubature’ ‘rootSolve’
  All declared Imports should be used.
Package suggested but not available for checking: ‘gcspikelite’
Undeclared package ‘margins’ in Rd xrefs
installed size is  5.4Mb
  sub-directories of 1Mb or more:
    R     1.0Mb
    doc   1.8Mb
Namespace in Imports field not imported from: ‘signal’
  All declared Imports should be used.
installed size is 14.1Mb
  sub-directories of 1Mb or more:
    doc  13.3Mb
Undeclared package ‘metafor’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘forcats’ ‘rqPen’ ‘utils’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘metadat’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘EnvStats’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘KMsurv’ ‘MLEcens’ ‘lubridate’ ‘msm’ ‘perm’
  All declared Imports should be used.
installed size is  7.0Mb
  sub-directories of 1Mb or more:
    doc   6.0Mb
Namespaces in Imports field not imported from:
  ‘RColorBrewer’ ‘curl’ ‘scales’ ‘stringr’
  All declared Imports should be used.
Undeclared packages ‘ks’, ‘evd’, ‘ismev’, ‘mixtools’, ‘evir’, ‘smoothtail’ in Rd xrefs
installed size is  6.8Mb
  sub-directories of 1Mb or more:
    data      2.5Mb
    doc       1.6Mb
    extdata   2.4Mb
Namespace in Imports field not imported from: ‘parallel’
  All declared Imports should be used.
File ‘exif/libs/exif.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘polynom’
  All declared Imports should be used.
Undeclared packages ‘tseriesChaos’, ‘rSFA’ in Rd xrefs
Undeclared package ‘quantreg’ in Rd xrefs
installed size is 10.4Mb
  sub-directories of 1Mb or more:
    doc    1.7Mb
    libs   7.0Mb
installed size is  5.0Mb
  sub-directories of 1Mb or more:
    doc      3.5Mb
    images   1.1Mb
Namespace in Imports field not imported from: ‘ggpmisc’
  All declared Imports should be used.
File ‘extremis/libs/extremis.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘BiocStyle’
  All declared Imports should be used.
Undeclared package ‘strucchange’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘R6’ ‘caTools’ ‘httr’ ‘jsonlite’ ‘rlang’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘base’ ‘data.table’
  All declared Imports should be used.
File ‘falcon/libs/falcon.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  5.9Mb
  sub-directories of 1Mb or more:
    R      3.5Mb
    doc    1.0Mb
    help   1.2Mb
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    doc    3.0Mb
    help   1.2Mb
File ‘FastBandChol/libs/FastBandChol.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
File ‘fastcmh/libs/fastcmh.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  7.4Mb
  sub-directories of 1Mb or more:
    libs   7.2Mb
installed size is  8.5Mb
  sub-directories of 1Mb or more:
    doc    4.2Mb
    help   1.7Mb
    libs   1.4Mb
Namespace in Imports field not imported from: ‘RobustGaSP’
  All declared Imports should be used.
File ‘FastGP/libs/FastGP.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  5.4Mb
  sub-directories of 1Mb or more:
    data   4.9Mb
Undeclared packages ‘ICSNP’, ‘ICS’ in Rd xrefs
installed size is 15.8Mb
  sub-directories of 1Mb or more:
    data  15.7Mb
Note: information on .o files is not available
File ‘FastRWeb/libs/null.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  5.6Mb
  sub-directories of 1Mb or more:
    data   4.3Mb
Namespaces in Imports field not imported from:
  ‘collapse’ ‘data.table’ ‘kit’ ‘magrittr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘assertthat’ ‘utils’
  All declared Imports should be used.
installed size is  6.9Mb
  sub-directories of 1Mb or more:
    data   2.3Mb
    doc    3.9Mb
installed size is  6.7Mb
  sub-directories of 1Mb or more:
    R      1.8Mb
    doc    1.5Mb
    help   2.1Mb
installed size is 14.5Mb
  sub-directories of 1Mb or more:
    libs  13.3Mb
Namespaces in Imports field not imported from:
  ‘FastGP’ ‘MASS’ ‘fdapace’
  All declared Imports should be used.
installed size is  5.1Mb
  sub-directories of 1Mb or more:
    doc   2.7Mb
installed size is  5.0Mb
  sub-directories of 1Mb or more:
    R      1.4Mb
    libs   1.9Mb
Note: found 3 marked Latin-1 strings
  Note: found 3 marked UTF-8 strings
Namespaces in Imports field not imported from:
  ‘data.table’ ‘ggplot2’ ‘randomcoloR’ ‘sqldf’
  All declared Imports should be used.
File ‘FD/libs/FD.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘e1071’ ‘lattice’ ‘randomForest’ ‘tibble’ ‘utils’
  All declared Imports should be used.
File ‘fechner/libs/fechner.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘panelView’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘rvest’ ‘stringi’
  All declared Imports should be used.
installed size is  6.2Mb
  sub-directories of 1Mb or more:
    data      1.9Mb
    extdata   2.8Mb
Undeclared packages ‘MLEcens’, ‘Icens’ in Rd xrefs
Namespace in Imports field not imported from: ‘numDeriv’
  All declared Imports should be used.
installed size is  6.0Mb
  sub-directories of 1Mb or more:
    R      1.0Mb
    doc    3.0Mb
    help   1.1Mb
installed size is 10.4Mb
  sub-directories of 1Mb or more:
    R         4.6Mb
    doc       2.1Mb
    extdata   2.1Mb
Namespaces in Imports field not imported from:
  ‘rclipboard’ ‘shinyBS’ ‘shinyWidgets’ ‘shinyjs’
  All declared Imports should be used.
installed size is  5.6Mb
  sub-directories of 1Mb or more:
    doc   5.0Mb
Namespace in Imports field not imported from: ‘tidyselect’
  All declared Imports should be used.
Undeclared package ‘FinePop’ in Rd xrefs
Imports includes 33 non-default packages.
Importing from so many packages makes the package vulnerable to any of
them becoming unavailable.  Move as many as possible to Suggests and
use conditionally.
File ‘fishMod/libs/fishMod.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘knitr’ ‘rmarkdown’ ‘utils’
  All declared Imports should be used.
installed size is  5.5Mb
  sub-directories of 1Mb or more:
    data      1.3Mb
    extdata   3.8Mb
Running ‘testthat.R’ [5s/19s]
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)
  > library(fishRman)
  > 
  > test_check("fishRman")
  The resource you requested cannot be served. Error message:
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 8 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-fish.R:16:3'): the right dataframe is returned from the API ────
  Error in `curl::curl_fetch_memory(url, handle = handle)`: Failed to connect to fishrman.ddnsfree.com port 443 after 3353 ms: No route to host
  Backtrace:
      ▆
   1. └─fishRman::fish(bait) at test-fish.R:16:3
   2.   └─base::tryCatch(...)
   3.     └─base (local) tryCatchList(expr, classes, parentenv, handlers)
   4.       ├─base (local) tryCatchOne(...)
   5.       │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
   6.       └─base (local) tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
   7.         └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
   8.           └─value[[3L]](cond)
  
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 8 ]
  Error: Test failures
  Execution halted
installed size is  5.8Mb
  sub-directories of 1Mb or more:
    doc   4.0Mb
Undeclared package ‘conicfit’ in Rd xrefs
Undeclared package ‘extraDistr’ in Rd xrefs
installed size is  5.5Mb
  sub-directories of 1Mb or more:
    data   5.3Mb
Namespaces in Imports field not imported from:
  ‘MASS’ ‘XML’ ‘gglasso’ ‘methods’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘rstudioapi’
  All declared Imports should be used.
installed size is  6.7Mb
  sub-directories of 1Mb or more:
    R     1.3Mb
    doc   3.6Mb
File ‘flashClust/libs/flashClust.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘RCurl’
  All declared Imports should be used.
Undeclared package ‘mixture’ in Rd xrefs
installed size is  9.9Mb
  sub-directories of 1Mb or more:
    doc   9.1Mb
File ‘flock/libs/flock.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  7.2Mb
  sub-directories of 1Mb or more:
    R   7.0Mb
Undeclared package ‘Kendall’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘kableExtra’ ‘knitr’ ‘rmarkdown’
  All declared Imports should be used.
installed size is  6.7Mb
  sub-directories of 1Mb or more:
    fonts   6.6Mb
installed size is  6.2Mb
  sub-directories of 1Mb or more:
    fonts   6.1Mb
Namespace in Imports field not imported from: ‘grid’
  All declared Imports should be used.
Undeclared package ‘ForecastCombinations’ in Rd xrefs
Namespace in Imports field not imported from: ‘dtplyr’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘decomposedPSF’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘blockCV’ ‘patchwork’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘pkgKitten’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘tibble’ ‘viridis’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘R6’ ‘httr’ ‘jsonlite’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘knitr’ ‘utils’
  All declared Imports should be used.
installed size is  5.7Mb
  sub-directories of 1Mb or more:
    data   2.7Mb
    doc    1.1Mb
    help   1.0Mb
Namespace in Imports field not imported from: ‘LaplacesDemon’
  All declared Imports should be used.
File ‘fpow/libs/fpow.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘psych’
  All declared Imports should be used.
File ‘fractional/libs/fractional.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Installation failed.
See ‘/data/gannet/ripley/R/packages/tests-clang/frailtypack.Rcheck/00install.out’ for details.
installed size is  5.8Mb
  sub-directories of 1Mb or more:
    R   5.7Mb
Package suggested but not available for checking: ‘dggrids’
installed size is  9.5Mb
  sub-directories of 1Mb or more:
    data   4.9Mb
    doc    1.9Mb
    libs   1.7Mb
installed size is  8.0Mb
  sub-directories of 1Mb or more:
    libs   7.5Mb
Namespaces in Imports field not imported from:
  ‘class’ ‘mlbench’ ‘neuralnet’ ‘rpart’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘qpdf’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘foreach’
  All declared Imports should be used.
installed size is  5.8Mb
  sub-directories of 1Mb or more:
    doc    1.2Mb
    help   4.2Mb
File ‘gafit/libs/gafit.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘gargle’ ‘getProxy’ ‘rappsflyer’ ‘rfacebookstat’ ‘rgoogleads’
  ‘rmytarget’ ‘rvkstat’ ‘ryandexdirect’ ‘rym’ ‘tidyr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘MASS’ ‘gamlss’
  All declared Imports should be used.
Undeclared packages ‘gamlss.dist’, ‘gamlss.add’ in Rd xrefs
installed size is 11.3Mb
  sub-directories of 1Mb or more:
    doc    7.9Mb
    libs   2.3Mb
installed size is 32.9Mb
  sub-directories of 1Mb or more:
    doc  31.8Mb
installed size is  5.9Mb
  sub-directories of 1Mb or more:
    libs   5.4Mb
installed size is  5.5Mb
  sub-directories of 1Mb or more:
    extdata   1.6Mb
    libs      1.9Mb
Undeclared packages ‘fortunes’, ‘rmsfact’ in Rd xrefs
File ‘gbp/libs/gbp.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘raster’
  All declared Imports should be used.
File ‘GCPM/libs/GCPM.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is 17.8Mb
  sub-directories of 1Mb or more:
    extdata   9.0Mb
    proj      8.3Mb
installed size is  7.2Mb
  sub-directories of 1Mb or more:
    L8NY18   2.3Mb
    libs     3.6Mb
Undeclared packages ‘palmerpenguins’, ‘readxl’ in Rd xrefs
File ‘GEEaSPU/libs/GEEaSPU.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘rootSolve’
  All declared Imports should be used.
File ‘gelnet/libs/gelnet.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  5.6Mb
  sub-directories of 1Mb or more:
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    extdata   3.5Mb
Namespaces in Imports field not imported from:
  ‘ggplot2’ ‘pracma’ ‘rlang’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘BiocManager’ ‘R.utils’ ‘markdown’
  All declared Imports should be used.
Package suggested but not available for checking: ‘rrvgo’
Namespaces in Imports field not imported from:
  ‘GGEBiplots’ ‘calibrate’ ‘graphics’ ‘matrixStats’ ‘prettydoc’
  ‘reshape2’
  All declared Imports should be used.
Undeclared package ‘bootstrap’ in Rd xrefs
installed size is  5.8Mb
  sub-directories of 1Mb or more:
    extdata   3.0Mb
Undeclared package ‘RiemBase’ in Rd xrefs
installed size is  6.8Mb
  sub-directories of 1Mb or more:
    doc       2.1Mb
    extdata   3.5Mb
installed size is 14.8Mb
  sub-directories of 1Mb or more:
    R         9.5Mb
    extdata   2.6Mb
    help      2.6Mb
Namespace in Imports field not imported from: ‘velociraptr’
  All declared Imports should be used.
installed size is  6.0Mb
  sub-directories of 1Mb or more:
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Note: found 64 marked Latin-1 strings
  Note: found 25 marked UTF-8 strings
Namespaces in Imports field not imported from:
  ‘pipeR’ ‘rlang’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘googlesheets4’ ‘tidyr’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘plotly’
  All declared Imports should be used.
Undeclared packages ‘FactoMineR’, ‘ade4’, ‘factoextra’ in Rd xrefs
installed size is  5.5Mb
  sub-directories of 1Mb or more:
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Namespaces in Imports field not imported from:
  ‘R6’ ‘scales’ ‘utils’
  All declared Imports should be used.
Undeclared packages ‘akima’, ‘ggforce’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘grDevices’ ‘gtable’
  All declared Imports should be used.
Running examples in ‘gghdr-Ex.R’ failed
The error most likely occurred in:

> ### Name: geom_hdr_boxplot
> ### Title: Box plot for the highest density region
> ### Aliases: geom_hdr_boxplot
> 
> ### ** Examples
> 
> library(ggplot2)
> 
> ggplot(faithful, aes(y = eruptions)) +
+   geom_hdr_boxplot()
Warning: The dot-dot notation (`..prob..`) was deprecated in ggplot2 3.4.0.
ℹ Please use `after_stat(prob)` instead.
Warning: The following aesthetics were dropped during statistical transformation: y.
ℹ This can happen when ggplot fails to infer the correct grouping structure in
  the data.
ℹ Did you forget to specify a `group` aesthetic or to convert a numerical
  variable into a factor?
Warning: The `scale_name` argument of `discrete_scale()` is deprecated as of ggplot2
3.5.0.
Warning: The S3 guide system was deprecated in ggplot2 3.5.0.
ℹ It has been replaced by a ggproto system that can be extended.
Error in if (guide$reverse) { : argument is of length zero
Calls: <Anonymous> ... <Anonymous> -> train -> guide_train -> guide_train.prob_guide
Execution halted
Error(s) in re-building vignettes:
--- re-building ‘gghdr.Rmd’ using rmarkdown

Quitting from lines 93-98 [setup] (gghdr.Rmd)
Error: processing vignette 'gghdr.Rmd' failed with diagnostics:
argument is of length zero
--- failed re-building ‘gghdr.Rmd’

SUMMARY: processing the following file failed:
  ‘gghdr.Rmd’

Error: Vignette re-building failed.
Execution halted
installed size is  9.6Mb
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    doc   7.0Mb
installed size is  5.4Mb
  sub-directories of 1Mb or more:
    libs   5.0Mb
Namespaces in Imports field not imported from:
  ‘Rdpack’ ‘mathjaxr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘Matrix’ ‘Rdpack’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘sna’ ‘utils’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘dplyr’ ‘grid’ ‘scales’
  All declared Imports should be used.
Undeclared packages ‘scales’, ‘labeling’ in Rd xrefs
Undeclared package ‘ggdensity’ in Rd xrefs
installed size is  5.9Mb
  sub-directories of 1Mb or more:
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Undeclared packages ‘interp’, ‘akima’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘gcookbook’ ‘ggthemes’ ‘moonBook’ ‘tidyverse’
  All declared Imports should be used.
installed size is  9.0Mb
  sub-directories of 1Mb or more:
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Namespaces in Imports field not imported from:
  ‘dplyr’ ‘grDevices’
  All declared Imports should be used.
Imports includes 37 non-default packages.
Importing from so many packages makes the package vulnerable to any of
them becoming unavailable.  Move as many as possible to Suggests and
use conditionally.
Namespaces in Imports field not imported from:
  ‘DT’ ‘Formula’ ‘GGally’ ‘Hmisc’ ‘RPostgres’ ‘colourpicker’ ‘ggpmisc’
  ‘ggpubr’ ‘glue’ ‘gridExtra’ ‘markdown’ ‘patchwork’ ‘plotly’
  ‘quantreg’ ‘shinyFiles’ ‘shinyjqui’ ‘shinyjs’ ‘table1’ ‘zoo’
  All declared Imports should be used.
installed size is  5.8Mb
  sub-directories of 1Mb or more:
    doc   3.9Mb
installed size is  9.4Mb
  sub-directories of 1Mb or more:
    extdata   9.1Mb
Namespaces in Imports field not imported from:
  ‘nomogramFormula’ ‘survival’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘magrittr’ ‘utils’
  All declared Imports should be used.
Running ‘testthat.R’ [19s/36s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > .libPaths()
  [1] "/tmp/RtmpUgvQLl/RLIBS_19b02b2a254cd6" 
  [2] "/data/gannet/ripley/R/R-clang/library"
  > library("testthat")
  > library("ggstance")
  > 
  > test_check("ggstance")
  [ FAIL 1 | WARN 2 | SKIP 19 | PASS 1 ]
  
  ══ Skipped tests (19) ══════════════════════════════════════════════════════════
  • On CRAN (19): 'test-flip.R:8:3', 'test-geom-errorbarh.R:7:5',
    'test-geoms.R:7:3', 'test-geoms.R:13:3', 'test-geoms.R:31:3',
    'test-geoms.R:37:3', 'test-geoms.R:45:3', 'test-geoms.R:62:3',
    'test-geoms.R:68:3', 'test-geoms.R:82:3', 'test-geoms.R:100:3',
    'test-geoms.R:119:3', 'test-geoms.R:133:3', 'test-positions.R:10:3',
    'test-positions.R:20:3', 'test-positions.R:37:3', 'test-positions.R:46:3',
    'test-stats.R:23:3', 'test-stats.R:52:3'
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-flip.R:15:3'): flipped stats have correct `required_aes` failure messages ──
  Error in `stat_binh(bins = 30)`: Problem while computing stat.
  i Error occurred in the 1st layer.
  Caused by error in `compute_layer()`:
  ! `stat_binh()` requires the following missing aesthetics: y.
  Backtrace:
      ▆
   1. └─testthat::expect_snapshot(...) at test-flip.R:15:3
   2.   └─rlang::cnd_signal(state$error)
  
  [ FAIL 1 | WARN 2 | SKIP 19 | PASS 1 ]
  Deleting unused snapshots:
  • geoms/geom-barh-facet-wrap.svg
  • geoms/geom-barh-with-count-stat.svg
  • geoms/geom-boxploth-and-continuous-y-scale.svg
  • geoms/geom-boxploth-facet-wrap-with-fill.svg
  • geoms/geom-boxploth-with-fill.svg
  • geoms/geom-histogramh-position-nudge-with-fill.svg
  • geoms/geom-histogramh-position-stack-with-fill.svg
  • geoms/geom-pointrangeh-facet-wrap.svg
  • geoms/geom-pointrangeh-position-dodgev.svg
  • geoms/geom-violinh-draw-quantiles.svg
  • geoms/geom-violinh-facet-wrap.svg
  Error: Test failures
  Execution halted
Installation failed.
See ‘/data/gannet/ripley/R/packages/tests-clang/ggtern.Rcheck/00install.out’ for details.
installed size is 11.1Mb
  sub-directories of 1Mb or more:
    doc    9.5Mb
    help   1.1Mb
Namespace in Imports field not imported from: ‘class’
  All declared Imports should be used.
installed size is 18.0Mb
  sub-directories of 1Mb or more:
    Giac  17.9Mb
installed size is  6.1Mb
  sub-directories of 1Mb or more:
    doc    3.4Mb
    help   2.5Mb
Undeclared package ‘Runuran’ in Rd xrefs
File ‘GiRaF/libs/GiRaF.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘Rcpp’ ‘mockery’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘mockery’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘MASS’ ‘MCMCpack’ ‘ggplot2’ ‘moments’
  All declared Imports should be used.
Running ‘spelling.R’
  Running ‘testthat.R’ [9s/29s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(glancedata)
  > 
  > test_check("glancedata")
  [ FAIL 5 | WARN 4 | SKIP 0 | PASS 13 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-plot_numerical_vars.R:7:3'): histogram mode is a list of length 9 ──
  mymode == "list" & mylength == 9 is not TRUE
  
  `actual`:   FALSE
  `expected`: TRUE 
  ── Failure ('test-plot_numerical_vars.R:14:3'): density is a list of length 9 ──
  mymode == "list" & mylength == 9 is not TRUE
  
  `actual`:   FALSE
  `expected`: TRUE 
  ── Failure ('test-plot_numerical_vars.R:22:3'): boxplot is a list of length 9 ──
  mymode == "list" & mylength == 9 is not TRUE
  
  `actual`:   FALSE
  `expected`: TRUE 
  ── Failure ('test-plot_numerical_vars.R:30:3'): violin is a list of length 9 ───
  mymode == "list" & mylength == 9 is not TRUE
  
  `actual`:   FALSE
  `expected`: TRUE 
  ── Failure ('test-plot_numerical_vars.R:37:3'): qqplot is a list of length 9 ───
  mymode == "list" & mylength == 9 is not TRUE
  
  `actual`:   FALSE
  `expected`: TRUE 
  
  [ FAIL 5 | WARN 4 | SKIP 0 | PASS 13 ]
  Error: Test failures
  Execution halted
File ‘gllm/libs/gllm.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  8.6Mb
  sub-directories of 1Mb or more:
    doc    1.4Mb
    libs   6.3Mb
File ‘GLMaSPU/libs/GLMaSPU.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘ordinal’
  All declared Imports should be used.
Undeclared package ‘GMMBoost’ in Rd xrefs
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    libs   4.0Mb
installed size is 11.6Mb
  sub-directories of 1Mb or more:
    libs  10.2Mb
installed size is 12.0Mb
  sub-directories of 1Mb or more:
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Namespaces in Imports field not imported from:
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  ‘nnet’ ‘pBrackets’ ‘plm’ ‘pscl’ ‘sandwich’
  All declared Imports should be used.
File ‘globalOptTests/libs/globalOptTests.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘rnaturalearthdata’
  All declared Imports should be used.
Packages suggested but not available for checking:
  'SeqArray', 'SeqVarTools'
Undeclared package ‘glmmLasso’ in Rd xrefs
Undeclared package ‘sandwich’ in Rd xrefs
Undeclared package ‘repeated’ in Rd xrefs
Undeclared packages ‘openxlsx’, ‘readxl’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘base’ ‘methods’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘rhandsontable’ ‘shiny’ ‘stats’
  All declared Imports should be used.
Undeclared package ‘fBasics’ in Rd xrefs
Undeclared packages ‘rcmdcheck’, ‘covr’, ‘devtools’, ‘pkgdown’ in Rd xrefs
Undeclared package ‘jsonlite’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘assertthat’ ‘future’ ‘httr’
  All declared Imports should be used.
installed size is  6.3Mb
  sub-directories of 1Mb or more:
    R   5.7Mb
installed size is 12.4Mb
  sub-directories of 1Mb or more:
    libs  11.5Mb
File ‘gplm/libs/gplm.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  5.3Mb
  sub-directories of 1Mb or more:
    data   1.4Mb
    doc    3.5Mb
Undeclared package ‘speedglm’ in Rd xrefs
installed size is  5.6Mb
  sub-directories of 1Mb or more:
    help   5.3Mb
Package suggested but not available for checking: ‘monocle’
Package unavailable to check Rd xrefs: ‘monocle’
Namespaces in Imports field not imported from:
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  ‘dplyr’ ‘ggplot2’ ‘ggpubr’ ‘gridGraphics’ ‘gtools’ ‘kableExtra’
  ‘knitr’ ‘magrittr’ ‘pastecs’ ‘reshape2’ ‘rmarkdown’ ‘shinyWidgets’
  ‘summarytools’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘reshape2’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘BiasedUrn’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘msm’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘ggplot2’ ‘gridExtra’ ‘methods’ ‘tidyr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘MASS’ ‘rjags’
  All declared Imports should be used.
File ‘grove/libs/grove.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  6.0Mb
  sub-directories of 1Mb or more:
    extdata   5.1Mb
Undeclared packages ‘repeated’, ‘gnlm’ in Rd xrefs
installed size is 10.3Mb
  sub-directories of 1Mb or more:
    libs  10.0Mb
File ‘grr/libs/grr.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Undeclared package ‘nflfastR’ in Rd xrefs
File ‘gsmoothr/libs/gsmoothr.so’:
  Found no call to: ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  5.0Mb
  sub-directories of 1Mb or more:
    data   3.4Mb
    doc    1.3Mb
installed size is  5.1Mb
  sub-directories of 1Mb or more:
    doc   4.1Mb
installed size is  5.1Mb
  sub-directories of 1Mb or more:
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Namespace in Imports field not imported from: ‘RUnit’
  All declared Imports should be used.
Undeclared package ‘permute’ in Rd xrefs
File ‘GWASExactHW/libs/GWASExactHW.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘doParallel’ ‘foreach’ ‘spgwr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘DT’ ‘attempt’ ‘corpcor’ ‘glue’ ‘htmltools’ ‘pkgload’ ‘processx’
  ‘tools’
  All declared Imports should be used.
installed size is 267.8Mb
  sub-directories of 1Mb or more:
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    java  264.7Mb
installed size is  5.1Mb
  sub-directories of 1Mb or more:
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installed size is  8.2Mb
  sub-directories of 1Mb or more:
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Namespaces in Imports field not imported from:
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  All declared Imports should be used.
installed size is  6.2Mb
  sub-directories of 1Mb or more:
    data   2.7Mb
    doc    2.6Mb
File ‘hawkes/libs/hawkes.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is 14.7Mb
  sub-directories of 1Mb or more:
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installed size is  5.1Mb
  sub-directories of 1Mb or more:
    R         2.6Mb
    extdata   1.3Mb
installed size is  5.2Mb
  sub-directories of 1Mb or more:
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installed size is  5.6Mb
  sub-directories of 1Mb or more:
    doc           2.7Mb
    htmlwidgets   2.8Mb
installed size is  6.4Mb
  sub-directories of 1Mb or more:
    data   6.3Mb
File ‘HDGLM/libs/HDGLM.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  5.5Mb
  sub-directories of 1Mb or more:
    data   4.7Mb
Imports includes 24 non-default packages.
Importing from so many packages makes the package vulnerable to any of
them becoming unavailable.  Move as many as possible to Suggests and
use conditionally.
Namespaces in Imports field not imported from:
  ‘MCMCpack’ ‘ggjoy’ ‘isotone’ ‘png’ ‘questionr’ ‘rprojroot’
  ‘tidyverse’
  All declared Imports should be used.
installed size is  5.5Mb
  sub-directories of 1Mb or more:
    data   1.4Mb
    doc    3.8Mb
installed size is  6.3Mb
  sub-directories of 1Mb or more:
    doc   5.2Mb
Namespaces in Imports field not imported from:
  ‘TidyDensity’ ‘healthyR’ ‘healthyR.ai’ ‘healthyR.data’ ‘healthyR.ts’
  ‘tidyAML’
  All declared Imports should be used.
Undeclared packages ‘Sleuth2’, ‘rrcov’, ‘archdata’, ‘qqtest’ in Rd xrefs
installed size is  6.2Mb
  sub-directories of 1Mb or more:
    doc    2.2Mb
    libs   2.1Mb
Namespace in Imports field not imported from: ‘RiskPortfolios’
  All declared Imports should be used.
Undeclared packages ‘Guerry’, ‘alr4’, ‘agridat’, ‘coin’ in Rd xrefs
installed size is  5.3Mb
  sub-directories of 1Mb or more:
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Namespaces in Imports field not imported from:
  ‘Rcpp’ ‘quantreg’
  All declared Imports should be used.
installed size is  7.6Mb
  sub-directories of 1Mb or more:
    data   7.1Mb
File ‘hsphase/libs/hsphase.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  5.3Mb
  sub-directories of 1Mb or more:
    libs   4.7Mb
Namespaces in Imports field not imported from:
  ‘recipes’ ‘tune’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘igraph’
  All declared Imports should be used.
File ‘humaniformat/libs/humaniformat.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘mapproj’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘R6’ ‘xml2’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘colourpicker’ ‘shiny’ ‘wordcloud2’
  All declared Imports should be used.
installed size is  6.5Mb
  sub-directories of 1Mb or more:
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installed size is  5.3Mb
  sub-directories of 1Mb or more:
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installed size is  7.4Mb
  sub-directories of 1Mb or more:
    extdata   5.8Mb
Package suggested but not available for checking: ‘flowCore’
installed size is  6.5Mb
  sub-directories of 1Mb or more:
    doc   6.3Mb
Note: found 1058038 marked UTF-8 strings
File ‘ibmcraftr/libs/ibmcraftr.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  6.1Mb
  sub-directories of 1Mb or more:
    data   6.1Mb
Imports includes 26 non-default packages.
Importing from so many packages makes the package vulnerable to any of
them becoming unavailable.  Move as many as possible to Suggests and
use conditionally.
Package suggested but not available for checking: ‘frailtypack’
Namespaces in Imports field not imported from:
  ‘digest’ ‘purrr’ ‘tidyverse’
  All declared Imports should be used.
Undeclared packages ‘mlogit’, ‘logitr’ in Rd xrefs
Undeclared packages ‘sfsmisc’, ‘RColorBrewer’, ‘hexbin’ in Rd xrefs
File ‘ieeeround/libs/ieeeround.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Imports includes 31 non-default packages.
Importing from so many packages makes the package vulnerable to any of
them becoming unavailable.  Move as many as possible to Suggests and
use conditionally.
File ‘IFP/libs/IFP.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘kableExtra’ ‘knitr’ ‘xtable’
  All declared Imports should be used.
installed size is  8.8Mb
  sub-directories of 1Mb or more:
    R      1.4Mb
    doc    1.2Mb
    help   2.0Mb
    libs   3.6Mb
installed size is 10.9Mb
  sub-directories of 1Mb or more:
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Undeclared packages ‘bmp’, ‘jpeg’, ‘png’, ‘tiff’ in Rd xrefs
installed size is 14.8Mb
  sub-directories of 1Mb or more:
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    doc       3.7Mb
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    libs      4.9Mb
Imports includes 38 non-default packages.
Importing from so many packages makes the package vulnerable to any of
them becoming unavailable.  Move as many as possible to Suggests and
use conditionally.
installed size is  6.6Mb
  sub-directories of 1Mb or more:
    data   3.3Mb
    doc    1.6Mb
Namespaces in Imports field not imported from:
  ‘data.table’ ‘dplyr’ ‘haven’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘pscl’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘lme4’ ‘reshape2’
  All declared Imports should be used.
File ‘infotheo/libs/infotheo.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
File ‘INLAspacetime/libs/INLAspacetime.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Undeclared package ‘chromote’ in Rd xrefs
File ‘INSPIRE/libs/INSPIRE.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘splines2’
  All declared Imports should be used.
Undeclared packages ‘quantreg’, ‘effects’, ‘Hmisc’, ‘rockchalk’, ‘pequod’ in Rd xrefs
Undeclared package ‘colorspace’ in Rd xrefs
Namespace in Imports field not imported from: ‘moonBook’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘curl’ ‘readxl’
  All declared Imports should be used.
installed size is 10.5Mb
  sub-directories of 1Mb or more:
    doc   9.9Mb
Undeclared packages ‘nlstools’, ‘lme4’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘fdrtool’ ‘nimble’
  All declared Imports should be used.
File ‘iotools/libs/iotools.so’:
  Found non-API calls to R: ‘R_GetConnection’, ‘R_ReadConnection’,
    ‘R_WriteConnection’
File ‘iotools/libs/iotools.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

Compiled code should not call non-API entry points in R.
It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘Matrix’ ‘expm’
  All declared Imports should be used.
Undeclared package ‘Rpadrino’ in Rd xrefs
Namespace in Imports field not imported from: ‘seqinr’
  All declared Imports should be used.
File ‘iRafNet/libs/iRafNet.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘Rdpack’ ‘glmnet’
  All declared Imports should be used.
File ‘isingLenzMC/libs/isingLenzMC.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Undeclared package ‘Unicode’ in Rd xrefs
Undeclared package ‘multtest’ in Rd xrefs
installed size is  9.9Mb
  sub-directories of 1Mb or more:
    data   1.9Mb
    doc    2.3Mb
    libs   4.7Mb
Undeclared package ‘surveillance’ in Rd xrefs
installed size is  5.3Mb
  sub-directories of 1Mb or more:
    data   5.1Mb
Namespaces in Imports field not imported from:
  ‘Rcpp’ ‘dplyr’ ‘magrittr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘fBasics’ ‘reshape’ ‘tidyr’ ‘utils’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘grid’ ‘mcmcplots’ ‘tidyverse’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘GA’
  All declared Imports should be used.
installed size is  6.2Mb
  sub-directories of 1Mb or more:
    htmlwidgets   5.7Mb
Namespace in Imports field not imported from: ‘ids’
  All declared Imports should be used.
installed size is  7.2Mb
  sub-directories of 1Mb or more:
    libs   5.8Mb
installed size is  5.9Mb
  sub-directories of 1Mb or more:
    extdata   5.5Mb
installed size is 10.6Mb
  sub-directories of 1Mb or more:
    R      3.9Mb
    i18n   6.5Mb
Namespaces in Imports field not imported from:
  ‘BayesFactor’ ‘GGally’ ‘GPArotation’ ‘MASS’ ‘PMCMR’ ‘R6’ ‘ROCR’
  ‘afex’ ‘car’ ‘dplyr’ ‘emmeans’ ‘ggrepel’ ‘ggridges’ ‘lavaan’
  ‘multcomp’ ‘mvnormtest’ ‘nnet’ ‘psych’ ‘vcd’ ‘vcdExtra’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘doParallel’
  All declared Imports should be used.
installed size is  6.9Mb
  sub-directories of 1Mb or more:
    examples      2.9Mb
    htmlwidgets   1.1Mb
    www           2.7Mb
Namespaces in Imports field not imported from:
  ‘Superpower’ ‘pwr’ ‘shinydashboard’
  All declared Imports should be used.
File ‘kappalab/libs/kappalab.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘gifski’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘EQL’ ‘univariateML’
  All declared Imports should be used.
File ‘Kendall/libs/Kendall.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘lme4’ ‘metafor’ ‘nlme’
  All declared Imports should be used.
installed size is 11.4Mb
  sub-directories of 1Mb or more:
    doc    3.6Mb
    help   7.0Mb
installed size is  5.5Mb
  sub-directories of 1Mb or more:
    libs   4.9Mb
File ‘KERE/libs/KERE.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
File ‘KernSmoothIRT/libs/KernSmoothIRT.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  5.0Mb
  sub-directories of 1Mb or more:
    doc       3.2Mb
    extdata   1.2Mb
Namespaces in Imports field not imported from:
  ‘Biostrings’ ‘Rsamtools’ ‘rtracklayer’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘fitdistrplus’ ‘plotly’
  All declared Imports should be used.
File ‘kknn/libs/kknn.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘Rcpp’ ‘SnowballC’ ‘stringi’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘FNN’ ‘caret’ ‘datasets’ ‘dplyr’ ‘e1071’ ‘psycho’ ‘rhandsontable’
  ‘shiny’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘dplyr’ ‘tibble’
  All declared Imports should be used.
File ‘kriging/libs/kriging.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  5.8Mb
  sub-directories of 1Mb or more:
    libs   5.0Mb
Namespace in Imports field not imported from: ‘robustbase’
  All declared Imports should be used.
File ‘labdsv/libs/labdsv.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Undeclared packages ‘carData’, ‘factoextra’, ‘labstatR’ in Rd xrefs
Namespace in Imports field not imported from: ‘stringr’
  All declared Imports should be used.
installed size is  8.4Mb
  sub-directories of 1Mb or more:
    data   8.3Mb
installed size is  6.4Mb
  sub-directories of 1Mb or more:
    data   5.6Mb
File ‘LassoNet/libs/LassoNet.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
File ‘lassoshooting/libs/lassoshooting.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  6.5Mb
  sub-directories of 1Mb or more:
    doc   6.4Mb
Undeclared package ‘gridExtra’ in Rd xrefs
installed size is 11.0Mb
  sub-directories of 1Mb or more:
    R      1.5Mb
    libs   8.7Mb
Namespace in Imports field not imported from: ‘cli’
  All declared Imports should be used.
Imports includes 28 non-default packages.
Importing from so many packages makes the package vulnerable to any of
them becoming unavailable.  Move as many as possible to Suggests and
use conditionally.
Namespaces in Imports field not imported from:
  ‘DT’ ‘SnowballC’ ‘chinese.misc’ ‘dplyr’ ‘factoextra’ ‘glasso’
  ‘highcharter’ ‘htmlwidgets’ ‘ldatuning’ ‘qgraph’ ‘quanteda’ ‘rvest’
  ‘shinyBS’ ‘shinyWidgets’ ‘shinyalert’ ‘shinybusy’ ‘shinycssloaders’
  ‘shinydashboard’ ‘shinyjs’ ‘stringr’ ‘textmineR’ ‘textplot’ ‘tidyr’
  ‘topicmodels’
  All declared Imports should be used.
File ‘lda/libs/lda.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘DT’ ‘SnowballC’ ‘beepr’ ‘broom’ ‘chinese.misc’ ‘dplyr’ ‘highcharter’
  ‘htmlwidgets’ ‘ldatuning’ ‘parallel’ ‘plotly’ ‘purrr’ ‘quanteda’
  ‘shinyBS’ ‘shinyWidgets’ ‘shinyalert’ ‘shinycssloaders’ ‘shinyjs’
  ‘stringr’ ‘textmineR’ ‘tidyr’ ‘tidytext’ ‘topicmodels’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘devtools’ ‘reticulate’ ‘tensorflow’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘dplyr’ ‘htmlwidgets’ ‘jsonlite’ ‘sf’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘leaflet’
  All declared Imports should be used.
File ‘leaps/libs/leaps.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is 12.1Mb
  sub-directories of 1Mb or more:
    doc    2.5Mb
    libs   7.9Mb
installed size is  5.5Mb
  sub-directories of 1Mb or more:
    doc   5.3Mb
Undeclared packages ‘purrr’, ‘dplyr’ in Rd xrefs
installed size is  8.6Mb
  sub-directories of 1Mb or more:
    R     1.3Mb
    doc   6.0Mb
installed size is  6.8Mb
  sub-directories of 1Mb or more:
    help   1.1Mb
    libs   3.9Mb
Namespaces in Imports field not imported from:
  ‘ggplot2’ ‘knitr’ ‘purrr’ ‘rmarkdown’
  All declared Imports should be used.
File ‘lgarch/libs/lgarch.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  7.1Mb
  sub-directories of 1Mb or more:
    libs   5.8Mb
Namespaces in Imports field not imported from:
  ‘curl’ ‘jsonlite’
  All declared Imports should be used.
installed size is  5.7Mb
  sub-directories of 1Mb or more:
    data   3.3Mb
    doc    2.1Mb
installed size is  8.0Mb
  sub-directories of 1Mb or more:
    libs   7.3Mb
Namespaces in Imports field not imported from:
  ‘SnowballC’ ‘data.table’ ‘e1071’ ‘fastmatch’
  All declared Imports should be used.
File ‘linERR/libs/linERR.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Running ‘testthat.R’ [171s/401s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(lintr)
  > 
  > # suppress printing environment name (noisy)
  > invisible({
  +   loadNamespace("patrick")
  +   loadNamespace("withr")
  + })
  > 
  > test_check("lintr")
  [ FAIL 1 | WARN 0 | SKIP 1 | PASS 5154 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • data.table cannot be loaded (1): 'test-methods.R:155:3'
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-get_source_expressions.R:97:5'): Multi-byte character truncated by parser is ignored ──
  error$message (`actual`) not identical to "unexpected input" (`expected`).
  
  `actual`:   "unexpected invalid token"
  `expected`: "unexpected input"        
  Backtrace:
      ▆
   1. └─lintr (local) with_content_to_parse(...) at test-get_source_expressions.R:96:3
   2.   └─base::eval(substitute(code), envir = content_env) at test-get_source_expressions.R:12:3
   3.     └─base::eval(substitute(code), envir = content_env)
   4.       └─testthat::expect_identical(error$message, "unexpected input") at test-get_source_expressions.R:97:5
  
  [ FAIL 1 | WARN 0 | SKIP 1 | PASS 5154 ]
  Error: Test failures
  Execution halted
Namespaces in Imports field not imported from:
  ‘itertools’ ‘knitr’ ‘utils’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘e1071’
  All declared Imports should be used.
File ‘ljr/libs/ljr.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  5.9Mb
  sub-directories of 1Mb or more:
    R          1.5Mb
    doc        1.6Mb
    testdata   1.3Mb
installed size is  7.2Mb
  sub-directories of 1Mb or more:
    libs   5.5Mb
Undeclared packages ‘sfsmisc’, ‘mnormt’ in Rd xrefs
installed size is  5.5Mb
  sub-directories of 1Mb or more:
    libs   4.5Mb
Namespaces in Imports field not imported from:
  ‘agridat’ ‘ggplot2’ ‘maps’ ‘sf’
  All declared Imports should be used.
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    R              1.2Mb
    doc-software   2.4Mb
Error(s) in re-building vignettes:
--- re-building ‘LMoFit.Rmd’ using rmarkdown

Quitting from lines 236-237 [unnamed-chunk-15] (LMoFit.Rmd)
Error: processing vignette 'LMoFit.Rmd' failed with diagnostics:
Problem while computing aesthetics.
ℹ Error occurred in the 1st layer.
Caused by error in `scales_add_defaults()`:
! could not find function "scales_add_defaults"
--- failed re-building ‘LMoFit.Rmd’

SUMMARY: processing the following file failed:
  ‘LMoFit.Rmd’

Error: Vignette re-building failed.
Execution halted
File ‘lmPerm/libs/lmPerm.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘shinyjs’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘RColorBrewer’ ‘base’ ‘qpdf’
  All declared Imports should be used.
File ‘localgauss/libs/localgauss.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘checkmate’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘lestat’
  All declared Imports should be used.
Package suggested but not available for checking: ‘EnsDb.Hsapiens.v75’
Note: skipping ‘locuszoomr.Rmd’ due to unavailable dependencies:
  'EnsDb.Hsapiens.v75'
File ‘loe/libs/loe.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
File ‘logisticPCA/libs/logisticPCA.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Found the following significant warnings:
  Warning: replacing previous import ‘ggmulti::coord_radial’ by ‘ggplot2::coord_radial’ when loading ‘loon.ggplot’
See ‘/data/gannet/ripley/R/packages/tests-clang/loon.ggplot.Rcheck/00install.out’ for details.
installed size is  5.0Mb
  sub-directories of 1Mb or more:
    doc   1.5Mb
    tcl   1.3Mb
File ‘lorec/libs/lorec.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
File ‘lowmemtkmeans/libs/lowmemtkmeans.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Undeclared package ‘forecastLSW’ in Rd xrefs
File ‘LRcontrast/libs/LRcontrast.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  6.8Mb
  sub-directories of 1Mb or more:
    libs   4.8Mb
Note: found 143 marked Latin-1 strings
  Note: found 833 marked UTF-8 strings
Namespaces in Imports field not imported from:
  ‘Icens’ ‘interval’
  All declared Imports should be used.
File ‘ltsa/libs/ltsa.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘rpostgis’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘ncdf4’ ‘raster’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘e1071’ ‘utils’
  All declared Imports should be used.
Package suggested but not available for checking: ‘orthogene’
Namespace in Imports field not imported from: ‘fmsb’
  All declared Imports should be used.
Package unavailable to check Rd xrefs: ‘orthogene’
Namespaces in Imports field not imported from:
  ‘ngram’ ‘shinythemes’ ‘topicmodels’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘shinythemes’ ‘topicmodels’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘rlang’ ‘torch’
  All declared Imports should be used.
Undeclared packages ‘rlang’, ‘vctrs’ in Rd xrefs
installed size is  7.4Mb
  sub-directories of 1Mb or more:
    doc   6.3Mb
Package suggested but not available for checking: ‘BiocCheck’
Namespaces in Imports field not imported from:
  ‘cli’ ‘nomnoml’
  All declared Imports should be used.
installed size is  7.4Mb
  sub-directories of 1Mb or more:
    doc   6.9Mb
installed size is  5.3Mb
  sub-directories of 1Mb or more:
    data   1.2Mb
    doc    3.5Mb
Undeclared packages ‘CompQuadForm’, ‘car’ in Rd xrefs
installed size is 33.6Mb
  sub-directories of 1Mb or more:
    mapdata  33.4Mb
installed size is  9.4Mb
  sub-directories of 1Mb or more:
    data          1.3Mb
    doc           1.6Mb
    htmlwidgets   3.6Mb
    libs          2.4Mb
Namespaces in Imports field not imported from:
  ‘dplyr’ ‘rlang’ ‘testthat’
  All declared Imports should be used.
installed size is  7.6Mb
  sub-directories of 1Mb or more:
    R      2.7Mb
    data   2.4Mb
Namespace in Imports field not imported from: ‘pbmcapply’
  All declared Imports should be used.
installed size is  8.5Mb
  sub-directories of 1Mb or more:
    doc   7.4Mb
installed size is  5.1Mb
  sub-directories of 1Mb or more:
    java   3.3Mb
Namespace in Imports field not imported from: ‘formatR’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘stats’
  All declared Imports should be used.
Undeclared packages ‘logistf’, ‘brglm’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘effsize’ ‘psych’
  All declared Imports should be used.
File ‘mbrglm/libs/mbrglm.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘MASS’ ‘Rdpack’ ‘copula’ ‘missMethods’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘MASS’ ‘lars’ ‘methods’ ‘parallel’ ‘smoothmest’
  All declared Imports should be used.
File ‘mcclust/libs/mcclust.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
File ‘mcemGLM/libs/mcemGLM.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘boot.heterogeneity’
  All declared Imports should be used.
installed size is  5.3Mb
  sub-directories of 1Mb or more:
    doc   2.9Mb
installed size is  6.8Mb
  sub-directories of 1Mb or more:
    libs   5.7Mb
installed size is  7.4Mb
  sub-directories of 1Mb or more:
    doc   6.8Mb
Namespace in Imports field not imported from: ‘glmnet’
  All declared Imports should be used.
installed size is  7.6Mb
  sub-directories of 1Mb or more:
    doc       1.9Mb
    extdata   5.3Mb
Namespaces in Imports field not imported from:
  ‘MASS’ ‘datasets’ ‘dplyr’ ‘psych’ ‘shiny’
  All declared Imports should be used.
installed size is  6.5Mb
  sub-directories of 1Mb or more:
    libs   5.0Mb
File ‘MediaK/libs/MediaK.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘vroom’
  All declared Imports should be used.
installed size is  5.4Mb
  sub-directories of 1Mb or more:
    R     1.4Mb
    doc   3.1Mb
Namespace in Imports field not imported from: ‘urca’
  All declared Imports should be used.
installed size is  5.3Mb
  sub-directories of 1Mb or more:
    extdata   3.4Mb
Namespace in Imports field not imported from: ‘gt’
  All declared Imports should be used.
installed size is  9.8Mb
  sub-directories of 1Mb or more:
    libs   9.0Mb
Packages suggested but not available for checking: 'ropls', 'xcms'
Namespaces in Imports field not imported from:
  ‘mvtnorm’ ‘numDeriv’ ‘utils’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘e1071’ ‘gbm’ ‘ggplot2’ ‘graphics’ ‘randomForest’
  All declared Imports should be used.
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    R      2.0Mb
    help   2.3Mb
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    data   4.1Mb
Imports includes 35 non-default packages.
Importing from so many packages makes the package vulnerable to any of
them becoming unavailable.  Move as many as possible to Suggests and
use conditionally.
Namespaces in Imports field not imported from:
  ‘BiocManager’ ‘DT’ ‘GEOmetadb’ ‘RMySQL’ ‘RSQLite’ ‘gplots’ ‘pheatmap’
  ‘readr’
  All declared Imports should be used.
installed size is 14.4Mb
  sub-directories of 1Mb or more:
    data       3.0Mb
    examples  10.3Mb
Namespace in Imports field not imported from: ‘lmerTest’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘ade4’ ‘dendextend’ ‘ggforce’ ‘ggrepel’ ‘stringr’ ‘tidyverse’
  All declared Imports should be used.
Undeclared packages ‘netmeta’, ‘metasens’, ‘robumeta’ in Rd xrefs
installed size is  5.6Mb
  sub-directories of 1Mb or more:
    libs   5.1Mb
Running examples in ‘meteo-Ex.R’ failed
The error most likely occurred in:

> ### Name: get_meteo
> ### Title: Get daily meteorological data for specific location and dates.
> ### Aliases: get_meteo
> 
> ### ** Examples
> 
> library(terra)
terra 1.7.71
> 
> loc <- c(21, 45)
> # loc <- as.data.frame(rbind(c(21, 45),
> #                            c(21,45.5),
> #                            c(21.5,45),
> #                            c(21.5,45.5)))
> 
> dates <- as.Date("2020-12-25")
> # dates <- seq(as.Date("2020-12-25"), as.Date("2020-12-31"), by="day")
> 
> tmean <- get_meteo(loc,
+                    dates,
+                    var = "tmean", # "tmax" "tmin" "prcp" "slp"
+                    source = "MeteoEurope1km")
Warning in new_CppObject_xp(fields$.module, fields$.pointer, ...) :
  GDAL Error 11: HTTP response code: 404
Error: [rast] file does not exist: /vsicurl/https://dailymeteo.com/cog/europe/tmean/tmean_day_20201225_3035.tif
Execution halted
Undeclared package ‘R2WinBUGS’ in Rd xrefs
installed size is  8.5Mb
  sub-directories of 1Mb or more:
    R      1.7Mb
    doc    2.8Mb
    libs   2.1Mb
Note: found 7 marked Latin-1 strings
  Note: found 14 marked UTF-8 strings
Namespace in Imports field not imported from: ‘fs’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘boot’ ‘energy’
  All declared Imports should be used.
File ‘MGL/libs/MGL.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘R6’ ‘reticulate’
  All declared Imports should be used.
File ‘mhsmm/libs/mhsmm.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Packages suggested but not available for checking: 'DAPAR', 'ProteoMM'
Undeclared packages ‘micEconAids’, ‘micEconSNQP’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘MASS’ ‘Matrix’ ‘utils’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘DT’ ‘ggiraph’ ‘ggplot2’ ‘grid’ ‘gtools’ ‘scales’ ‘shinyBS’
  ‘shinyWidgets’ ‘tidyr’
  All declared Imports should be used.
installed size is  8.9Mb
  sub-directories of 1Mb or more:
    doc   6.2Mb
    lib   1.6Mb
Namespaces in Imports field not imported from:
  ‘R6’ ‘curl’ ‘jsonlite’ ‘parallel’ ‘tools’ ‘vctrs’
  All declared Imports should be used.
installed size is  8.2Mb
  sub-directories of 1Mb or more:
    libs   7.3Mb
Namespace in Imports field not imported from: ‘lifecycle’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘FactoMineR’ ‘softImpute’
  All declared Imports should be used.
installed size is 10.6Mb
  sub-directories of 1Mb or more:
    libs   9.9Mb
Namespaces in Imports field not imported from:
  ‘pracma’ ‘rstantools’
  All declared Imports should be used.
Undeclared package ‘scatterplot3d’ in Rd xrefs
Undeclared packages ‘pspline’, ‘lme4’ in Rd xrefs
File ‘MiSPU/libs/MiSPU.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘mcmcr’
  All declared Imports should be used.
Packages suggested but not available for checking:
  'karyoploteR', 'regioneR'
File ‘mixexp/libs/mixexp.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘ashr’ ‘fdrtool’
  All declared Imports should be used.
Undeclared packages ‘rms’, ‘Hmisc’, ‘genefilter’ in Rd xrefs
Namespace in Imports field not imported from: ‘reticulate’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘ConfusionTableR’ ‘OddsPlotty’ ‘caret’ ‘dplyr’ ‘ggplot2’ ‘parsnip’
  ‘ranger’ ‘recipes’ ‘rsample’ ‘varhandle’ ‘workflows’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘nlme’
  All declared Imports should be used.
Packages suggested but not available for checking:
  'ueadata1', 'ueadata2', 'ueadata3', 'ueadata4', 'ueadata5',
  'ueadata6', 'ueadata7', 'ueadata8'

Imports includes 32 non-default packages.
Importing from so many packages makes the package vulnerable to any of
them becoming unavailable.  Move as many as possible to Suggests and
use conditionally.
Namespaces in Imports field not imported from:
  ‘ClusterR’ ‘MASS’ ‘Rdpack’ ‘multiwave’ ‘randomForest’ ‘ranger’
  All declared Imports should be used.
installed size is 35.6Mb
  sub-directories of 1Mb or more:
    include  10.1Mb
    libs     25.0Mb
Namespaces in Imports field not imported from:
  ‘caret’ ‘randomForest’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘DT’ ‘Metrics’ ‘data.table’ ‘dplyr’ ‘mlr3’ ‘mlr3learners’
  ‘mlr3measures’ ‘mlr3pipelines’ ‘patchwork’ ‘plyr’ ‘purrr’
  ‘shinyWidgets’ ‘shinyalert’ ‘shinydashboard’ ‘shinyjs’ ‘stats’
  ‘stringr’
  All declared Imports should be used.
installed size is  5.0Mb
  sub-directories of 1Mb or more:
    R      1.4Mb
    data   2.3Mb
installed size is 15.7Mb
  sub-directories of 1Mb or more:
    images   1.1Mb
    shiny   14.5Mb
Namespaces in Imports field not imported from:
  ‘Cairo’ ‘DT’ ‘XML’ ‘caTools’ ‘data.table’ ‘dplyr’ ‘ggplot2’
  ‘htmltools’ ‘leaflet’ ‘lubridate’ ‘plotly’ ‘shinyjs’ ‘stringr’ ‘xts’
  ‘zoo’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘ActCR’ ‘ActFrag’ ‘tidyr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘datasets’ ‘doParallel’ ‘parallel’
  All declared Imports should be used.
installed size is  7.5Mb
  sub-directories of 1Mb or more:
    libs   5.6Mb
Namespaces in Imports field not imported from:
  ‘MASS’ ‘Matrix’ ‘magrittr’ ‘reticulate’ ‘tensorflow’ ‘usethis’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘caret’ ‘datasets’ ‘e1071’ ‘nnet’ ‘shiny’ ‘stats’
  All declared Imports should be used.
Packages suggested but not available for checking:
  'ArchR', 'TxDb.Hsapiens.UCSC.hg38.refGene'

Imports includes 31 non-default packages.
Importing from so many packages makes the package vulnerable to any of
them becoming unavailable.  Move as many as possible to Suggests and
use conditionally.
Undeclared package ‘semTools’ in Rd xrefs
installed size is  5.0Mb
  sub-directories of 1Mb or more:
    data   4.8Mb
Namespaces in Imports field not imported from:
  ‘DALEX’ ‘DT’ ‘auditor’ ‘breakDown’ ‘drifter’ ‘svglite’
  All declared Imports should be used.
Undeclared packages ‘lme4’, ‘rstanarm’, ‘dplyr’ in Rd xrefs
Namespace in Imports field not imported from: ‘parsnip’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘tidymodels’ ‘tidyverse’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘crayon’ ‘dials’ ‘glue’ ‘parsnip’
  All declared Imports should be used.
installed size is 14.9Mb
  sub-directories of 1Mb or more:
    htmlwidgets  14.7Mb
Undeclared package ‘seewave’ in Rd xrefs
File ‘morse/libs/morse.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘MASS’ ‘caret’ ‘ggformula’ ‘knitr’ ‘testthat’ ‘tidyverse’
  All declared Imports should be used.
Undeclared package ‘cubature’ in Rd xrefs
Namespace in Imports field not imported from: ‘NlcOptim’
  All declared Imports should be used.
Undeclared package ‘graphlayouts’ in Rd xrefs
Installation failed.
See ‘/data/gannet/ripley/R/packages/tests-clang/MPCR.Rcheck/00install.out’ for details.
File ‘mpmi/libs/mpmi.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
File ‘mp/libs/mp.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  5.7Mb
  sub-directories of 1Mb or more:
    libs   4.9Mb
installed size is  5.9Mb
  sub-directories of 1Mb or more:
    libs   5.5Mb
Undeclared package ‘processx’ in Rd xrefs
installed size is  7.7Mb
  sub-directories of 1Mb or more:
    libs   7.4Mb
installed size is  7.8Mb
  sub-directories of 1Mb or more:
    R      1.9Mb
    data   4.4Mb
installed size is  6.7Mb
  sub-directories of 1Mb or more:
    libs   6.2Mb
installed size is  6.0Mb
  sub-directories of 1Mb or more:
    R   5.9Mb
Namespace in Imports field not imported from: ‘ranger’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘datasets’ ‘grDevices’ ‘graphics’ ‘iterators’ ‘methods’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘markdown’ ‘methods’ ‘vctrs’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘Matrix’ ‘capushe’ ‘shiny’
  All declared Imports should be used.
File ‘MultiBD/libs/MultiBD.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘plsgenomics’
  All declared Imports should be used.
Installation failed.
See ‘/data/gannet/ripley/R/packages/tests-clang/multilevelcoda.Rcheck/00install.out’ for details.
installed size is 24.9Mb
  sub-directories of 1Mb or more:
    R      1.2Mb
    doc    4.4Mb
    libs  18.5Mb
Namespaces in Imports field not imported from:
  ‘RCurl’ ‘fields’ ‘optmatch’ ‘rcbalance’ ‘utils’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘ggplot2’ ‘mvtnorm’ ‘tidyr’
  All declared Imports should be used.
installed size is  5.3Mb
  sub-directories of 1Mb or more:
    doc    2.7Mb
    help   2.2Mb
Namespaces in Imports field not imported from:
  ‘poweRlaw’ ‘rmutil’
  All declared Imports should be used.
installed size is  5.1Mb
  sub-directories of 1Mb or more:
    doc   4.3Mb
Undeclared packages ‘AICcmodavg’, ‘bbmle’, ‘glmulti’, ‘arm’, ‘performance’, ‘wgeesel’, ‘ape’, ‘bestglm’, ‘leaps’, ‘glmmTMB’, ‘brglm’, ‘quantreg’, ‘maxlike’, ‘RMark’ in Rd xrefs
Undeclared package ‘dosresmeta’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘ggplot2’ ‘grDevices’ ‘knitr’ ‘utils’
  All declared Imports should be used.
Undeclared package ‘sampleSelection’ in Rd xrefs
Packages suggested but not available for checking: 'BioNet', 'DLBCL'
Namespaces in Imports field not imported from:
  ‘e1071’ ‘glue’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘Kendall’ ‘perm’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘glmnet’ ‘mlr3learners’ ‘rpart’
  All declared Imports should be used.
installed size is 16.3Mb
  sub-directories of 1Mb or more:
    extdata  16.2Mb
installed size is  5.1Mb
  sub-directories of 1Mb or more:
    data     1.9Mb
    libs     1.9Mb
    models   1.1Mb
Found the following files/directories:
  ‘Crashpad’
Note: found 5 marked Latin-1 strings
  Note: found 7187 marked UTF-8 strings
installed size is  5.6Mb
  sub-directories of 1Mb or more:
    data   3.8Mb
    doc    1.7Mb
Namespace in Imports field not imported from: ‘tuneR’
  All declared Imports should be used.
installed size is  9.0Mb
  sub-directories of 1Mb or more:
    data   1.5Mb
    doc    6.5Mb
Namespaces in Imports field not imported from:
  ‘glmnet’ ‘rrpack’
  All declared Imports should be used.
Package suggested but not available for checking: ‘sSeq’
Package unavailable to check Rd xrefs: ‘sSeq’
Namespaces in Imports field not imported from:
  ‘caret’ ‘datasets’ ‘dplyr’ ‘e1071’ ‘rhandsontable’ ‘shiny’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘bookdown’
  All declared Imports should be used.
installed size is  9.5Mb
  sub-directories of 1Mb or more:
    data   9.4Mb
Namespace in Imports field not imported from: ‘magick’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘Deriv’ ‘compiler’ ‘stringi’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘MASS’ ‘fields’ ‘mvtnorm’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘igraph’ ‘rlang’ ‘tidyselect’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘Matrix’ ‘igraph’
  All declared Imports should be used.
Undeclared package ‘mediation’ in Rd xrefs
Undeclared package ‘crossnma’ in Rd xrefs
File ‘NetPreProc/libs/NetPreProc.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘mgcv’ ‘stats’
  All declared Imports should be used.
installed size is 20.4Mb
  sub-directories of 1Mb or more:
    libs  19.6Mb
installed size is  7.9Mb
  sub-directories of 1Mb or more:
    data   7.8Mb
File ‘neuroim/libs/neuroim.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘devtools’ ‘xml2’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘quickcode’ ‘utils’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘Rdpack’ ‘curl’ ‘mathjaxr’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘nflfastR’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘NHSRdatasets’ ‘grid’ ‘utils’
  All declared Imports should be used.
File ‘nice/libs/nice.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘rJava’
  All declared Imports should be used.
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    doc   4.0Mb
installed size is 25.2Mb
  sub-directories of 1Mb or more:
    CppCode        2.8Mb
    R              7.7Mb
    classic-bugs   1.6Mb
    include       11.9Mb
installed size is  6.9Mb
  sub-directories of 1Mb or more:
    doc       4.0Mb
    extdata   1.8Mb
Undeclared packages ‘cshapes’, ‘mapdata’ in Rd xrefs
Namespace in Imports field not imported from: ‘rjson’
  All declared Imports should be used.
installed size is  6.2Mb
  sub-directories of 1Mb or more:
    doc       1.2Mb
    extdata   3.7Mb
Namespaces in Imports field not imported from:
  ‘devtools’ ‘jsonlite’
  All declared Imports should be used.
installed size is  7.6Mb
  sub-directories of 1Mb or more:
    doc   7.4Mb
Namespace in Imports field not imported from: ‘BiocManager’
  All declared Imports should be used.
Undeclared package ‘sfheaders’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘RColorBrewer’ ‘choroplethr’ ‘choroplethrMaps’ ‘data.table’ ‘forcats’
  ‘hurricaneexposure’ ‘plyr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘R6’ ‘crayon’ ‘digest’ ‘hash’
  All declared Imports should be used.
File ‘noncompliance/libs/noncompliance.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘dplyr’ ‘e1071’ ‘pROC’ ‘purrr’ ‘randomForest’ ‘rlang’
  All declared Imports should be used.
installed size is  9.1Mb
  sub-directories of 1Mb or more:
    doc    1.7Mb
    libs   3.3Mb
    mods   3.4Mb
Namespaces in Imports field not imported from:
  ‘Matrix’ ‘e1071’ ‘glmnet’
  All declared Imports should be used.
installed size is  5.1Mb
  sub-directories of 1Mb or more:
    doc    1.2Mb
    libs   3.2Mb
Namespace in Imports field not imported from: ‘xgboost’
  All declared Imports should be used.
installed size is  5.0Mb
  sub-directories of 1Mb or more:
    doc    1.7Mb
    libs   2.0Mb
Namespaces in Imports field not imported from:
  ‘MASS’ ‘Rdpack’ ‘base’ ‘graphics’ ‘parallel’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘forecast’ ‘rlang’ ‘tsibble’ ‘viridis’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘R.utils’ ‘optparse’ ‘vcfR’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘pedtools’
  All declared Imports should be used.
installed size is  6.5Mb
  sub-directories of 1Mb or more:
    doc   5.3Mb
installed size is 10.9Mb
  sub-directories of 1Mb or more:
    libs  10.0Mb
installed size is  5.6Mb
  sub-directories of 1Mb or more:
    data   5.5Mb
Undeclared packages ‘ensurer’, ‘validate’ in Rd xrefs
installed size is  9.5Mb
  sub-directories of 1Mb or more:
    R         1.5Mb
    doc       5.7Mb
    extdata   1.6Mb
installed size is  6.2Mb
  sub-directories of 1Mb or more:
    R            1.5Mb
    test_files   4.2Mb
installed size is  9.7Mb
  sub-directories of 1Mb or more:
    R      2.7Mb
    data   1.0Mb
    doc    1.7Mb
    help   3.2Mb
Found the following significant warnings:
  /usr/local/clang18/bin/../include/c++/v1/locale:3257:1: warning: 'wstring_convert<std::codecvt_utf8_utf16<char16_t>, char16_t>' is deprecated [-Wdeprecated-declarations]
See ‘/data/gannet/ripley/R/packages/tests-clang/odbc.Rcheck/00install.out’ for details.
* used C++ compiler: ‘clang version 18.1.1’
Namespaces in Imports field not imported from:
  ‘caret’ ‘e1071’ ‘ggthemes’ ‘mlbench’ ‘rmarkdown’ ‘tidymodels’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘RColorBrewer’ ‘graphics’
  All declared Imports should be used.
installed size is  6.8Mb
  sub-directories of 1Mb or more:
    doc   6.1Mb
File ‘olctools/libs/olctools.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  5.1Mb
  sub-directories of 1Mb or more:
    data   4.7Mb
Namespaces in Imports field not imported from:
  ‘crayon’ ‘testthat’
  All declared Imports should be used.
installed size is  5.3Mb
  sub-directories of 1Mb or more:
    libs   3.3Mb
Namespaces in Imports field not imported from:
  ‘gdata’ ‘genefilter’ ‘maftools’ ‘readxl’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘e1071’ ‘fs’ ‘pdp’
  All declared Imports should be used.
installed size is  5.5Mb
  sub-directories of 1Mb or more:
    libs   4.3Mb
Namespaces in Imports field not imported from:
  ‘R6’ ‘safer’
  All declared Imports should be used.
Undeclared package ‘lubridate’ in Rd xrefs
Error(s) in re-building vignettes:
--- re-building ‘ontologySimilarity-GO-example.Rmd’ using rmarkdown

Quitting from lines 53-60 [unnamed-chunk-6] (ontologySimilarity-GO-example.Rmd)
Error: processing vignette 'ontologySimilarity-GO-example.Rmd' failed with diagnostics:
Term sets contain terms not present in ontology
--- failed re-building ‘ontologySimilarity-GO-example.Rmd’

--- re-building ‘ontologySimilarity-examples.Rmd’ using rmarkdown
--- finished re-building ‘ontologySimilarity-examples.Rmd’

--- re-building ‘ontologySimilarity-introduction.Rmd’ using rmarkdown
--- finished re-building ‘ontologySimilarity-introduction.Rmd’

SUMMARY: processing the following file failed:
  ‘ontologySimilarity-GO-example.Rmd’

Error: Vignette re-building failed.
Execution halted
Namespaces in Imports field not imported from:
  ‘randomForest’ ‘ranger’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘dplyr’ ‘glue’ ‘httpcode’ ‘httr’ ‘jsonlite’ ‘tidyr’
  All declared Imports should be used.
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    data   4.2Mb
installed size is 17.3Mb
  sub-directories of 1Mb or more:
    R        2.6Mb
    data     1.4Mb
    libs     6.1Mb
    models   4.8Mb
installed size is  7.2Mb
  sub-directories of 1Mb or more:
    java     1.2Mb
    models   6.0Mb
installed size is  6.0Mb
  sub-directories of 1Mb or more:
    doc   4.3Mb
File ‘OptHedging/libs/OptHedging.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘boot’ ‘splines’
  All declared Imports should be used.
File ‘optpart/libs/optpart.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  5.3Mb
  sub-directories of 1Mb or more:
    data   4.7Mb
Namespaces in Imports field not imported from:
  ‘ggplot2’ ‘gridExtra’ ‘scales’ ‘tools’
  All declared Imports should be used.
installed size is  6.7Mb
  sub-directories of 1Mb or more:
    R       1.0Mb
    nifti   3.8Mb
Namespaces in Imports field not imported from:
  ‘knitr’ ‘tibble’
  All declared Imports should be used.
installed size is  6.1Mb
  sub-directories of 1Mb or more:
    doc   5.0Mb
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    data   3.4Mb
    help   1.1Mb
Package suggested but not available for checking: ‘Rcplex’
Namespaces in Imports field not imported from:
  ‘R6’ ‘openssl’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘Rdpack’ ‘astsa’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘flexsurv’ ‘nlme’ ‘tibble’ ‘tidyverse’ ‘tm’
  All declared Imports should be used.
Undeclared package ‘devtools’ in Rd xrefs
Namespace in Imports field not imported from: ‘ape’
  All declared Imports should be used.
installed size is  7.9Mb
  sub-directories of 1Mb or more:
    library   7.1Mb
File ‘pamr/libs/pamr.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘smoothmest’
  All declared Imports should be used.
Undeclared packages ‘tidygraph’, ‘htmlwidgets’ in Rd xrefs
Namespace in Imports field not imported from: ‘flexsurv’
  All declared Imports should be used.
Undeclared packages ‘partykit’, ‘Cubist’, ‘rules’, ‘h2o’, ‘agua’, ‘baguette’, ‘ipred’, ‘dbarts’, ‘lightgbm’, ‘bonsai’, ‘mboost’, ‘mda’, ‘sda’, ‘sparsediscrim’, ‘klaR’, ‘workflows’, ‘brulee’, ‘glmnet’, ‘rstan’, ‘rstanarm’, ‘naivebayes’, ‘plsmod’, ‘pscl’, ‘aorsf’, ‘randomForest’, ‘xrf’, ‘flexsurv’, ‘broom’ in Rd xrefs
installed size is  6.2Mb
  sub-directories of 1Mb or more:
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    libs   2.5Mb
Namespace in Imports field not imported from: ‘logger’
  All declared Imports should be used.
installed size is  5.0Mb
  sub-directories of 1Mb or more:
    R      3.4Mb
    data   1.5Mb
Undeclared package ‘pathfindR’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘testthat’ ‘usethis’ ‘utils’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘clusterProfiler’ ‘purrr’
  All declared Imports should be used.
Error(s) in re-building vignettes:
--- re-building ‘addCohortIntersections.Rmd’ using rmarkdown

Quitting from lines 71-81 [unnamed-chunk-4] (addCohortIntersections.Rmd)
Error: processing vignette 'addCohortIntersections.Rmd' failed with diagnostics:
No known SQL translation
--- failed re-building ‘addCohortIntersections.Rmd’

Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
Warning: Database is garbage-collected, use dbDisconnect(con, shutdown=TRUE) or duckdb::duckdb_shutdown(drv) to avoid this.
--- re-building ‘addPatientCharacteristics.rmd’ using rmarkdown

Quitting from lines 144-157 [unnamed-chunk-5] (addPatientCharacteristics.rmd)
Error: processing vignette 'addPatientCharacteristics.rmd' failed with diagnostics:
No known SQL translation
--- failed re-building ‘addPatientCharacteristics.rmd’

Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
Warning: Database is garbage-collected, use dbDisconnect(con, shutdown=TRUE) or duckdb::duckdb_shutdown(drv) to avoid this.
SUMMARY: processing the following files failed:
  ‘addCohortIntersections.Rmd’ ‘addPatientCharacteristics.rmd’

Error: Vignette re-building failed.
Execution halted
installed size is  5.6Mb
  sub-directories of 1Mb or more:
    doc   5.2Mb
installed size is  9.4Mb
  sub-directories of 1Mb or more:
    R      6.7Mb
    help   2.5Mb
installed size is  6.5Mb
  sub-directories of 1Mb or more:
    R      3.0Mb
    help   3.3Mb
installed size is  5.3Mb
  sub-directories of 1Mb or more:
    R      2.5Mb
    help   2.6Mb
installed size is  6.2Mb
  sub-directories of 1Mb or more:
    R      2.5Mb
    help   3.5Mb
installed size is  6.4Mb
  sub-directories of 1Mb or more:
    R      2.8Mb
    help   3.4Mb
Namespace in Imports field not imported from: ‘ade4’
  All declared Imports should be used.
File ‘pbivnorm/libs/pbivnorm.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  5.6Mb
  sub-directories of 1Mb or more:
    data   2.7Mb
    doc    1.1Mb
installed size is  5.4Mb
  sub-directories of 1Mb or more:
    doc        1.4Mb
    examples   1.7Mb
Namespaces in Imports field not imported from:
  ‘Matrix’ ‘pander’
  All declared Imports should be used.
Undeclared packages ‘tibble’, ‘data.table’ in Rd xrefs
installed size is  5.5Mb
  sub-directories of 1Mb or more:
    data   2.2Mb
Undeclared packages ‘combinat’, ‘unifDAG’ in Rd xrefs
Namespace in Imports field not imported from: ‘fda’
  All declared Imports should be used.
installed size is 15.3Mb
  sub-directories of 1Mb or more:
    doc    2.9Mb
    libs  11.6Mb
installed size is  5.0Mb
  sub-directories of 1Mb or more:
    doc   4.9Mb
File ‘pdc/libs/pdc.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Undeclared packages ‘sm’, ‘spdep’ in Rd xrefs
File ‘pdist/libs/pdist.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘ncvreg’
  All declared Imports should be used.
File ‘PDSCE/libs/PDSCE.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Package required but not available: ‘frailtypack’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
installed size is  6.0Mb
  sub-directories of 1Mb or more:
    doc    4.0Mb
    libs   1.7Mb
installed size is 12.8Mb
  sub-directories of 1Mb or more:
    libs  11.8Mb
File ‘PenCoxFrail/libs/PenCoxFrail.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
File ‘penMSM/libs/penMSM.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘fixest’
  All declared Imports should be used.
installed size is  5.4Mb
  sub-directories of 1Mb or more:
    libs   4.2Mb
Undeclared packages ‘Synth’, ‘osqp’ in Rd xrefs
File ‘PerfMeas/libs/PerfMeas.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Undeclared packages ‘timeSeries’, ‘tseries’, ‘car’, ‘gplots’ in Rd xrefs
Namespace in Imports field not imported from: ‘rms’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘MASS’ ‘Rdpack’ ‘mclust’
  All declared Imports should be used.
File ‘pgee.mixed/libs/pgee.mixed.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Undeclared packages ‘classInt’, ‘agricolae’, ‘plotrix’, ‘AICcmodavg’ in Rd xrefs
File ‘ph2bye/libs/ph2bye.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Undeclared package ‘phase1RMD’ in Rd xrefs
Undeclared package ‘aricode’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘C50’ ‘HDclassif’ ‘MASS’ ‘MLmetrics’ ‘Matrix’ ‘adabag’ ‘base’
  ‘caTools’ ‘e1071’ ‘earth’ ‘evtree’ ‘frbs’ ‘glmnet’ ‘hda’ ‘ipred’
  ‘kernlab’ ‘kknn’ ‘klaR’ ‘mda’ ‘nnet’ ‘party’ ‘pls’ ‘randomForest’
  ‘rpartScore’ ‘sparseLDA’ ‘themis’
  All declared Imports should be used.
installed size is  5.1Mb
  sub-directories of 1Mb or more:
    doc       1.5Mb
    extdata   3.2Mb
installed size is  7.3Mb
  sub-directories of 1Mb or more:
    doc   6.1Mb
Namespaces in Imports field not imported from:
  ‘tidyverse’ ‘usethis’
  All declared Imports should be used.
Error(s) in re-building vignettes:
--- re-building ‘PhyloTree_vignette_1.Rmd’ using rmarkdown
--- finished re-building ‘PhyloTree_vignette_1.Rmd’

--- re-building ‘PhyloTree_vignette_2.Rmd’ using rmarkdown

Quitting from lines 149-159 [unnamed-chunk-10] (PhyloTree_vignette_2.Rmd)
Error: processing vignette 'PhyloTree_vignette_2.Rmd' failed with diagnostics:
DNA sequences in list not of the same length.
--- failed re-building ‘PhyloTree_vignette_2.Rmd’

SUMMARY: processing the following file failed:
  ‘PhyloTree_vignette_2.Rmd’

Error: Vignette re-building failed.
Execution halted
Undeclared packages ‘future’, ‘geiger’, ‘caper’ in Rd xrefs
Undeclared package ‘picante’ in Rd xrefs
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    libs   4.5Mb
Undeclared package ‘network’ in Rd xrefs
Namespace in Imports field not imported from: ‘FrF2.catlg128’
  All declared Imports should be used.
Undeclared package ‘usethis’ in Rd xrefs
Namespace in Imports field not imported from: ‘BH’
  All declared Imports should be used.
installed size is  7.0Mb
  sub-directories of 1Mb or more:
    doc   5.9Mb
Namespaces in Imports field not imported from:
  ‘PlackettLuce’ ‘StatRank’ ‘pmr’ ‘prefmod’ ‘rankdist’
  All declared Imports should be used.
installed size is  5.7Mb
  sub-directories of 1Mb or more:
    tests   3.2Mb
installed size is  6.0Mb
  sub-directories of 1Mb or more:
    data   1.4Mb
    doc    2.1Mb
Namespaces in Imports field not imported from:
  ‘hexbin’ ‘quantreg’
  All declared Imports should be used.
installed size is  7.2Mb
  sub-directories of 1Mb or more:
    R             1.0Mb
    htmlwidgets   4.0Mb
Namespace in Imports field not imported from: ‘ssh’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘base’ ‘grDevices’
  All declared Imports should be used.
Package suggested but not available for checking: ‘MSnbase’
Undeclared package ‘DiagrammeR’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘car’ ‘lubridate’
  All declared Imports should be used.
Running examples in ‘poissonMT-Ex.R’ failed
The error most likely occurred in:

> ### 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
Undeclared package ‘flexmix’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘MASS’ ‘car’ ‘formula.tools’ ‘ggplot2’ ‘gplots’ ‘graphics’ ‘purrr’
  ‘rstatix’ ‘stringr’ ‘tidyverse’
  All declared Imports should be used.
Note: found 805 marked Latin-1 strings
  Note: found 12681 marked UTF-8 strings
Undeclared package ‘modelObj’ in Rd xrefs
installed size is 11.8Mb
  sub-directories of 1Mb or more:
    R      6.3Mb
    data   4.3Mb
installed size is  5.1Mb
  sub-directories of 1Mb or more:
    data   2.6Mb
    doc    1.8Mb
Undeclared packages ‘polymapR’, ‘BSgenome’ in Rd xrefs
installed size is  7.0Mb
  sub-directories of 1Mb or more:
    data      2.7Mb
    extdata   3.6Mb
installed size is  5.4Mb
  sub-directories of 1Mb or more:
    doc   4.9Mb
File ‘population/libs/population.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Undeclared packages ‘fracdiff’, ‘fGarch’, ‘tseries’ in Rd xrefs
installed size is  5.6Mb
  sub-directories of 1Mb or more:
    libs   4.4Mb
installed size is  6.7Mb
  sub-directories of 1Mb or more:
    doc   6.2Mb
installed size is 12.1Mb
  sub-directories of 1Mb or more:
    doc  12.0Mb
installed size is 11.0Mb
  sub-directories of 1Mb or more:
    doc  10.5Mb
Namespaces in Imports field not imported from:
  ‘rpart’ ‘withr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘dplyr’ ‘methods’ ‘numDeriv’ ‘tidyr’
  All declared Imports should be used.
File ‘prclust/libs/prclust.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘class’ ‘forcats’ ‘irr’ ‘lpSolve’ ‘purrr’
  All declared Imports should be used.
installed size is 13.4Mb
  sub-directories of 1Mb or more:
    data      1.1Mb
    extdata  11.6Mb
Namespace in Imports field not imported from: ‘lazyeval’
  All declared Imports should be used.
installed size is  5.0Mb
  sub-directories of 1Mb or more:
    R   3.6Mb
Namespace in Imports field not imported from: ‘rpart’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘datasets’ ‘dplyr’ ‘psycho’ ‘shiny’
  All declared Imports should be used.
installed size is 10.0Mb
  sub-directories of 1Mb or more:
    extdata   9.7Mb
installed size is  5.6Mb
  sub-directories of 1Mb or more:
    shinyApp   5.4Mb
File ‘PRIMAL/libs/PRIMAL.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘tidyr’ ‘utils’
  All declared Imports should be used.
Packages suggested but not available for checking:
  'gurobi', 'Rcplex', 'rcbc'
installed size is  5.3Mb
  sub-directories of 1Mb or more:
    doc   3.6Mb
installed size is  8.8Mb
  sub-directories of 1Mb or more:
    R     1.3Mb
    doc   4.7Mb
Namespaces in Imports field not imported from:
  ‘LaplacesDemon’ ‘epitools’ ‘rpivotTable’ ‘shiny’ ‘shinyMatrix’
  All declared Imports should be used.
installed size is 11.6Mb
  sub-directories of 1Mb or more:
    doc           8.8Mb
    htmlwidgets   2.6Mb
installed size is 10.7Mb
  sub-directories of 1Mb or more:
    libs  10.2Mb
installed size is  9.9Mb
  sub-directories of 1Mb or more:
    libs   9.7Mb
Namespaces in Imports field not imported from:
  ‘StanHeaders’ ‘methods’ ‘rstantools’
  All declared Imports should be used.
Note: found 21 marked Latin-1 strings
  Note: found 150 marked UTF-8 strings
Namespaces in Imports field not imported from:
  ‘RColorBrewer’ ‘grDevices’
  All declared Imports should be used.
Undeclared package ‘RProtoBuf’ in Rd xrefs
File ‘prototest/libs/prototest.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is 19.2Mb
  sub-directories of 1Mb or more:
    libs  18.9Mb
File ‘pRSR/libs/pRSR.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Installation failed.
See ‘/data/gannet/ripley/R/packages/tests-clang/PRTree.Rcheck/00install.out’ for details.
installed size is  6.3Mb
  sub-directories of 1Mb or more:
    doc   5.6Mb
installed size is 12.2Mb
  sub-directories of 1Mb or more:
    libs  11.7Mb
Namespaces in Imports field not imported from:
  ‘devtools’ ‘qpdf’
  All declared Imports should be used.
File ‘pspearman/libs/pspearman.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Undeclared package ‘entropy’ in Rd xrefs
Running examples in ‘psychonetrics-Ex.R’ failed
The error most likely occurred in:

> ### Name: CIplot
> ### Title: Plot Analytic Confidence Intervals
> ### Aliases: CIplot
> 
> ### ** Examples
> 
> ### Example from ?ggm ###
> # Load bfi data from psych package:
> library("psychTools")
> data(bfi)
> 
> # Also load dplyr for the pipe operator:
> library("dplyr")

Attaching package: ‘dplyr’

The following object is masked from ‘package:psychTools’:

    recode

The following objects are masked from ‘package:stats’:

    filter, lag

The following objects are masked from ‘package:base’:

    intersect, setdiff, setequal, union

> 
> # Let's take the agreeableness items, and gender:
> ConsData <- bfi %>% 
+   select(A1:A5, gender) %>% 
+   na.omit # Let's remove missingness (otherwise use Estimator = "FIML)
> 
> # Define variables:
> vars <- names(ConsData)[1:5]
> 
> # Let's fit an empty GGM:
> mod0 <- ggm(ConsData, vars = vars)
Error in .nextMethod(.Object = .Object, ... = ...) : 
  cannot use object of class “matrix” in new():  class “corMatrix” does not extend that class
Calls: ggm ... initialize -> initialize -> callNextMethod -> .nextMethod
Execution halted
Namespaces in Imports field not imported from:
  ‘lifecycle’ ‘patchwork’
  All declared Imports should be used.
File ‘ptest/libs/ptest.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
File ‘ptinpoly/libs/ptinpoly.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  7.9Mb
  sub-directories of 1Mb or more:
    doc        4.0Mb
    examples   2.6Mb
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    data   5.0Mb
Namespaces in Imports field not imported from:
  ‘itsadug’ ‘mgcv’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘kableExtra’ ‘readr’ ‘tidyverse’
  All declared Imports should be used.
File ‘PWEALL/libs/PWEALL.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘progressr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘Rcpp’ ‘RcppEigen’
  All declared Imports should be used.
installed size is  7.3Mb
  sub-directories of 1Mb or more:
    data   7.2Mb
installed size is  5.8Mb
  sub-directories of 1Mb or more:
    gui          1.7Mb
    staticdocs   3.3Mb
installed size is  5.9Mb
  sub-directories of 1Mb or more:
    doc   5.2Mb
installed size is  6.8Mb
  sub-directories of 1Mb or more:
    libs   6.0Mb
Namespaces in Imports field not imported from:
  ‘rmarkdown’ ‘stats’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘missMethods’
  All declared Imports should be used.
installed size is  5.0Mb
  sub-directories of 1Mb or more:
    data   3.7Mb
Package suggested but not available for checking: ‘opencv’
File ‘qrencoder/libs/qrencoder.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is 11.0Mb
  sub-directories of 1Mb or more:
    data  10.8Mb
installed size is 12.7Mb
  sub-directories of 1Mb or more:
    data  12.6Mb
installed size is  6.4Mb
  sub-directories of 1Mb or more:
    extdata   3.3Mb
    libs      1.7Mb
installed size is 10.6Mb
  sub-directories of 1Mb or more:
    R         1.7Mb
    contrib   3.8Mb
    doc       3.0Mb
Namespace in Imports field not imported from: ‘MatrixModels’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘SparseM’
  All declared Imports should be used.
Undeclared package ‘PredictABEL’ in Rd xrefs
installed size is  5.3Mb
  sub-directories of 1Mb or more:
    doc         2.1Mb
    shiny_app   1.2Mb
Undeclared packages ‘Hmisc’, ‘htmlTable’ in Rd xrefs
Undeclared package ‘epitools’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘pracma’ ‘zoo’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘quickcode’ ‘stats’ ‘utils’
  All declared Imports should be used.
Note: found 6 marked Latin-1 strings
  Note: found 347 marked UTF-8 strings
Namespaces in Imports field not imported from:
  ‘shiny’ ‘utils’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘data.table’ ‘dplyr’ ‘lmerTest’
  All declared Imports should be used.
installed size is  5.1Mb
  sub-directories of 1Mb or more:
    java   5.0Mb
installed size is 11.6Mb
  sub-directories of 1Mb or more:
    doc   9.9Mb
installed size is  7.4Mb
  sub-directories of 1Mb or more:
    doc           5.3Mb
    htmlwidgets   1.8Mb
installed size is  5.4Mb
  sub-directories of 1Mb or more:
    libs   4.6Mb
Error(s) in re-building vignettes:
--- re-building ‘RAbHIT-vignette.Rmd’ using rmarkdown

Quitting from lines 199-201 [unnamed-chunk-8] (RAbHIT-vignette.Rmd)
Error: processing vignette 'RAbHIT-vignette.Rmd' failed with diagnostics:
subscript out of bounds
--- failed re-building ‘RAbHIT-vignette.Rmd’

SUMMARY: processing the following file failed:
  ‘RAbHIT-vignette.Rmd’

Error: Vignette re-building failed.
Execution halted
Namespaces in Imports field not imported from:
  ‘asd’ ‘cubature’ ‘data.table’ ‘ggplot2’ ‘multxpert’ ‘survival’
  All declared Imports should be used.
installed size is  9.7Mb
  sub-directories of 1Mb or more:
    data   2.0Mb
    doc    6.7Mb
Namespace in Imports field not imported from: ‘comat’
  All declared Imports should be used.
installed size is 10.8Mb
  sub-directories of 1Mb or more:
    doc           5.3Mb
    htmlwidgets   1.8Mb
    libs          1.5Mb
installed size is  5.7Mb
  sub-directories of 1Mb or more:
    doc   5.5Mb
Namespaces in Imports field not imported from:
  ‘Hmisc’ ‘car’ ‘dplyr’ ‘grid’ ‘gridExtra’ ‘knitr’ ‘lmerTest’ ‘tidyr’
  All declared Imports should be used.
Imports includes 30 non-default packages.
Importing from so many packages makes the package vulnerable to any of
them becoming unavailable.  Move as many as possible to Suggests and
use conditionally.
installed size is  5.1Mb
  sub-directories of 1Mb or more:
    doc   4.9Mb
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    data      2.2Mb
    extdata   1.4Mb
installed size is 11.5Mb
  sub-directories of 1Mb or more:
    htmlwidgets       10.0Mb
    super-tiny-icons   1.0Mb
installed size is 12.2Mb
  sub-directories of 1Mb or more:
    api           3.2Mb
    htmlwidgets   7.2Mb
File ‘RANKS/libs/RANKS.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  7.4Mb
  sub-directories of 1Mb or more:
    doc       1.7Mb
    extdata   4.2Mb
Undeclared package ‘exactci’ in Rd xrefs
installed size is  6.1Mb
  sub-directories of 1Mb or more:
    libs   5.3Mb
installed size is  9.5Mb
  sub-directories of 1Mb or more:
    data   4.5Mb
    etc    1.9Mb
    po     1.2Mb
installed size is  5.6Mb
  sub-directories of 1Mb or more:
    data   3.9Mb
Namespace in Imports field not imported from: ‘withr’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘rex’
  All declared Imports should be used.
Undeclared packages ‘MCMCpack’, ‘gtools’ in Rd xrefs
File ‘rBeta2009/libs/rBeta2009.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  5.9Mb
  sub-directories of 1Mb or more:
    libs   5.3Mb
installed size is  8.5Mb
  sub-directories of 1Mb or more:
    blp   7.1Mb
installed size is  6.4Mb
  sub-directories of 1Mb or more:
    libs   5.6Mb
Namespaces in Imports field not imported from:
  ‘RcppParallel’ ‘rstantools’ ‘shinythemes’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘rlemon’
  All declared Imports should be used.
installed size is 20.2Mb
  sub-directories of 1Mb or more:
    cont  20.1Mb
Undeclared packages ‘BsMD’, ‘rsm’, ‘AlgDesign’, ‘lhs’ in Rd xrefs
installed size is  8.0Mb
  sub-directories of 1Mb or more:
    R     1.2Mb
    doc   3.5Mb
    po    2.5Mb
Undeclared package ‘remotes’ in Rd xrefs
Undeclared packages ‘nominatimlite’, ‘lutz’ in Rd xrefs
installed size is  7.8Mb
  sub-directories of 1Mb or more:
    corpora   7.6Mb
installed size is  7.6Mb
  sub-directories of 1Mb or more:
    include   6.5Mb
installed size is 46.8Mb
  sub-directories of 1Mb or more:
    include  46.6Mb
Undeclared package ‘RcppExamples’ in Rd xrefs
installed size is 10.8Mb
  sub-directories of 1Mb or more:
    include   9.8Mb
installed size is  7.7Mb
  sub-directories of 1Mb or more:
    include   7.0Mb
installed size is 10.2Mb
  sub-directories of 1Mb or more:
    doc        1.1Mb
    include    6.4Mb
    tinytest   1.0Mb
Registration problem:
  symbol ‘symbol’ in the local frame:
   .Call(symbol)
See chapter ‘System and foreign language interfaces’ in the ‘Writing R
Extensions’ manual.
installed size is  7.8Mb
  sub-directories of 1Mb or more:
    include        2.0Mb
    jsonexamples   3.8Mb
    libs           1.7Mb
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    data   1.7Mb
    libs   1.6Mb
installed size is  6.5Mb
  sub-directories of 1Mb or more:
    R      3.8Mb
    data   1.5Mb
Undeclared packages ‘readMzXmlData’, ‘MALDIquantForeign’ in Rd xrefs
Undeclared package ‘MALDIquantForeign’ in Rd xrefs
Undeclared packages ‘writexl’, ‘openxlsx’ in Rd xrefs
Undeclared packages ‘tidyselect’, ‘vctrs’ in Rd xrefs
Note: found 1 marked Latin-1 string
  Note: found 1 marked UTF-8 string
  Note: found 7 strings marked as "bytes"
Undeclared package ‘rebus.unicode’ in Rd xrefs
Running ‘testthat.R’
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(receptiviti)
  > 
  > test_check("receptiviti")
  Status: ERROR
  Message: URL is unreachable
  [ FAIL 1 | WARN 0 | SKIP 2 | PASS 16 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • no API key (2): 'test-receptiviti.R:31:1', 'test-receptiviti_status.R:17:1'
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-receptiviti_status.R:6:3'): failures works ───────────────────
  ...[] (`actual`) not identical to "Message: 404" (`expected`).
  
  `actual`:   "Message: 500"
  `expected`: "Message: 404"
  
  [ FAIL 1 | WARN 0 | SKIP 2 | PASS 16 ]
  Error: Test failures
  Execution halted
Undeclared packages ‘fastICA’, ‘dimRed’ in Rd xrefs
installed size is 10.4Mb
  sub-directories of 1Mb or more:
    htmlwidgets   9.9Mb
installed size is  9.1Mb
  sub-directories of 1Mb or more:
    data   9.0Mb
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    data   1.2Mb
    libs   1.3Mb
Namespaces in Imports field not imported from:
  ‘SemiPar’ ‘caret’ ‘dplyr’ ‘scales’
  All declared Imports should be used.
Note: found 2 marked Latin-1 strings
  Note: found 50022 marked UTF-8 strings
Undeclared package ‘monomvn’ in Rd xrefs
Namespace in Imports field not imported from: ‘Deriv’
  All declared Imports should be used.
installed size is  7.1Mb
  sub-directories of 1Mb or more:
    include   6.4Mb
Undeclared packages ‘gbm’, ‘randomForest’ in Rd xrefs
Package which this enhances but not available for checking: ‘Rcplex’
File ‘remote/libs/remote.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
File ‘repolr/libs/repolr.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Undeclared package ‘wesanderson’ in Rd xrefs
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    extdata   1.3Mb
    java      2.9Mb
Package suggested but not available for checking: ‘ccdata’
installed size is  5.7Mb
  sub-directories of 1Mb or more:
    doc        1.1Mb
    examples   1.9Mb
installed size is  5.6Mb
  sub-directories of 1Mb or more:
    libs   4.2Mb
installed size is 13.4Mb
  sub-directories of 1Mb or more:
    data  13.3Mb
Namespaces in Imports field not imported from:
  ‘RFlocalfdr.data’ ‘vita’
  All declared Imports should be used.
installed size is  5.4Mb
  sub-directories of 1Mb or more:
    data      1.9Mb
    doc       1.2Mb
    extdata   1.9Mb
installed size is  8.4Mb
  sub-directories of 1Mb or more:
    doc   7.0Mb
Undeclared package ‘Matching’ in Rd xrefs
Namespace in Imports field not imported from: ‘hoardr’
  All declared Imports should be used.
Undeclared packages ‘lpSolve’, ‘ROI’, ‘Rsymphony’ in Rd xrefs
installed size is  8.3Mb
  sub-directories of 1Mb or more:
    doc     3.0Mb
    fonts   1.5Mb
installed size is  5.0Mb
  sub-directories of 1Mb or more:
    libs   4.8Mb
Namespaces in Imports field not imported from:
  ‘attempt’ ‘curl’ ‘knitr’
  All declared Imports should be used.
installed size is 11.7Mb
  sub-directories of 1Mb or more:
    doc          10.3Mb
    htmlwidgets   1.3Mb
Undeclared packages ‘tseries’, ‘TSA’ in Rd xrefs
File ‘RI2by2/libs/RI2by2.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
File ‘rIsing/libs/rIsing.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Undeclared package ‘utility’ in Rd xrefs
Note: information on .o files is not available
File ‘/data/gannet/ripley/R/packages/tests-clang/rJava.Rcheck/rJava/libs/rJava.so’:
  Found ‘_exit’, possibly from ‘_exit’ (C)
  Found ‘stderr’, possibly from ‘stderr’ (C)
  Found ‘stdout’, possibly from ‘stdout’ (C)
File ‘rJava/libs/rJava.so’:
  Found non-API calls to R: ‘R_CStackLimit’, ‘R_CStackStart’

Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor use Fortran I/O
nor system RNGs nor [v]sprintf. The detected symbols are linked into
the code but might come from libraries and not actually be called.
Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  5.1Mb
  sub-directories of 1Mb or more:
    java   4.2Mb
Namespace in Imports field not imported from: ‘coda’
  All declared Imports should be used.
installed size is  6.5Mb
  sub-directories of 1Mb or more:
    include   3.2Mb
    libs      2.5Mb
installed size is 12.2Mb
  sub-directories of 1Mb or more:
    java  12.0Mb
installed size is 10.9Mb
  sub-directories of 1Mb or more:
    java  10.8Mb
installed size is 10.3Mb
  sub-directories of 1Mb or more:
    datasets  10.2Mb
installed size is 28.3Mb
  sub-directories of 1Mb or more:
    R     4.0Mb
    exe  23.8Mb
Namespaces in Imports field not imported from:
  ‘Matrix’ ‘arules’ ‘pmml’ ‘rJava’
  All declared Imports should be used.
installed size is 24.8Mb
  sub-directories of 1Mb or more:
    extdata  24.0Mb
File ‘rkvo/libs/rkvo.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  5.0Mb
  sub-directories of 1Mb or more:
    lemon   2.9Mb
    libs    1.9Mb
installed size is 10.4Mb
  sub-directories of 1Mb or more:
    libs   9.6Mb
installed size is 28.1Mb
  sub-directories of 1Mb or more:
    hdf5     11.8Mb
    include   6.4Mb
    lib       3.8Mb
    libs      5.6Mb
Undeclared package ‘viridisLite’ in Rd xrefs
File ‘Rlof/libs/Rlof.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  7.3Mb
  sub-directories of 1Mb or more:
    rmd   6.2Mb
installed size is 12.0Mb
  sub-directories of 1Mb or more:
    libs  11.6Mb
installed size is  6.0Mb
  sub-directories of 1Mb or more:
    minizinc   3.4Mb
File ‘RMKdiscrete/libs/RMKdiscrete.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Undeclared package ‘coda’ in Rd xrefs
Package unavailable to check Rd xrefs: ‘cmdstanr’
Undeclared package ‘fortunes’ in Rd xrefs
Namespace in Imports field not imported from: ‘quadprog’
  All declared Imports should be used.
Found the following significant warnings:
  /usr/include/features.h:412:4: warning: _FORTIFY_SOURCE requires compiling with optimization (-O) [-W#warnings]
See ‘/data/gannet/ripley/R/packages/tests-clang/rmumps.Rcheck/00install.out’ for details.
* used C compiler: ‘clang version 18.1.1’
* used C++ compiler: ‘clang version 18.1.1’
installed size is  5.8Mb
  sub-directories of 1Mb or more:
    data   3.4Mb
    doc    2.2Mb
installed size is 12.2Mb
  sub-directories of 1Mb or more:
    java  12.1Mb
Undeclared packages ‘fossil’, ‘raster’ in Rd xrefs
Namespace in Imports field not imported from: ‘qtl’
  All declared Imports should be used.
File ‘rnetcarto/libs/rnetcarto.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
File ‘rngSetSeed/libs/rngSetSeed.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  5.5Mb
  sub-directories of 1Mb or more:
    extdata   2.0Mb
    libs      3.3Mb
Namespace in Imports field not imported from: ‘impute’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘attention’
  All declared Imports should be used.
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    data   2.9Mb
    doc    1.7Mb
installed size is 11.4Mb
  sub-directories of 1Mb or more:
    R  11.2Mb
Running examples in ‘robcbi-Ex.R’ failed
The error most likely occurred in:

> ### Name: QQline
> ### Title: Add a theoretical QQ-line in a plot
> ### Aliases: QQline
> ### Keywords: stats
> 
> ### ** Examples
> 
> library(robcbi)
> data(Finney)
> Vol  <- Finney$Vol; Rate <- Finney$Rate; Resp <- Finney$Resp
> lVol <-log(Vol); lRate <- log(Rate)
> z.cub <- glm(Resp~lVol+lRate,family=binomial,method="cubinf", ufact=3.2)
Namespace in Imports field not imported from: ‘memoise’
  All declared Imports should be used.
Undeclared package ‘distrEx’ in Rd xrefs
Undeclared package ‘ROptEst’ in Rd xrefs
Undeclared packages ‘bridgesampling’, ‘rstan’, ‘extraDistr’ in Rd xrefs
Namespace in Imports field not imported from: ‘future’
  All declared Imports should be used.
installed size is  7.2Mb
  sub-directories of 1Mb or more:
    libs   6.5Mb
File ‘robustETM/libs/robustETM.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is 17.5Mb
  sub-directories of 1Mb or more:
    doc  15.2Mb
installed size is  6.0Mb
  sub-directories of 1Mb or more:
    R         3.2Mb
    extdata   2.7Mb
installed size is  5.9Mb
  sub-directories of 1Mb or more:
    R      2.0Mb
    data   2.7Mb
Namespace in Imports field not imported from: ‘geometry’
  All declared Imports should be used.
installed size is  6.5Mb
  sub-directories of 1Mb or more:
    R      4.2Mb
    libs   1.1Mb
installed size is  5.4Mb
  sub-directories of 1Mb or more:
    extdata   4.6Mb
Namespaces in Imports field not imported from:
  ‘SparseM’ ‘nlme’ ‘timeDate’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘ROCit’ ‘corrplot’ ‘kableExtra’ ‘purrr’ ‘reshape2’
  All declared Imports should be used.
Undeclared package ‘scalreg’ in Rd xrefs
Namespace in Imports field not imported from: ‘NatureSounds’
  All declared Imports should be used.
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    doc   4.2Mb
File ‘rsdepth/libs/rsdepth.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘keys’ ‘shinyWidgets’ ‘testthat’
  All declared Imports should be used.
Note: information on .o files is not available
File ‘/data/gannet/ripley/R/packages/tests-clang/Rserve.Rcheck/Rserve/libs/Rserve.so’:
  Found ‘exit’, possibly from ‘exit’ (C)
  Found ‘rand’, possibly from ‘rand’ (C)
  Found ‘random’, possibly from ‘random’ (C)
  Found ‘srandom’, possibly from ‘srandom’ (C)
  Found ‘stderr’, possibly from ‘stderr’ (C)
File ‘Rserve/libs/Rserve.so’:
  Found non-API calls to R: ‘R_Consolefile’, ‘R_InputHandlers’,
    ‘R_Outputfile’, ‘R_TempDir’, ‘R_Visible’, ‘addInputHandler’,
    ‘ptr_R_Busy’, ‘ptr_R_ClearerrConsole’, ‘ptr_R_FlushConsole’,
    ‘ptr_R_ReadConsole’, ‘ptr_R_ResetConsole’, ‘ptr_R_ShowMessage’,
    ‘ptr_R_WriteConsole’, ‘ptr_R_WriteConsoleEx’
File ‘Rserve/libs/Rserve.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor use Fortran I/O
nor system RNGs nor [v]sprintf. The detected symbols are linked into
the code but might come from libraries and not actually be called.
Compiled code should not call non-API entry points in R.
It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  7.7Mb
  sub-directories of 1Mb or more:
    libs   6.9Mb
File ‘RSKC/libs/RSKC.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘h2o’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘MatrixExtra’
  All declared Imports should be used.
installed size is 27.8Mb
  sub-directories of 1Mb or more:
    R      1.8Mb
    doc    4.8Mb
    libs  20.4Mb
installed size is  6.5Mb
  sub-directories of 1Mb or more:
    exec   1.7Mb
    lib    2.2Mb
Undeclared package ‘rstanarm’ in Rd xrefs
installed size is 18.1Mb
  sub-directories of 1Mb or more:
    libs   2.2Mb
Namespace in Imports field not imported from: ‘mc2d’
  All declared Imports should be used.
installed size is 17.6Mb
  sub-directories of 1Mb or more:
    swipl  17.3Mb
Undeclared packages ‘lpSolve’, ‘Rglpk’ in Rd xrefs
installed size is  5.4Mb
  sub-directories of 1Mb or more:
    R      1.4Mb
    doc    1.4Mb
    help   2.4Mb
File ‘RTextTools/libs/RTextTools.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘httr’ ‘logger’
  All declared Imports should be used.
installed size is 12.1Mb
  sub-directories of 1Mb or more:
    rmarkdown  11.7Mb
Namespaces in Imports field not imported from:
  ‘DescTools’ ‘MASS’ ‘gridExtra’
  All declared Imports should be used.
installed size is 11.8Mb
  sub-directories of 1Mb or more:
    libs  10.1Mb
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    R   5.0Mb
installed size is 11.5Mb
  sub-directories of 1Mb or more:
    doc    7.9Mb
    libs   2.8Mb
Note: found 2023 marked Latin-1 strings
  Note: found 17 marked UTF-8 strings
installed size is 16.4Mb
  sub-directories of 1Mb or more:
    data   1.5Mb
    libs  14.0Mb
Undeclared package ‘glmmrBase’ in Rd xrefs
installed size is  7.5Mb
  sub-directories of 1Mb or more:
    R      3.0Mb
    libs   2.1Mb
installed size is  5.3Mb
  sub-directories of 1Mb or more:
    doc   4.7Mb
Namespace in Imports field not imported from: ‘XML’
  All declared Imports should be used.
installed size is  5.3Mb
  sub-directories of 1Mb or more:
    include   5.3Mb
installed size is 10.4Mb
  sub-directories of 1Mb or more:
    include   5.0Mb
    libs      5.0Mb
installed size is 10.8Mb
  sub-directories of 1Mb or more:
    java  10.7Mb
File ‘rwfec/libs/rwfec.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  6.3Mb
  sub-directories of 1Mb or more:
    data   2.1Mb
    doc    3.9Mb
installed size is  5.1Mb
  sub-directories of 1Mb or more:
    data   5.0Mb
as.data.frame.rxEvid: no visible global function definition for ‘is’
as.data.frame.rxRateDur: no visible global function definition for ‘is’
Undefined global functions or variables:
  is
Consider adding
  importFrom("methods", "is")
to your NAMESPACE file (and ensure that your DESCRIPTION Imports field
contains 'methods').
installed size is  6.2Mb
  sub-directories of 1Mb or more:
    exdata   2.4Mb
    libs     1.9Mb
Namespaces in Imports field not imported from:
  ‘CARBayesdata’ ‘MASS’ ‘nimble’
  All declared Imports should be used.
installed size is  6.6Mb
  sub-directories of 1Mb or more:
    doc    2.3Mb
    help   3.4Mb
‘sandwich-CL.Rnw’... [22s/49s] NOTE
differences from ‘sandwich-CL.Rout.save’
82c82
< Classes and Methods for R originally developed in the
---
> Classes and Methods for R developed in the
85,87c85,87
< Stanford University (2002-2015),
< by and under the direction of Simon Jackman.
< hurdle and zeroinfl functions by Achim Zeileis.
---
> Stanford University
> Simon Jackman
> hurdle and zeroinfl functions by Achim Zeileis
  ‘sandwich-OOP.Rnw’... OK
  ‘sandwich.Rnw’... OK
Namespaces in Imports field not imported from:
  ‘httr’ ‘jsonlite’
  All declared Imports should be used.
installed size is  5.4Mb
  sub-directories of 1Mb or more:
    doc    1.7Mb
    libs   3.2Mb
installed size is  6.4Mb
  sub-directories of 1Mb or more:
    doc       5.1Mb
    extdata   1.2Mb
File ‘saturnin/libs/saturnin.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘crayon’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘network’
  All declared Imports should be used.
File ‘sBIC/libs/sBIC.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
File ‘sbmSDP/libs/sbmSDP.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Packages which this enhances but not available for checking:
  'gurobi', 'Rcplex', 'pogs'
Namespace in Imports field not imported from: ‘pvclust’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘R6’ ‘cowplot’ ‘ggplot2’ ‘ggridges’ ‘ggstance’ ‘jmvcore’
  All declared Imports should be used.
Packages suggested but not available for checking:
  'rrvgo', 'SingleCellSignalR'
Namespaces in Imports field not imported from:
  ‘devtools’ ‘mathjaxr’
  All declared Imports should be used.
File ‘SCEPtERbinary/libs/SCEPtERbinary.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
File ‘SCEPtER/libs/SCEPtER.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Packages suggested but not available for checking:
  'scRNAseq', 'sceasy', 'SeuratDisk', 'SeuratWrappers',
  'zellkonverter', 'GEOfastq'

Imports includes 22 non-default packages.
Importing from so many packages makes the package vulnerable to any of
them becoming unavailable.  Move as many as possible to Suggests and
use conditionally.
installed size is  5.4Mb
  sub-directories of 1Mb or more:
    doc   4.4Mb
Running examples in ‘SchoolDataIT-Ex.R’ failed
The error most likely occurred in:

> ### Name: Get_nteachers_prov
> ### Title: Download the number of teachers in Italian schools by province
> ### Aliases: Get_nteachers_prov
> 
> ### ** Examples
> 
> 
> 
> nteachers23 <- Get_nteachers_prov(2023, filename = "DOCTIT")
Error in open.connection(x, "rb") : 
  error:0A000152:SSL routines::unsafe legacy renegotiation disabled
Calls: Get_nteachers_prov -> <Anonymous> -> read_html.default
Execution halted
Namespaces in Imports field not imported from:
  ‘Matrix’ ‘pracma’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘RhpcBLASctl’
  All declared Imports should be used.
File ‘scout/libs/scout.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Package suggested but not available for checking: ‘decoupleR’
File ‘scquantum/libs/scquantum.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘BiocManager’ ‘crayon’ ‘knitr’ ‘methods’
  All declared Imports should be used.
Undeclared packages ‘janitor’, ‘unheadr’, ‘validate’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘methods’ ‘pbapply’ ‘utils’
  All declared Imports should be used.
Note: found 5 marked Latin-1 strings
  Note: found 51869 marked UTF-8 strings
installed size is  7.7Mb
  sub-directories of 1Mb or more:
    libs   5.8Mb
installed size is  8.5Mb
  sub-directories of 1Mb or more:
    R   7.8Mb
installed size is 19.2Mb
  sub-directories of 1Mb or more:
    extdata  18.1Mb
Undeclared package ‘subplex’ in Rd xrefs
Namespace in Imports field not imported from: ‘fansi’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘cowplot’ ‘testit’
  All declared Imports should be used.
Package suggested but not available for checking: ‘rsbml’
Undeclared packages ‘EDNE.EQ’, ‘T2EQ’ in Rd xrefs
File ‘segmag/libs/segmag.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Packages suggested but not available for checking:
  'flowMerge', 'flowClust', 'flowCore'
Packages unavailable to check Rd xrefs: ‘flowClust’, ‘flowMerge’
Namespaces in Imports field not imported from:
  ‘cluster’ ‘factoextra’ ‘tidyr’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘FD’
  All declared Imports should be used.
installed size is 34.6Mb
  sub-directories of 1Mb or more:
    www  34.5Mb
Namespaces in Imports field not imported from:
  ‘dplyr’ ‘lavaan’ ‘psych’ ‘semPlot’ ‘semTools’ ‘shinyAce’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘knitr’ ‘rmarkdown’ ‘webp’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘editData’ ‘miniUI’
  All declared Imports should be used.
Undeclared package ‘SemNetCleaner’ in Rd xrefs
File ‘semver/libs/semver.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Undeclared package ‘lexicon’ in Rd xrefs
installed size is  8.1Mb
  sub-directories of 1Mb or more:
    doc   6.4Mb
installed size is  5.5Mb
  sub-directories of 1Mb or more:
    data        1.5Mb
    sequences   1.9Mb
installed size is  8.5Mb
  sub-directories of 1Mb or more:
    doc    1.9Mb
    libs   5.6Mb
Undeclared packages ‘plotly’, ‘cli’ in Rd xrefs
Packages suggested but not available for checking:
  'BPCells', 'monocle', 'presto'

Imports includes 47 non-default packages.
Importing from so many packages makes the package vulnerable to any of
them becoming unavailable.  Move as many as possible to Suggests and
use conditionally.
installed size is  6.6Mb
  sub-directories of 1Mb or more:
    R     1.0Mb
    doc   4.9Mb
installed size is  5.9Mb
  sub-directories of 1Mb or more:
    doc   5.1Mb
installed size is  7.5Mb
  sub-directories of 1Mb or more:
    doc      1.7Mb
    libs     1.1Mb
    sqlite   1.5Mb
Undeclared packages ‘relevance’, ‘DescTools’ in Rd xrefs
Undeclared package ‘tripack’ in Rd xrefs
File ‘sgeostat/libs/sgeostat.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  6.9Mb
  sub-directories of 1Mb or more:
    data   6.7Mb
installed size is  6.5Mb
  sub-directories of 1Mb or more:
    R     1.3Mb
    doc   3.8Mb
Namespaces in Imports field not imported from:
  ‘MASS’ ‘kableExtra’ ‘tidyverse’
  All declared Imports should be used.
installed size is  6.4Mb
  sub-directories of 1Mb or more:
    doc       1.7Mb
    extdata   4.2Mb
installed size is  8.1Mb
  sub-directories of 1Mb or more:
    www   7.7Mb
installed size is  9.5Mb
  sub-directories of 1Mb or more:
    www   9.4Mb
installed size is 20.6Mb
  sub-directories of 1Mb or more:
    www  19.7Mb
installed size is  7.7Mb
  sub-directories of 1Mb or more:
    www   7.6Mb
Namespaces in Imports field not imported from:
  ‘DT’ ‘billboarder’ ‘glue’ ‘scrypt’ ‘yaml’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘reactable’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘KGode’ ‘XML’ ‘ggplot2’ ‘gridExtra’ ‘mvtnorm’ ‘reshape2’ ‘shinyjs’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘R6’ ‘scales’ ‘websocket’
  All declared Imports should be used.
installed size is 21.6Mb
  sub-directories of 1Mb or more:
    shinyApp  21.4Mb
Namespaces in Imports field not imported from:
  ‘shiny’ ‘shinyjs’
  All declared Imports should be used.
installed size is 12.3Mb
  sub-directories of 1Mb or more:
    R     1.4Mb
    www   9.5Mb
Namespaces in Imports field not imported from:
  ‘e1071’ ‘knitr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘R6’ ‘shiny’
  All declared Imports should be used.
Package suggested but not available for checking: ‘qlcMatrix’

Imports includes 26 non-default packages.
Importing from so many packages makes the package vulnerable to any of
them becoming unavailable.  Move as many as possible to Suggests and
use conditionally.
File ‘signal/libs/signal.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘KernSmooth’ ‘MASS’ ‘class’ ‘cluster’ ‘lattice’ ‘nnet’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘MASS’ ‘grid’
  All declared Imports should be used.
Undeclared packages ‘GenOrd’, ‘PoisNor’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘pedtools’ ‘readr’
  All declared Imports should be used.
installed size is 14.4Mb
  sub-directories of 1Mb or more:
    extdata  13.1Mb
Undeclared packages ‘BinNonNor’, ‘PoisNor’, ‘PoisBinOrdNor’, ‘PoisBinOrdNonNor’ in Rd xrefs
Namespace in Imports field not imported from: ‘DBI’
  All declared Imports should be used.
File ‘simplexreg/libs/simplexreg.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘metafor’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘crqa’ ‘plot3D’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘dplyr’ ‘magrittr’ ‘psych’ ‘stringr’
  All declared Imports should be used.
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    R   2.2Mb
Namespaces in Imports field not imported from:
  ‘data.table’ ‘dplyr’ ‘rmarkdown’ ‘yaml’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘dplyr’ ‘methods’
  All declared Imports should be used.
File ‘skm/libs/skm.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘maps’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘numDeriv’ ‘png’
  All declared Imports should be used.
installed size is  5.5Mb
  sub-directories of 1Mb or more:
    data   5.1Mb
installed size is  5.0Mb
  sub-directories of 1Mb or more:
    doc   3.7Mb
installed size is  5.1Mb
  sub-directories of 1Mb or more:
    doc   4.4Mb
installed size is  5.9Mb
  sub-directories of 1Mb or more:
    doc   4.5Mb
File ‘SLHD/libs/SLHD.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘checkmate’ ‘glmnet’ ‘mice’
  All declared Imports should be used.
File ‘slp/libs/slp.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Note: found 15 marked Latin-1 strings
  Note: found 2 marked UTF-8 strings
Undeclared packages ‘ggthemes’, ‘DataExplorer’ in Rd xrefs
Namespace in Imports field not imported from: ‘covr’
  All declared Imports should be used.
installed size is  5.5Mb
  sub-directories of 1Mb or more:
    data   4.4Mb
Namespaces in Imports field not imported from:
  ‘compiler’ ‘lmtest’
  All declared Imports should be used.
installed size is  5.9Mb
  sub-directories of 1Mb or more:
    R     1.2Mb
    doc   3.3Mb
Namespace in Imports field not imported from: ‘nlme’
  All declared Imports should be used.
There are ::: calls to the package's namespace in its code. A package
  almost never needs to use ::: for its own objects:
  ‘lseq’
Undeclared package ‘andrews’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘Rdpack’ ‘ggplot2’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘evd’ ‘truncnorm’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘FactoMineR’ ‘flextable’ ‘htmlTable’ ‘stringr’
  All declared Imports should be used.
Undeclared package ‘numbers’ in Rd xrefs
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    R     3.3Mb
    doc   1.1Mb
Namespaces in Imports field not imported from:
  ‘R6’ ‘lgr’
  All declared Imports should be used.
Undeclared package ‘stringr’ in Rd xrefs
Namespace in Imports field not imported from: ‘rlist’
  All declared Imports should be used.
File ‘som/libs/som.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘RSQLite’ ‘dbplyr’
  All declared Imports should be used.
File ‘SoundexBR/libs/SoundexBR.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  5.8Mb
  sub-directories of 1Mb or more:
    data   3.9Mb
    doc    1.0Mb
Namespace in Imports field not imported from: ‘RcppEigen’
  All declared Imports should be used.
Undeclared package ‘rebus.base’ in Rd xrefs
installed size is  6.7Mb
  sub-directories of 1Mb or more:
    R   4.9Mb
installed size is  5.1Mb
  sub-directories of 1Mb or more:
    R      2.7Mb
    libs   1.0Mb
installed size is  5.9Mb
  sub-directories of 1Mb or more:
    doc    1.6Mb
    libs   2.1Mb
File ‘sparcl/libs/sparcl.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  6.8Mb
  sub-directories of 1Mb or more:
    R      1.6Mb
    java   3.8Mb
Undeclared packages ‘splancs’, ‘spatstat.data’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘gtable’ ‘rlang’ ‘testthat’
  All declared Imports should be used.
Undeclared package ‘sparsebn’ in Rd xrefs
Unknown package ‘sparsebn’ in Rd xrefs
installed size is  5.8Mb
  sub-directories of 1Mb or more:
    libs   4.9Mb
File ‘sparseLTSEigen/libs/sparseLTSEigen.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘future’ ‘geosphere’ ‘lubridate’ ‘tidyverse’ ‘viridis’
  All declared Imports should be used.
File ‘sparsereg/libs/sparsereg.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
File ‘SparseTSCGM/libs/SparseTSCGM.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘irlba’ ‘knitr’ ‘rmarkdown’
  All declared Imports should be used.
installed size is  5.4Mb
  sub-directories of 1Mb or more:
    doc   4.7Mb
File ‘spcr/libs/spcr.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  6.5Mb
  sub-directories of 1Mb or more:
    data     2.5Mb
    shapes   3.2Mb
installed size is  5.7Mb
  sub-directories of 1Mb or more:
    data   4.1Mb
    help   1.6Mb
installed size is  8.2Mb
  sub-directories of 1Mb or more:
    doc   5.3Mb
    etc   1.4Mb
File ‘SPECIES/libs/SPECIES.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  6.1Mb
  sub-directories of 1Mb or more:
    doc   4.6Mb
Package suggested but not available for checking: ‘cooltools’

Imports includes 35 non-default packages.
Importing from so many packages makes the package vulnerable to any of
them becoming unavailable.  Move as many as possible to Suggests and
use conditionally.
Namespaces in Imports field not imported from:
  ‘glue’ ‘httptest’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘sf’ ‘spData’
  All declared Imports should be used.
Undeclared packages ‘reshape2’, ‘sampling’, ‘dplyr’ in Rd xrefs
Namespace in Imports field not imported from: ‘biomod2’
  All declared Imports should be used.
installed size is  6.0Mb
  sub-directories of 1Mb or more:
    doc       1.1Mb
    extdata   2.6Mb
Namespace in Imports field not imported from: ‘sampling’
  All declared Imports should be used.
Missing or unexported object: ‘BalancedSampling::lcubeflightphase’
Namespace in Imports field not imported from: ‘lwgeom’
  All declared Imports should be used.
Error(s) in re-building vignettes:
--- re-building ‘spq_userguide.Rmd’ using rmarkdown

Quitting from lines 500-501 [unnamed-chunk-24] (spq_userguide.Rmd)
Error: processing vignette 'spq_userguide.Rmd' failed with diagnostics:
Invalid index: field name 'x_start' not found
--- failed re-building ‘spq_userguide.Rmd’

SUMMARY: processing the following file failed:
  ‘spq_userguide.Rmd’

Error: Vignette re-building failed.
Execution halted
Namespaces in Imports field not imported from:
  ‘extrafont’ ‘ggplot2’
  All declared Imports should be used.
installed size is  7.1Mb
  sub-directories of 1Mb or more:
    doc   5.5Mb
installed size is  5.8Mb
  sub-directories of 1Mb or more:
    doc    1.5Mb
    libs   3.9Mb
Namespaces in Imports field not imported from:
  ‘DBI’ ‘RSQLite’ ‘dbplyr’ ‘dplyr’
  All declared Imports should be used.
installed size is  8.8Mb
  sub-directories of 1Mb or more:
    doc   8.2Mb
installed size is  5.8Mb
  sub-directories of 1Mb or more:
    shiny-squid   5.6Mb
Namespaces in Imports field not imported from:
  ‘arm’ ‘brms’ ‘lme4’ ‘plotly’ ‘shinyMatrix’
  All declared Imports should be used.
Undeclared packages ‘RColorBrewer’, ‘colorspace’ in Rd xrefs
installed size is  9.2Mb
  sub-directories of 1Mb or more:
    libs   8.7Mb
installed size is  5.0Mb
  sub-directories of 1Mb or more:
    doc       1.6Mb
    lsndata   2.4Mb
installed size is  5.0Mb
  sub-directories of 1Mb or more:
    extdata   4.2Mb
Namespaces in Imports field not imported from:
  ‘MASS’ ‘mice’ ‘sandwich’ ‘zoo’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘reshape2’ ‘stats’
  All declared Imports should be used.
installed size is 15.4Mb
  sub-directories of 1Mb or more:
    include  12.0Mb
    lib       1.4Mb
installed size is  7.6Mb
  sub-directories of 1Mb or more:
    libs   6.8Mb
Namespaces in Imports field not imported from:
  ‘RcppParallel’ ‘httr’ ‘latex2exp’ ‘rstantools’ ‘tibble’ ‘tidyverse’
  ‘utils’
  All declared Imports should be used.
File ‘starma/libs/starma.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  6.4Mb
  sub-directories of 1Mb or more:
    doc   2.4Mb
    nc    1.8Mb
Namespaces in Imports field not imported from:
  ‘Hmisc’ ‘corrgram’ ‘datasets’ ‘dplyr’ ‘psych’ ‘psycho’ ‘rpivotTable’
  ‘shiny’
  All declared Imports should be used.
Note: found 1 marked Latin-1 string
  Note: found 18 marked UTF-8 strings
installed size is  5.0Mb
  sub-directories of 1Mb or more:
    data   3.5Mb
Namespace in Imports field not imported from: ‘statgenGWAS’
  All declared Imports should be used.
installed size is  6.3Mb
  sub-directories of 1Mb or more:
    shiny-apps   6.2Mb
Namespaces in Imports field not imported from:
  ‘DDoutlier’ ‘car’ ‘corrplot’ ‘data.table’ ‘energy’ ‘ggplot2’
  ‘gridExtra’ ‘kableExtra’ ‘knitr’ ‘readr’ ‘reshape2’ ‘rmarkdown’
  ‘shinydisconnect’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘gbm’ ‘ggfortify’ ‘tibble’ ‘tidyverse’
  All declared Imports should be used.
File ‘steadyICA/libs/steadyICA.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
File ‘StepwiseTest/libs/StepwiseTest.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
File ‘stlplus/libs/stlplus.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘SnowballC’ ‘tm’
  All declared Imports should be used.
installed size is  6.8Mb
  sub-directories of 1Mb or more:
    data   6.3Mb
installed size is 29.0Mb
  sub-directories of 1Mb or more:
    libs  27.3Mb
Namespace in Imports field not imported from: ‘bnlearn’
  All declared Imports should be used.
installed size is  5.7Mb
  sub-directories of 1Mb or more:
    doc   5.0Mb
File ‘strat/libs/strat.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘ks’
  All declared Imports should be used.
Undeclared package ‘HDoutliers’ in Rd xrefs
installed size is  5.4Mb
  sub-directories of 1Mb or more:
    libs   5.3Mb
installed size is  8.2Mb
  sub-directories of 1Mb or more:
    doc   7.2Mb
Namespaces in Imports field not imported from:
  ‘broom’ ‘car’ ‘lmerTest’ ‘pbkrtest’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘pls’ ‘tibble’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘DT’ ‘bsplus’ ‘colourpicker’ ‘grDevices’ ‘graphics’ ‘jsonlite’
  ‘purrr’ ‘shinyjs’
  All declared Imports should be used.
File ‘SummaryLasso/libs/SummaryLasso.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  5.7Mb
  sub-directories of 1Mb or more:
    data   1.8Mb
    doc    3.0Mb
Namespaces in Imports field not imported from:
  ‘gridExtra’ ‘mvtnorm’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘doParallel’ ‘pROC’
  All declared Imports should be used.
Undeclared package ‘truncdist’ in Rd xrefs
Namespace in Imports field not imported from: ‘learnr’
  All declared Imports should be used.
installed size is  6.7Mb
  sub-directories of 1Mb or more:
    R      1.7Mb
    doc    2.2Mb
    help   1.0Mb
Installation failed.
See ‘/data/gannet/ripley/R/packages/tests-clang/surveygraph.Rcheck/00install.out’ for details.
Packages suggested but not available for checking:
  'survHEinla', 'survHEhmc'
installed size is  8.2Mb
  sub-directories of 1Mb or more:
    R      1.2Mb
    data   1.9Mb
    doc    3.9Mb
File ‘survivalROC/libs/survivalROC.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  6.1Mb
  sub-directories of 1Mb or more:
    doc   5.6Mb
Namespaces in Imports field not imported from:
  ‘jsonlite’ ‘readr’ ‘stringr’
  All declared Imports should be used.
installed size is  5.5Mb
  sub-directories of 1Mb or more:
    libs   5.0Mb
installed size is  7.7Mb
  sub-directories of 1Mb or more:
    libs   7.5Mb
Namespaces in Imports field not imported from:
  ‘lubridate’ ‘tidyquant’ ‘tidyr’ ‘tidyverse’
  All declared Imports should be used.
installed size is  6.8Mb
  sub-directories of 1Mb or more:
    libs   6.7Mb
Namespaces in Imports field not imported from:
  ‘htmltools’ ‘markdown’ ‘nextGenShinyApps’
  All declared Imports should be used.
installed size is  7.0Mb
  sub-directories of 1Mb or more:
    libs   6.2Mb
File ‘SynchWave/libs/SynchWave.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘MASS’ ‘StackImpute’ ‘arm’ ‘boot’ ‘broom’ ‘knitr’ ‘mvtnorm’
  ‘randomForest’
  All declared Imports should be used.
installed size is  5.0Mb
  sub-directories of 1Mb or more:
    data   2.9Mb
    doc    1.8Mb
installed size is  5.3Mb
  sub-directories of 1Mb or more:
    R         1.3Mb
    extdata   3.1Mb
Running examples in ‘T2DFitTailor-Ex.R’ failed
The error most likely occurred in:

> ### Name: TailorExercisePlan
> ### Title: Tailor Exercise Plan for T2D Patients
> ### Aliases: TailorExercisePlan
> 
> ### ** Examples
> 
> # Create a demo dataframe
> set.seed(16)
> df <- data.frame(
+ Age = sample(39:77, 8, replace = TRUE),
+ Sex = sample(0:1, 8, replace = TRUE),
+ BMI = sample(18:31, 8, replace = TRUE),
+ Duration_T2D = sample(1:26, 8, replace = TRUE),
+ HDL = sample(1:1.7, 8, replace = TRUE),
+ PCS = sample(27:54, 8, replace = TRUE),
+ WHtR = sample(0.4:0.6, 8, replace = TRUE)
+ )
> rownames(df) <- c("xiaoming", "xiaohong", "xiaohua", "xiaogang",
+                   "xiaoli", "zhangsan", "lisi", "wangwu")
> colnames(df) <- c("Age", "Sex", "BMI", "Duration_T2D (year)",
+                   "HDL (mmol/L)", "PCS", "WHtR")
> # Run the TailorExercisePlan function
> demo_result <- TailorExercisePlan(df)
Note: Sample_ID and the rownames of input data correspond on a one-to-one basis.
Error: lexical error: invalid char in json text.
                                       Please check your data format!
                     (right here) ------^
Execution halted
installed size is  6.1Mb
  sub-directories of 1Mb or more:
    doc   5.9Mb
Namespaces in Imports field not imported from:
  ‘stringr’ ‘tibble’
  All declared Imports should be used.
File ‘tagcloud/libs/tagcloud.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘MASS’ ‘devEMF’ ‘segmented’ ‘smoother’ ‘tools’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘jiebaR’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘SnowballC’ ‘dplyr’ ‘igraph’ ‘tm’ ‘wordcloud2’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘drat’ ‘plyr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘Matrix’ ‘quadprog’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘gridExtra’ ‘reshape2’ ‘truncnorm’ ‘xtable’
  All declared Imports should be used.
installed size is 13.5Mb
  sub-directories of 1Mb or more:
    doc  12.3Mb
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    tklibs   4.9Mb
installed size is  8.2Mb
  sub-directories of 1Mb or more:
    doc   7.5Mb
Namespace in Imports field not imported from: ‘scales’
  All declared Imports should be used.
Undeclared packages ‘emmeans’, ‘labeling’ in Rd xrefs
installed size is  8.5Mb
  sub-directories of 1Mb or more:
    doc    4.5Mb
    help   2.7Mb
installed size is 10.0Mb
  sub-directories of 1Mb or more:
    R      2.3Mb
    libs   6.3Mb
File ‘testforDEP/libs/testforDEP.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Note: found 10051 marked UTF-8 strings
  Note: found 10523 strings marked as "bytes"
Namespaces in Imports field not imported from:
  ‘doParallel’ ‘forecast’ ‘parallel’ ‘tidyr’
  All declared Imports should be used.
installed size is  5.7Mb
  sub-directories of 1Mb or more:
    data   5.6Mb
Undeclared packages ‘tm’, ‘textreadr’ in Rd xrefs
Unknown package ‘textreadr’ in Rd xrefs
Namespace in Imports field not imported from: ‘ggm’
  All declared Imports should be used.
installed size is  9.0Mb
  sub-directories of 1Mb or more:
    data   1.1Mb
    rda    7.1Mb
Namespaces in Imports field not imported from:
  ‘MASS’ ‘base’ ‘graphics’ ‘janitor’ ‘rlang’ ‘testthat’ ‘utils’
  All declared Imports should be used.
installed size is  7.0Mb
  sub-directories of 1Mb or more:
    R      4.0Mb
    data   3.0Mb
Namespaces in Imports field not imported from:
  ‘MASS’ ‘readr’ ‘tidyverse’ ‘usethis’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘badger’ ‘ggplot2’ ‘lubridate’ ‘scales’ ‘xgboost’
  All declared Imports should be used.
Undeclared packages ‘fastDummies’, ‘widyr’, ‘pacman’, ‘sjmisc’ in Rd xrefs
Undeclared packages ‘tidyfst’, ‘tidyr’, ‘fastDummies’ in Rd xrefs
Namespace in Imports field not imported from: ‘mix’
  All declared Imports should be used.
Package suggested but not available for checking: ‘SingleR’
Undeclared package ‘crosstalk’ in Rd xrefs
Undeclared package ‘datawizard’ in Rd xrefs
installed size is  6.9Mb
  sub-directories of 1Mb or more:
    doc       2.0Mb
    extdata   4.5Mb
installed size is 85.2Mb
  sub-directories of 1Mb or more:
    libs     2.2Mb
    tiledb  80.5Mb
installed size is  6.9Mb
  sub-directories of 1Mb or more:
    libs   6.7Mb
Undeclared package ‘pkgdown’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘cpp11’ ‘dplyr’ ‘magrittr’ ‘stringi’
  All declared Imports should be used.
installed size is  8.1Mb
  sub-directories of 1Mb or more:
    doc    1.9Mb
    libs   4.2Mb
installed size is  5.3Mb
  sub-directories of 1Mb or more:
    examples   1.2Mb
    include    3.7Mb
Undeclared packages ‘tm.plugin.dc’, ‘readtext’, ‘graph’, ‘tau’, ‘tokenizers’ in Rd xrefs
File ‘tmvnsim/libs/tmvnsim.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
File ‘tmvtnorm/libs/tmvtnorm.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is 13.2Mb
  sub-directories of 1Mb or more:
    libs  13.0Mb
Imports includes 36 non-default packages.
Importing from so many packages makes the package vulnerable to any of
them becoming unavailable.  Move as many as possible to Suggests and
use conditionally.
installed size is  6.4Mb
  sub-directories of 1Mb or more:
    data-tables   1.5Mb
    doc           2.0Mb
    help          1.2Mb
Namespaces in Imports field not imported from:
  ‘cowplot’ ‘ggplot2’ ‘jsonlite’
  All declared Imports should be used.
installed size is 35.9Mb
  sub-directories of 1Mb or more:
    R         5.6Mb
    help      1.7Mb
    include   1.8Mb
    libs     26.3Mb
Namespace in Imports field not imported from: ‘hdi’
  All declared Imports should be used.
Note: found 100 marked Latin-1 strings
  Note: found 548 marked UTF-8 strings
installed size is 12.1Mb
  sub-directories of 1Mb or more:
    data  12.0Mb
Note: found 153 marked Latin-1 strings
  Note: found 108 marked UTF-8 strings
Namespaces in Imports field not imported from:
  ‘V8’ ‘colorspace’
  All declared Imports should be used.
installed size is  6.1Mb
  sub-directories of 1Mb or more:
    data   2.2Mb
    doc    2.8Mb
Namespaces in Imports field not imported from:
  ‘MASS’ ‘Matrix’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘tree’
  All declared Imports should be used.
installed size is  5.9Mb
  sub-directories of 1Mb or more:
    doc   5.0Mb
Namespace in Imports field not imported from: ‘crul’
  All declared Imports should be used.
installed size is 17.6Mb
  sub-directories of 1Mb or more:
    data      1.2Mb
    doc       1.3Mb
    extdata  14.8Mb
installed size is 14.5Mb
  sub-directories of 1Mb or more:
    doc    3.9Mb
    libs   9.5Mb
File ‘TrialSize/libs/TrialSize.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘tseries’
  All declared Imports should be used.
Undeclared packages ‘fpc’, ‘clValid’, ‘clv’ in Rd xrefs
File ‘tseriesChaos/libs/tseriesChaos.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
File ‘tseriesTARMA/libs/tseriesTARMA.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘R6’ ‘crosstalk’
  All declared Imports should be used.
installed size is  6.3Mb
  sub-directories of 1Mb or more:
    data   4.6Mb
installed size is  6.9Mb
  sub-directories of 1Mb or more:
    libs   5.8Mb
Undeclared package ‘tseries’ in Rd xrefs
File ‘tspmeta/libs/tspmeta.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘EMD’ ‘vars’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘forecastHybrid’
  All declared Imports should be used.
Undeclared packages ‘ggplot2’, ‘crosstalk’ in Rd xrefs
Undeclared packages ‘multcomp’, ‘agricolae’ in Rd xrefs
Undeclared package ‘randomForest’ in Rd xrefs
installed size is  7.3Mb
  sub-directories of 1Mb or more:
    doc     4.5Mb
    ubinc   2.0Mb
installed size is  8.5Mb
  sub-directories of 1Mb or more:
    R      1.4Mb
    doc    1.0Mb
    libs   5.8Mb
installed size is  8.2Mb
  sub-directories of 1Mb or more:
    doc        1.4Mb
    shinyapp   5.0Mb
installed size is  7.1Mb
  sub-directories of 1Mb or more:
    doc         1.4Mb
    dummydata   1.4Mb
    libs        2.4Mb
installed size is  6.0Mb
  sub-directories of 1Mb or more:
    R      1.0Mb
    help   4.4Mb
Namespaces in Imports field not imported from:
  ‘foreign’ ‘psychTools’ ‘pwr’ ‘rmarkdown’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘extraDistr’ ‘logitnorm’ ‘nakagami’ ‘tibble’
  All declared Imports should be used.
installed size is  6.2Mb
  sub-directories of 1Mb or more:
    R      1.4Mb
    doc    1.5Mb
    libs   2.5Mb
installed size is  8.1Mb
  sub-directories of 1Mb or more:
    doc   7.6Mb
Namespace in Imports field not imported from: ‘xml2’
  All declared Imports should be used.
installed size is  6.2Mb
  sub-directories of 1Mb or more:
    data   6.1Mb
installed size is  5.3Mb
  sub-directories of 1Mb or more:
    doc   3.8Mb
Namespace in Imports field not imported from: ‘tsibble’
  All declared Imports should be used.
installed size is  7.0Mb
  sub-directories of 1Mb or more:
    data   6.9Mb
Namespaces in Imports field not imported from:
  ‘RCurl’ ‘stringdist’ ‘utils’
  All declared Imports should be used.
installed size is  9.5Mb
  sub-directories of 1Mb or more:
    extdata   8.7Mb
Namespace in Imports field not imported from: ‘Cairo’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘BBmisc’ ‘badger’
  All declared Imports should be used.
File ‘valorate/libs/valorate.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
File ‘varband/libs/varband.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘rio’
  All declared Imports should be used.
Undeclared package ‘factoextra’ in Rd xrefs
installed size is  8.6Mb
  sub-directories of 1Mb or more:
    doc   7.5Mb
File ‘Vdgraph/libs/Vdgraph.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
File ‘vdg/libs/vdg.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘DT’ ‘maps’ ‘readr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘Rcpp’ ‘foreach’ ‘iterators’ ‘maps’ ‘spam’
  All declared Imports should be used.
installed size is  8.2Mb
  sub-directories of 1Mb or more:
    R      4.2Mb
    help   3.2Mb
Namespaces in Imports field not imported from:
  ‘kableExtra’ ‘knitr’ ‘leaflet’ ‘mapview’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘R6’ ‘readr’ ‘uuid’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘mclust’ ‘rlang’
  All declared Imports should be used.
Undeclared packages ‘foreach’, ‘copula’ in Rd xrefs
installed size is  6.4Mb
  sub-directories of 1Mb or more:
    doc    1.4Mb
    libs   4.8Mb
File ‘vines/libs/vines.so’:
  Found no call to: ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  6.6Mb
  sub-directories of 1Mb or more:
    help          1.3Mb
    htmlwidgets   5.2Mb
Namespaces in Imports field not imported from:
  ‘ggplot2’ ‘reshape2’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘sqldf’
  All declared Imports should be used.
installed size is 10.9Mb
  sub-directories of 1Mb or more:
    doc           2.0Mb
    htmlwidgets   7.0Mb
installed size is  5.9Mb
  sub-directories of 1Mb or more:
    doc   5.5Mb
installed size is  6.0Mb
  sub-directories of 1Mb or more:
    data   5.7Mb
File ‘vita/libs/vita.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
installed size is  6.8Mb
  sub-directories of 1Mb or more:
    doc       5.4Mb
    extdata   1.1Mb
Found the following significant warnings:

  Warning in ggiraph(code = { : 'ggiraph' is deprecated.
  Warning in ggiraph(code = { : 'ggiraph' is deprecated.
  Warning in ggiraph(code = { : 'ggiraph' is deprecated.
Deprecated functions may be defunct as soon as of the next release of
R.
See ?Deprecated.
installed size is  5.0Mb
  sub-directories of 1Mb or more:
    data   2.6Mb
installed size is  9.9Mb
  sub-directories of 1Mb or more:
    extdata   8.6Mb
Undeclared package ‘progress’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘EnvStats’ ‘shiny’ ‘stats’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘Matrix’ ‘R6’
  All declared Imports should be used.
installed size is  7.3Mb
  sub-directories of 1Mb or more:
    libs   5.9Mb
Namespaces in Imports field not imported from:
  ‘R6’ ‘WRS2’ ‘ggplot2’
  All declared Imports should be used.
installed size is  8.2Mb
  sub-directories of 1Mb or more:
    R     1.1Mb
    doc   6.4Mb
File ‘wavelets/libs/wavelets.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Undeclared package ‘StratigrapheR’ in Rd xrefs
installed size is 10.8Mb
  sub-directories of 1Mb or more:
    client   9.6Mb
    doc      1.0Mb
File ‘webreadr/libs/webreadr.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘shiny’ ‘tidyselect’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘here’ ‘tibble’
  All declared Imports should be used.
File ‘weightedCL/libs/weightedCL.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
File ‘weightedScores/libs/weightedScores.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Running examples in ‘WikipediR-Ex.R’ failed
The error most likely occurred in:

> ### Name: categories_in_page
> ### Title: Retrieves categories associated with a page.
> ### Aliases: categories_in_page
> 
> ### ** Examples
> 
> 
> #Retrieve the categories for the "New Age" article on en.wiki
> cats <- categories_in_page("en", "wikipedia", pages = "New Age")
> 
> #Retrieve the categories for the "New Age" article on rationalwiki.
> rw_cats <- categories_in_page(domain = "rationalwiki.org", pages = "New Age")
Error in query(url, "pagecats", clean_response, query_param = query_param,  : 
  Service Unavailable (HTTP 503).
Calls: categories_in_page -> query -> <Anonymous>
Execution halted
Note: found 4 marked Latin-1 strings
  Note: found 5 marked UTF-8 strings
Undeclared packages ‘wpp2010’, ‘wpp2012’ in Rd xrefs
installed size is  6.7Mb
  sub-directories of 1Mb or more:
    data   6.6Mb
installed size is 12.8Mb
  sub-directories of 1Mb or more:
    data  12.7Mb
installed size is 11.4Mb
  sub-directories of 1Mb or more:
    data  11.2Mb
installed size is 11.6Mb
  sub-directories of 1Mb or more:
    data  11.4Mb
installed size is 11.4Mb
  sub-directories of 1Mb or more:
    data  11.3Mb
Namespaces in Imports field not imported from:
  ‘fdadensity’ ‘locfit’ ‘locpol’ ‘modeest’
  All declared Imports should be used.
installed size is  7.0Mb
  sub-directories of 1Mb or more:
    doc       3.5Mb
    extdata   2.5Mb
installed size is  5.4Mb
  sub-directories of 1Mb or more:
    doc   4.3Mb
installed size is  5.7Mb
  sub-directories of 1Mb or more:
    data   3.5Mb
    help   1.9Mb
Namespaces in Imports field not imported from:
  ‘future’ ‘tidyr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘dplyr’ ‘magrittr’
  All declared Imports should be used.
Installation failed.
See ‘/data/gannet/ripley/R/packages/tests-clang/x13binary.Rcheck/00install.out’ for details.
installed size is 28.0Mb
  sub-directories of 1Mb or more:
    java  25.4Mb
Namespaces in Imports field not imported from:
  ‘qpdf’ ‘rlang’ ‘tibble’
  All declared Imports should be used.
File ‘XNomial/libs/XNomial.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘tcltk2’
  All declared Imports should be used.
Undeclared package ‘parsnip’ in Rd xrefs
Namespace in Imports field not imported from: ‘spelling’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘dplyr’ ‘ggplot2’ ‘lubridate’
  All declared Imports should be used.
Found the following files/directories:
  ‘pulse-CcctT9RwKSB1’ ‘pulse-PKdhtXMmr18n’
Running ‘testthat.R’ [7s/25s]
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)
  > library(cryptotrackr)
  > 
  > test_check("cryptotrackr")
  No encoding supplied: defaulting to UTF-8.
  [1] " {\"jsonrpc\":\"2.0\",\"error\":{\"code\":429,\"message\":\"Too many requests for a specific RPC call, contact your app developer or support@rpcpool.com.\"}, \"id\": null } \r\n"
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 92 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-solana.R:4:3'): the "solana_get_signature_for_address" function returns a list ──
  Error in `solana_api_call(url, request_body)`: Request failed with status code: 429
  Backtrace:
      ▆
   1. └─cryptotrackr::solana_get_signature_for_address(url, address) at test-solana.R:4:3
   2.   └─cryptotrackr::solana_api_call(url, request_body)
  
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 92 ]
  Error: Test failures
  Execution halted
Found the following files/directories:
  ‘pulse-2L9K88eMlGn7’ ‘pulse-PKdhtXMmr18n’
Found the following significant warnings:
  emd-rubner.c:810:20: warning: 'minI' is used uninitialized [-Wuninitialized]
  emd-rubner.c:810:26: warning: 'minJ' is used uninitialized [-Wuninitialized]
See ‘/data/gannet/ripley/R/packages/tests-devel/emdist.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-13 (GCC) 13.2.0’
Running ‘testthat.R’ [5s/29s]
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)
  > library(fishRman)
  > 
  > test_check("fishRman")
  The resource you requested cannot be served. Error message:
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 8 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-fish.R:16:3'): the right dataframe is returned from the API ────
  Error in `curl::curl_fetch_memory(url, handle = handle)`: Failed to connect to fishrman.ddnsfree.com port 443 after 3719 ms: No route to host
  Backtrace:
      ▆
   1. └─fishRman::fish(bait) at test-fish.R:16:3
   2.   └─base::tryCatch(...)
   3.     └─base (local) tryCatchList(expr, classes, parentenv, handlers)
   4.       ├─base (local) tryCatchOne(...)
   5.       │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
   6.       └─base (local) tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
   7.         └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
   8.           └─value[[3L]](cond)
  
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 8 ]
  Error: Test failures
  Execution halted
Found the following files/directories:
  ‘gfpop.data’
Installation failed.
See ‘/data/gannet/ripley/R/packages/tests-devel/ggtern.Rcheck/00install.out’ for details.
Running ‘spelling.R’
  Running ‘testthat.R’ [9s/22s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(glancedata)
  > 
  > test_check("glancedata")
  [ FAIL 5 | WARN 4 | SKIP 0 | PASS 13 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-plot_numerical_vars.R:7:3'): histogram mode is a list of length 9 ──
  mymode == "list" & mylength == 9 is not TRUE
  
  `actual`:   FALSE
  `expected`: TRUE 
  ── Failure ('test-plot_numerical_vars.R:14:3'): density is a list of length 9 ──
  mymode == "list" & mylength == 9 is not TRUE
  
  `actual`:   FALSE
  `expected`: TRUE 
  ── Failure ('test-plot_numerical_vars.R:22:3'): boxplot is a list of length 9 ──
  mymode == "list" & mylength == 9 is not TRUE
  
  `actual`:   FALSE
  `expected`: TRUE 
  ── Failure ('test-plot_numerical_vars.R:30:3'): violin is a list of length 9 ───
  mymode == "list" & mylength == 9 is not TRUE
  
  `actual`:   FALSE
  `expected`: TRUE 
  ── Failure ('test-plot_numerical_vars.R:37:3'): qqplot is a list of length 9 ───
  mymode == "list" & mylength == 9 is not TRUE
  
  `actual`:   FALSE
  `expected`: TRUE 
  
  [ FAIL 5 | WARN 4 | SKIP 0 | PASS 13 ]
  Error: Test failures
  Execution halted
Found the following files/directories:
  ‘pkgbuild’
Running ‘testthat.R’ [159s/190s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(lintr)
  > 
  > # suppress printing environment name (noisy)
  > invisible({
  +   loadNamespace("patrick")
  +   loadNamespace("withr")
  + })
  > 
  > test_check("lintr")
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 5155 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-get_source_expressions.R:97:5'): Multi-byte character truncated by parser is ignored ──
  error$message (`actual`) not identical to "unexpected input" (`expected`).
  
  `actual`:   "unexpected invalid token"
  `expected`: "unexpected input"        
  Backtrace:
      ▆
   1. └─lintr (local) with_content_to_parse(...) at test-get_source_expressions.R:96:3
   2.   └─base::eval(substitute(code), envir = content_env) at test-get_source_expressions.R:12:3
   3.     └─base::eval(substitute(code), envir = content_env)
   4.       └─testthat::expect_identical(error$message, "unexpected input") at test-get_source_expressions.R:97:5
  
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 5155 ]
  Error: Test failures
  Execution halted
Found the following significant warnings:
  Warning: replacing previous import ‘ggmulti::coord_radial’ by ‘ggplot2::coord_radial’ when loading ‘loon.ggplot’
See ‘/data/gannet/ripley/R/packages/tests-devel/loon.ggplot.Rcheck/00install.out’ for details.
Packages suggested but not available for checking:
  'ArchR', 'TxDb.Hsapiens.UCSC.hg38.refGene'
Installation failed.
See ‘/data/gannet/ripley/R/packages/tests-devel/multilevelcoda.Rcheck/00install.out’ for details.
Found the following files/directories:
  ‘Minimal-concordance.tex’ ‘Minimal.Rnw’ ‘Minimal.pdf’
  ‘Minimal.synctex.gz’ ‘Minimal.tex’ ‘figure’
Error(s) in re-building vignettes:
--- re-building ‘Guide_restorepoint.Rmd’ using knitr
Failed to parse YAML:

output:
  pdf_document: default
  html_document: default
  vignette: >
%\VignetteEngine{knitr::knitr}
 ^~~~~~
%\VignetteIndexEntry{Debugging R with restore points}

Error: processing vignette 'Guide_restorepoint.Rmd' failed with diagnostics:
Scanner error: while scanning a directive at line 5, column 1 could not find expected directive name at line 5, column 2

--- failed re-building ‘Guide_restorepoint.Rmd’

SUMMARY: processing the following file failed:
  ‘Guide_restorepoint.Rmd’

Error: Vignette re-building failed.
Execution halted
Note: information on .o files is not available
File ‘/data/gannet/ripley/R/packages/tests-devel/rJava.Rcheck/rJava/libs/rJava.so’:
  Found ‘_exit’, possibly from ‘_exit’ (C)
  Found ‘stderr’, possibly from ‘stderr’ (C)
  Found ‘stdout’, possibly from ‘stdout’ (C)
File ‘rJava/libs/rJava.so’:
  Found non-API calls to R: ‘R_CStackLimit’, ‘R_CStackStart’

Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor use Fortran I/O
nor system RNGs nor [v]sprintf. The detected symbols are linked into
the code but might come from libraries and not actually be called.
Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Found the following files/directories:
  ‘DT’ ‘devtools’ ‘dygraphs’ ‘leaflet’
Note: information on .o files is not available
File ‘/data/gannet/ripley/R/packages/tests-devel/Rserve.Rcheck/Rserve/libs/Rserve.so’:
  Found ‘exit’, possibly from ‘exit’ (C)
  Found ‘rand’, possibly from ‘rand’ (C)
  Found ‘random’, possibly from ‘random’ (C)
  Found ‘srandom’, possibly from ‘srandom’ (C)
  Found ‘stderr’, possibly from ‘stderr’ (C)
File ‘Rserve/libs/Rserve.so’:
  Found non-API calls to R: ‘R_Consolefile’, ‘R_InputHandlers’,
    ‘R_Outputfile’, ‘R_TempDir’, ‘R_Visible’, ‘addInputHandler’,
    ‘ptr_R_Busy’, ‘ptr_R_ClearerrConsole’, ‘ptr_R_FlushConsole’,
    ‘ptr_R_ReadConsole’, ‘ptr_R_ResetConsole’, ‘ptr_R_ShowMessage’,
    ‘ptr_R_WriteConsole’, ‘ptr_R_WriteConsoleEx’
File ‘Rserve/libs/Rserve.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor use Fortran I/O
nor system RNGs nor [v]sprintf. The detected symbols are linked into
the code but might come from libraries and not actually be called.
Compiled code should not call non-API entry points in R.
It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
‘sandwich-CL.Rnw’... [20s/75s] NOTE
differences from ‘sandwich-CL.Rout.save’
82c82
< Classes and Methods for R originally developed in the
---
> Classes and Methods for R developed in the
85,87c85,87
< Stanford University (2002-2015),
< by and under the direction of Simon Jackman.
< hurdle and zeroinfl functions by Achim Zeileis.
---
> Stanford University
> Simon Jackman
> hurdle and zeroinfl functions by Achim Zeileis
  ‘sandwich-OOP.Rnw’... [4s/17s] OK
  ‘sandwich.Rnw’... OK
Packages suggested but not available for checking:
  'scRNAseq', 'sceasy', 'SeuratDisk', 'SeuratWrappers',
  'zellkonverter', 'GEOfastq'
Packages suggested but not available for checking:
  'BPCells', 'monocle', 'presto'
Running ‘testthat.R’ [34s/115s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(sfnetworks)
  > 
  > test_check("sfnetworks")
  [ FAIL 1 | WARN 1 | SKIP 0 | PASS 277 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test_spatstat.R:9:5'): Converting sfnetwork to linnet works with projected coords ──
  Error in `.make_numeric_version(x, strict, .standard_regexps()$valid_numeric_version)`: invalid non-character version specification 'x' (type: double)
  Backtrace:
      ▆
   1. ├─base::suppressWarnings(roxel_linnet <- as.linnet(roxel_sfn)) at test_spatstat.R:9:5
   2. │ └─base::withCallingHandlers(...)
   3. ├─spatstat.linnet::as.linnet(roxel_sfn)
   4. └─sfnetworks:::as.linnet.sfnetwork(roxel_sfn)
   5.   └─sfnetworks:::check_spatstat("spatstat.geom")
   6.     └─base::Ops.numeric_version(spst_ver, 2 - 0)
   7.       └─base::as.numeric_version(e2)
   8.         └─base::numeric_version(x)
   9.           └─base::.make_numeric_version(x, strict, .standard_regexps()$valid_numeric_version)
  
  [ FAIL 1 | WARN 1 | SKIP 0 | PASS 277 ]
  Error: Test failures
  Execution halted
Error(s) in re-building vignettes:
--- re-building ‘how_simple_is_data_analysis_with_shinyr.Rmd’ using knitr
Failed to parse YAML:

title: "shinyr: Data Insights Through Inbuilt R Shiny App"
output: rmarkdown::html_vignette
%\VignetteEngine{knitr::knitr}
 ^~~~~~
%\VignetteIndexEntry{shinyr: Data Insights Through Inbuilt R Shiny App}
%\usepackage[utf8]{inputenc}

Error: processing vignette 'how_simple_is_data_analysis_with_shinyr.Rmd' failed with diagnostics:
Scanner error: while scanning a directive at line 3, column 1 could not find expected directive name at line 3, column 2

--- failed re-building ‘how_simple_is_data_analysis_with_shinyr.Rmd’

--- re-building ‘shiny_app.Rmd’ using knitr
Failed to parse YAML:

title: "shinyr - Basic Example"
runtime: shiny
output: rmarkdown::html_vignette
%\VignetteEngine{knitr::knitr}
 ^~~~~~
%\VignetteIndexEntry{shinyr - Basic Example}
%\usepackage[utf8]{inputenc}

Error: processing vignette 'shiny_app.Rmd' failed with diagnostics:
Scanner error: while scanning a directive at line 4, column 1 could not find expected directive name at line 4, column 2

--- failed re-building ‘shiny_app.Rmd’

--- re-building ‘shinyr_function_usage.Rmd’ using knitr
Failed to parse YAML:

title: shinyr - an R package to build analytics dashboard automatically
output: rmarkdown::html_vignette
%\VignetteEngine{knitr::knitr}
 ^~~~~~
%\VignetteIndexEntry{shinyr - an R package to build analytics dashboard automatically}
%\usepackage[utf8]{inputenc}

Error: processing vignette 'shinyr_function_usage.Rmd' failed with diagnostics:
Scanner error: while scanning a directive at line 3, column 1 could not find expected directive name at line 3, column 2

--- failed re-building ‘shinyr_function_usage.Rmd’

SUMMARY: processing the following files failed:
  ‘how_simple_is_data_analysis_with_shinyr.Rmd’ ‘shiny_app.Rmd’
  ‘shinyr_function_usage.Rmd’

Error: Vignette re-building failed.
Execution halted
Found the following files/directories:
  ‘JMRData’
Installation failed.
See ‘/data/gannet/ripley/R/packages/tests-devel/winch.Rcheck/00install.out’ for details.
Error(s) in re-building vignettes:
--- re-building ‘wordbankr.Rmd’ using rmarkdown

Quitting from lines 35-37 [unnamed-chunk-2] (wordbankr.Rmd)
Error: processing vignette 'wordbankr.Rmd' failed with diagnostics:
no applicable method for 'select' applied to an object of class "NULL"
--- failed re-building ‘wordbankr.Rmd’

SUMMARY: processing the following file failed:
  ‘wordbankr.Rmd’

Error: Vignette re-building failed.
Execution halted
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(abbreviate)
  > 
  > test_check("abbreviate")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 6 ]
  > 
  > proc.time()
     user  system elapsed 
     0.67    0.17    0.84
Running 'testthat.R' [169s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(abdiv)
  > 
  > test_check("abdiv")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 583 ]
  > 
  > proc.time()
     user  system elapsed 
     2.92    0.40    3.32
Running 'testthat.R' [157s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(abglasso)
  > 
  > test_check("abglasso")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     0.56    0.07    0.62
Running 'testthat.R' [156s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(abjutils)
  > 
  > test_check("abjutils")
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 17 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 17 ]
  > 
  > proc.time()
     user  system elapsed 
     1.04    0.20    1.23
Problems with news in 'NEWS.md':
No news entries found.
installed size is  7.0Mb
  sub-directories of 1Mb or more:
    extdata   2.9Mb
    libs      1.9Mb
Running 'testthat.R' [167s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ABPS)
  > 
  > test_check("ABPS")
  [ FAIL 0 | WARN 2 | SKIP 0 | PASS 13 ]
  
  [ FAIL 0 | WARN 2 | SKIP 0 | PASS 13 ]
  > 
  > proc.time()
     user  system elapsed 
     1.40    0.32    1.70
installed size is 12.6Mb
  sub-directories of 1Mb or more:
    include  12.5Mb
Running 'testthat.R' [175s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > Sys.setenv(OMP_THREAD_LIMIT = 2)
  > 
  > library(testthat)
  > library(accessibility)
  > 
  > test_check("accessibility")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1060 ]
  > 
  > proc.time()
     user  system elapsed 
    17.42    3.14   20.21
Running 'testthat.R' [171s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ACEP)
  > 
  > test_check("ACEP")
  [ FAIL 0 | WARN 0 | SKIP 57 | PASS 0 ]
  
  ══ Skipped tests (57) ══════════════════════════════════════════════════════════
  • On CRAN (57): 'test-acep_clean.R:3:3', 'test-acep_clean.R:11:3',
    'test-acep_clean.R:19:3', 'test-acep_clean.R:27:3', 'test-acep_clean.R:35:3',
    'test-acep_clean.R:43:3', 'test-acep_clean.R:51:3', 'test-acep_clean.R:59:3',
    'test-acep_clean.R:67:3', 'test-acep_clean.R:75:3', 'test-acep_clean.R:83:3',
    'test-acep_clean.R:91:3', 'test-acep_clean.R:99:3',
    'test-acep_clean.R:109:3', 'test-acep_clean.R:118:3',
    'test-acep_clean.R:127:3', 'test-acep_clean.R:136:3', 'test-acep_db.R:3:3',
    'test-acep_db.R:14:3', 'test-acep_db.R:25:3', 'test-acep_db.R:36:3',
    'test-acep_detect.R:3:3', 'test-acep_detect.R:14:3',
    'test-acep_detect.R:25:3', 'test-acep_frec.R:3:3', 'test-acep_frec.R:11:3',
    'test-acep_int.R:3:3', 'test-acep_int.R:13:3', 'test-acep_int.R:24:3',
    'test-acep_load_base.R:3:3', 'test-acep_load_base.R:12:3',
    'test-acep_men.R:3:3', 'test-acep_men.R:15:3', 'test-acep_men.R:27:3',
    'test-acep_men.R:39:3', 'test-acep_plot_rst.R:3:3',
    'test-acep_plot_st.R:3:3', 'test-acep_plot_st.R:23:3',
    'test-acep_plot_st.R:43:3', 'test-acep_rst.R:3:3', 'test-acep_rst.R:16:3',
    'test-acep_rst.R:29:3', 'test-acep_rst.R:43:3', 'test-acep_rst.R:56:3',
    'test-acep_rst.R:70:3', 'test-acep_rst.R:84:3', 'test-acep_rst.R:97:3',
    'test-acep_rst.R:110:3', 'test-acep_rst.R:124:3', 'test-acep_token.R:3:3',
    'test-acep_token.R:11:3', 'test-acep_token.R:19:3',
    'test-acep_token_plot.R:3:3', 'test-acep_token_plot.R:14:3',
    'test-acep_token_plot.R:25:3', 'test-acep_token_table.R:3:3',
    'test-acep_token_table.R:14:3'
  
  [ FAIL 0 | WARN 0 | SKIP 57 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     2.40    0.28    2.67
Running 'testthat.R' [184s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ACEsimFit)
  > 
  > test_check("ACEsimFit")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 8 ]
  > 
  > proc.time()
     user  system elapsed 
    17.15    0.48   17.62
Running 'spelling.R' [159s]
  Running 'testthat.R' [2s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.17    0.06    0.21
installed size is 13.6Mb
  sub-directories of 1Mb or more:
    R  13.6Mb
Running 'spelling.R' [158s]
  Running 'testthat.R' [129s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.15    0.09    0.23
Documented arguments not in \usage in Rd file 'd1.Rd':
  'The' '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 'testthat.R' [173s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ActivePathways)
  > 
  > test_check("ActivePathways")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 113 ]
  > 
  > proc.time()
     user  system elapsed 
     4.26    0.57    4.81
Running 'testthat.R' [174s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ACV)
  > 
  > test_check("ACV")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 15 ]
  > 
  > proc.time()
     user  system elapsed 
     6.09    0.53    6.62
Running 'testthat.R' [177s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ACWR)
  > 
  > test_check("ACWR")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 22 ]
  > 
  > proc.time()
     user  system elapsed 
     0.85    0.28    1.12
Running 'testthat.R' [167s]
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)
  > library(adace)
  > 
  > test_check("adace")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 29 ]
  > 
  > proc.time()
     user  system elapsed 
     7.06    0.48    7.53
Running 'testthat.R' [173s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(adaptalint)
  > 
  > test_check("adaptalint")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 12 ]
  > 
  > proc.time()
     user  system elapsed 
     3.73    0.31    4.03
Invalid package aliases in Rd file 'aslm-package.Rd':
  'aslm-package' 'asggm-package'
Argument items with no description in Rd file 'asggm-internal.Rd':
  'ansL' 'kNodes' 'spP'
installed size is  7.5Mb
  sub-directories of 1Mb or more:
    doc   7.1Mb
installed size is  6.6Mb
  sub-directories of 1Mb or more:
    libs   6.6Mb
Running 'testthat.R' [175s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > # Licensed to the Apache Software Foundation (ASF) under one
  > # or more contributor license agreements.  See the NOTICE file
  > # distributed with this work for additional information
  > # regarding copyright ownership.  The ASF licenses this file
  > # to you under the Apache License, Version 2.0 (the
  > # "License"); you may not use this file except in compliance
  > # with the License.  You may obtain a copy of the License at
  > #
  > #   http://www.apache.org/licenses/LICENSE-2.0
  > #
  > # Unless required by applicable law or agreed to in writing,
  > # software distributed under the License is distributed on an
  > # "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
  > # KIND, either express or implied.  See the License for the
  > # specific language governing permissions and limitations
  > # under the License.
  > 
  > # 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)
  > library(adbcpostgresql)
  > 
  > test_check("adbcpostgresql")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 1 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • identical(test_db_uri, "") is TRUE (1): 'test-adbcpostgres-package.R:24:3'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     0.70    0.14    0.82
Running 'testthat.R' [175s]
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)
  > library(adbi)
  Registered S3 methods overwritten by 'adbi':
    method                      from     
    infer_nanoarrow_schema.AsIs nanoarrow
    infer_nanoarrow_schema.list nanoarrow
  > 
  > test_check("adbi")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 12 ]
  > 
  > proc.time()
     user  system elapsed 
     1.29    0.26    1.53
Documented arguments not in \usage in Rd file 'print.aTest.Rd':
  'how'

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.
installed size is  7.1Mb
  sub-directories of 1Mb or more:
    R      1.4Mb
    data   2.9Mb
    libs   1.1Mb
Running 'testthat.R' [169s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(adea)
  Loading required package: rmarkdown
  Loading required package: ROI.plugin.glpk
  Loading required package: ROI.plugin.lpsolve
  Loading required package: ROI.plugin.symphony
  > 
  > test_check("adea")
  Starting 2 test processes
  [ FAIL 0 | WARN 0 | SKIP 56 | PASS 161 ]
  
  ══ Skipped tests (56) ══════════════════════════════════════════════════════════
  • On CRAN (56): 'testadea.R:33:5', 'testadea.R:61:5', 'testadea.R:69:5',
    'testadea.R:77:5', 'testadea.R:85:5', 'testadea.R:93:5', 'testcadea.R:35:5',
    'testcadea.R:44:5', 'testcadea.R:50:5', 'testcadea.R:79:5',
    'testcadea.R:87:5', 'testcadea.R:95:5', 'testcadea.R:103:5',
    'testcadea.R:111:5', 'testdea.R:8:5', 'testdea.R:41:5', 'testdea.R:65:5',
    'testdea.R:73:5', 'testdea.R:81:5', 'testdea.R:89:5', 'testdea.R:97:5',
    'testfsdea.R:7:5', 'testfsdea.R:53:5', 'testfsdea.R:76:5',
    'testfsdea.R:84:5', 'testfsdea.R:92:5', 'testfsdea.R:100:5',
    'testfsdea.R:108:5', 'testfsdea.R:119:5', 'testfsdea.R:130:5',
    'testfsdea.R:141:5', 'testfsdea.R:153:5', 'testfsdea.R:165:5',
    'testdemo.R:20:5', 'testdemo.R:31:5', 'testhierarchical.R:37:5',
    'testhierarchical.R:47:5', 'testhierarchical.R:59:5',
    'testhierarchical.R:71:5', 'testhierarchical.R:83:5', 'testleverage.R:8:5',
    'testleverage.R:18:5', 'testleverage.R:28:5', 'testleverage.R:38:5',
    'testleverage.R:48:5', 'testleverage.R:58:5', 'testleverage.R:69:5',
    'testsolvers.R:19:5', 'testsolvers.R:26:5', 'testsolvers.R:34:5',
    'testsolvers.R:42:5', 'testparametric.R:38:5', 'testparametric.R:48:5',
    'testparametric.R:60:5', 'testparametric.R:72:5', 'testparametric.R:84:5'
  
  [ FAIL 0 | WARN 0 | SKIP 56 | PASS 161 ]
  > 
  > proc.time()
     user  system elapsed 
     4.50    0.56    8.68
Documented arguments not in \usage in Rd file 'ae_count.Rd':
  'patients'

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.
installed size is  9.4Mb
  sub-directories of 1Mb or more:
    data   9.2Mb
Running 'spelling.R' [163s]
  Running 'testthat.R' [166s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.23    0.06    0.23 
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(adept)
  > 
  > test_check("adept")
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 101 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On Windows (2): 'test-segmentPattern.R:561:3', 'test-segmentWalking.R:47:3'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 101 ]
  > 
  > proc.time()
     user  system elapsed 
     8.87    1.07    9.92
Running 'testthat.R' [430s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(adestr)
  > test_check("adestr")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 39 ]
  > 
  > proc.time()
     user  system elapsed 
   218.29   38.29  256.67
installed size is  6.1Mb
  sub-directories of 1Mb or more:
    doc   3.7Mb
Running 'testthat.R' [166s]
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) # nolint: undesirable_function_linter
  > library(admiraldev) # nolint: undesirable_function_linter
  > 
  > test_check("admiraldev")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 264 ]
  > 
  > proc.time()
     user  system elapsed 
     4.90    0.87    5.76
Running 'testthat.R' [187s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat) # nolint: undesirable_function_linter
  > library(admiralonco) # nolint: undesirable_function_linter
  > 
  > test_check("admiralonco")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 36 ]
  > 
  > proc.time()
     user  system elapsed 
    15.21    0.39   15.59
Running 'testthat.R' [172s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(admiralvaccine)
  > 
  > test_check("admiralvaccine")
  [1] "VAX01DT"
  [1] "VAX02DT"
  [1] "VAX03DT"
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 36 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 36 ]
  > 
  > proc.time()
     user  system elapsed 
     4.32    0.40    4.75
Running 'spelling.R' [0s]
  Running 'testthat.R' [160s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(admix)
  Package 'admix' version 2.1.2
  -------------------------------
  Type 'citation("admix")' for citing this R package in publications.
  -------------------------------
  This work was partly conducted within the Research Chair DIALog under the aegis of the Risk Foundation, an initiative by CNP Assurances.
  
  > 
  > test_check("admix")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 1 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-IBM_estimVarCov_gaussVect.R:2:3'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     2.43    0.20    2.62
Running 'testthat.R' [179s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ADPclust)
  > 
  > test_check("ADPclust")
  -- ADPclust Result -- 
  
  Number of obs.: 	 90 
  Centroids selection: 	 auto 
  Number of clusters: 	 3 
  Avg. Silhouette: 	 0.7860849 
  Elements in result: 	 $clusters $centers $silhouette $nclust $h $f $delta $selection.type $tested
  f(x): 
     Min. 1st Qu.  Median    Mean 3rd Qu.    Max. 
    1.032   3.196   4.877   5.094   7.105   9.540 
  
  delta(x): 
     Min. 1st Qu.  Median    Mean 3rd Qu.    Max. 
  0.02995 0.07716 0.11986 0.21950 0.18324 2.63038 
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 137 ]
  > 
  > proc.time()
     user  system elapsed 
     5.96    1.14    7.10
installed size is  5.7Mb
  sub-directories of 1Mb or more:
    tutorials   5.5Mb
Running 'testthat.R' [166s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(AeRobiology)
  > 
  > test_check("AeRobiology")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     1.62    0.31    1.96
Running 'spelling.R' [148s]
  Running 'testthat.R' [179s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.14    0.06    0.18 
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(afdx)
  > 
  > test_check("afdx")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 9 ]
  > 
  > proc.time()
     user  system elapsed 
     2.43    0.26    2.65
Running 'testthat.R' [173s]
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)
  > library(afttest)
  > 
  > test_check("afttest")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
  > 
  > proc.time()
     user  system elapsed 
    11.46    0.43   11.87
Running 'testthat.R' [173s]
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)
  > library(agfh)
  > 
  > test_check("agfh")
  sample:  3 
  sample:  4 
  sample:  5 
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 2 ]
  > 
  > proc.time()
     user  system elapsed 
     2.18    0.14    2.26
Running 'testthat.R' [172s]
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)
  > library(aggutils)
  > 
  > test_check("aggutils")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 10 ]
  > 
  > proc.time()
     user  system elapsed 
     0.64    0.17    0.78
Running 'testthat.R' [200s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(aglm)
  > 
  > test_check("aglm")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 111 ]
  > 
  > proc.time()
     user  system elapsed 
    36.07    6.57   42.70
Running 'testthat.R' [172s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(agridat)
  > 
  > test_check("agridat")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     0.60    0.15    0.73
Package which this enhances but not available for checking: 'asreml'
Running 'testthat.R' [167s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(agtboost)
  > 
  > test_check("agtboost")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 8 ]
  > 
  > proc.time()
     user  system elapsed 
     1.17    0.12    1.26
Running 'testthat.R' [184s]
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("ahw")
  Loading required package: ahw
  Loading required package: survival
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 20 ]
  > 
  > proc.time()
     user  system elapsed 
     9.04    0.64    9.62
Running 'run-all.R' [165s]
Running the tests in 'tests/run-all.R' failed.
Complete output:
  > library(testthat)
  > test_check("aidar")
  Loading required package: aidar
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 124 ]
  > 
  > proc.time()
     user  system elapsed 
     7.21    0.42    7.62
Running 'testthat.R' [161s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(aire.zmvm)
  > library(sp)
  > 
  > test_check("aire.zmvm")
  [ FAIL 0 | WARN 0 | SKIP 13 | PASS 191 ]
  
  ══ Skipped tests (13) ══════════════════════════════════════════════════════════
  • On CRAN (13): 'test_download_archives.R:10:3',
    'test_download_archives.R:29:3', 'test_download_archives.R:56:3',
    'test_download_archives.R:75:3', 'test_download_archives.R:103:3',
    'test_download_archives.R:122:3', 'test_download_archives.R:147:3',
    'test_get_latest.R:4:3', 'test_get_latest.R:17:3',
    'test_get_station_data.R:54:3', 'test_get_station_imeca.R:10:3',
    'test_get_station_month_data.R:25:3', 'test_get_zone_imeca.R:16:3'
  
  [ FAIL 0 | WARN 0 | SKIP 13 | PASS 191 ]
  > 
  > proc.time()
     user  system elapsed 
     3.26    0.34    3.62
Running 'spelling.R' [0s]
  Running 'testthat.R' [194s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(airGRiwrm)
  Loading required package: airGR
  
  Attaching package: 'airGRiwrm'
  
  The following objects are masked from 'package:airGR':
  
      Calibration, CreateCalibOptions, CreateInputsCrit,
      CreateInputsModel, CreateRunOptions, RunModel
  
  > 
  > test_check("airGRiwrm")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 90 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-Calibration.R:46:3'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 90 ]
  > 
  > proc.time()
     user  system elapsed 
    20.46    4.42   24.95
Running 'testthat.R' [181s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(airGR)
  > 
  > test_check("airGR")
  [ FAIL 0 | WARN 2 | SKIP 7 | PASS 76 ]
  
  ══ Skipped tests (7) ═══════════════════════════════════════════════════════════
  • On CRAN (7): 'test-evap.R:27:3', 'test-evap.R:67:3', 'test-vignettes.R:4:3',
    'test-vignettes.R:11:3', 'test-vignettes.R:25:3', 'test-vignettes.R:36:3',
    'test-vignettes.R:42:3'
  
  [ FAIL 0 | WARN 2 | SKIP 7 | PASS 76 ]
  > 
  > proc.time()
     user  system elapsed 
    13.95    1.03   15.03
Running 'testthat.R' [155s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(airGRteaching)
  Loading required package: airGR
  > 
  > 
  > test_check("airGRteaching")
  [ FAIL 0 | WARN 2 | SKIP 4 | PASS 5 ]
  
  ══ Skipped tests (4) ═══════════════════════════════════════════════════════════
  • On CRAN (4): 'test-plot.R:26:3', 'test-plot.R:32:3', 'test-plot.R:38:3',
    'test-plot.R:44:3'
  
  [ FAIL 0 | WARN 2 | SKIP 4 | PASS 5 ]
  > 
  > proc.time()
     user  system elapsed 
     2.68    0.31    3.00
Running 'testthat.R' [160s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(aiRly)
  > 
  > test_check("aiRly")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 29 ]
  > 
  > proc.time()
     user  system elapsed 
     2.21    0.39    2.60
Running 'testthat.R' [177s]
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)
  > library(airnow)
  > 
  > test_check("airnow")
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 318 ]
  
  ══ Skipped tests (3) ═══════════════════════════════════════════════════════════
  • AirNow API token is not set (3): 'test-get_airnow_area.R:97:3',
    'test-get_airnow_conditions.R:35:3', 'test-get_airnow_forecast.R:35:3'
  
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 318 ]
  > 
  > proc.time()
     user  system elapsed 
     5.81    0.57    6.39
Running 'testthat.R' [168s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(akc)
  > 
  > test_check("akc")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 6 ]
  > 
  > proc.time()
     user  system elapsed 
     3.53    0.65    4.15
Running 'spelling.R' [167s]
  Running 'testthat.R' [19s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.10    0.07    0.20
Running 'testthat.R' [177s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(aLFQ)
  > 
  > 
  > test_check("aLFQ")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 89 ]
  > 
  > proc.time()
     user  system elapsed 
     6.18    0.67    6.84
Running 'testthat.R' [174s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(alfred)
  > 
  > test_check("alfred")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 0 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test_download.R:2:3'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     1.32    0.23    1.53
Running 'spelling.R' [157s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.15    0.06    0.20
Running 'testthat.R' [158s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library (testthat)
  > library (httptest2)
  > library (allcontributors)
  > 
  > test_check ("allcontributors")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 12 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • !test_all is TRUE (1): 'test-get-contribs.R:6:1'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 12 ]
  > 
  > proc.time()
     user  system elapsed 
     0.93    0.10    1.04
Running 'testall.R' [171s]
Running the tests in 'tests/testall.R' failed.
Complete output:
  > library(testthat)
  > library(alluvial)
  > 
  > test_check("alluvial")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     0.64    0.18    0.81
Running 'testthat.R' [157s]
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)
  > library(alphaci)
  > 
  > test_check("alphaci")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 66 ]
  > 
  > proc.time()
     user  system elapsed 
     1.26    0.42    1.67
Running 'testthat.R' [163s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(AlphaSimR)
  Loading required package: R6
  > 
  > test_check("AlphaSimR")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 105 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-statistics.R:8:3'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 105 ]
  > 
  > proc.time()
     user  system elapsed 
     1.54    0.28    1.81
Running 'testthat.R' [172s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(alphavantager)
  > 
  > test_check("alphavantager")
  [ FAIL 0 | WARN 0 | SKIP 5 | PASS 1 ]
  
  ══ Skipped tests (5) ═══════════════════════════════════════════════════════════
  • Authentication not available (5): 'test_av_get.R:6:5', 'test_av_get.R:36:5',
    'test_av_get.R:53:5', 'test_av_get.R:88:5', 'test_av_get.R:102:5'
  
  [ FAIL 0 | WARN 0 | SKIP 5 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     1.12    0.21    1.29
Argument items with no description in Rd file 'MLS.Rd':
  'MSE1'
Package suggested but not available for checking: 'metaboliteIDmapping'
Running 'spelling.R' [0s]
  Running 'testthat.R' [173s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(amapGeocode)
  > 
  > test_check("amapGeocode")
  [ FAIL 0 | WARN 0 | SKIP 13 | PASS 0 ]
  
  ══ Skipped tests (13) ══════════════════════════════════════════════════════════
  • is.null(getOption("amap_key")) is TRUE (13): 'test_convertCoord.R:3:3',
    'test_convertCoord.R:15:3', 'test_getAdmin.R:3:3', 'test_getAdmin.R:15:3',
    'test_getAdmin.R:25:3', 'test_getCoord.R:3:3', 'test_getCoord.R:15:3',
    'test_getCoord.R:25:3', 'test_getCoord.R:35:3', 'test_getLocation.R:3:3',
    'test_getLocation.R:15:3', 'test_getLocation.R:25:3',
    'test_getLocation.R:35:3'
  
  [ FAIL 0 | WARN 0 | SKIP 13 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     1.09    0.18    1.26
Running 'testthat.R' [177s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(amapro)
  > 
  > test_check("amapro")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 12 ]
  > 
  > proc.time()
     user  system elapsed 
     1.09    0.28    1.59
Running 'testthat.R' [245s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ambit)
  > 
  > test_check("ambit")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 2871 ]
  > 
  > proc.time()
     user  system elapsed 
    63.60    7.45   71.23
Invalid package aliases in Rd file 'amelia.package.Rd':
  'amelia-package'
Running 'bounds.R' [165s]
  Running 'moPrep-test.R' [0s]
  Running 'overimp.R' [1s]
Running the tests in 'tests/bounds.R' failed.
Complete output:
  > library(Amelia)
  Loading required package: Rcpp
  ## 
  ## Amelia II: Multiple Imputation
  ## (Version 1.8.1, built: 2022-11-18)
  ## Copyright (C) 2005-2024 James Honaker, Gary King and Matthew Blackwell
  ## Refer to http://gking.harvard.edu/amelia/ for more information
  ## 
  > 
  > data(freetrade)
  > 
  > bds <- matrix(c(3, 30, 32), nrow = 1, ncol = 3)
  > 
  > set.seed(12345)
  > a.out.bds <- amelia(freetrade, ts = "year", cs = "country", bounds = bds,
  +                     max.resample = 10, p2s = 0)
  > 
  > out <- range(a.out.bds$imputations$imp1[is.na(freetrade[,3]),3])
  > 
  > 
  > 
  > if (out[1] < 30) {
  +   stop("lower bounds not working")
  + }
  > 
  > if (out[2] > 32) {
  +   stop("upper bounds not working")
  + }
  > 
  > proc.time()
     user  system elapsed 
      0.4     0.1     0.5
Running 'testthat.R' [161s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(amelie)
  > 
  > test_check("amelie")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 91 ]
  > 
  > proc.time()
     user  system elapsed 
     1.35    0.25    1.61
Running 'testthat.R' [163s]
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)
  > library(ami)
  > 
  > test_check("ami")
  Starting 2 test processes
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 103 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-networking.R:4:3'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 103 ]
  > 
  > proc.time()
     user  system elapsed 
     1.54    0.32    3.62
Running 'testthat.R' [179s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ampir)
  > 
  > test_check("ampir")
  Could not run prediction for 1 proteins because they were either too short or contained invalid amino acids
  Could not run prediction for 2 proteins because they were either too short or contained invalid amino acids
  Could not run prediction for 1 proteins because they were either too short or contained invalid amino acids
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 78 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On Windows (2): 'test-predict-amps.R:97:3', 'test-predict-amps.R:189:3'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 78 ]
  > 
  > proc.time()
     user  system elapsed 
     4.65    0.84    5.50
Documented arguments not in \usage in Rd file 'check_factors.Rd':
  'object'

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 'test-all.R' [162s]
Running the tests in 'tests/test-all.R' failed.
Complete output:
  > library(testthat)
  > test_check("analogsea")
  Loading required package: analogsea
  ANALOGSEA
  =========
  This package requieres a DigitalOcean account.
  Visit m.do.co/c/1d5a471e5f54. By using this link, you'll 
  start with $100 in credits with a 2 months limit.
  You can also sponsor this package at buymeacoffee.com/pacha.
  
  Attaching package: 'analogsea'
  
  The following object is masked from 'package:graphics':
  
      image
  
  [ FAIL 0 | WARN 0 | SKIP 24 | PASS 11 ]
  
  ══ Skipped tests (24) ══════════════════════════════════════════════════════════
  • On CRAN (24): 'test-do_GET.R:5:2', 'test-do_GET.R:14:2',
    'test-do_GET.R:23:2', 'test-docklet_actions.R:2:3', 'test-domains.R:5:2',
    'test-droplet.R:9:2', 'test-droplet.R:15:2', 'test-droplet_actions_1.R:2:3',
    'test-droplet_actions_2.R:2:3', 'test-droplet_create.R:4:3',
    'test-droplets.R:5:2', 'test-events.R:5:2', 'test-image.R:9:2',
    'test-image.R:15:2', 'test-images.R:5:3', 'test-images.R:17:3',
    'test-images.R:23:3', 'test-images.R:41:3', 'test-images.R:47:3',
    'test-regions.R:5:2', 'test-regions.R:15:2', 'test-sizes.R:5:2',
    'test-sizes.R:16:2', 'test-spaces.R:5:3'
  
  [ FAIL 0 | WARN 0 | SKIP 24 | PASS 11 ]
  > 
  > proc.time()
     user  system elapsed 
     1.39    0.23    1.62
Auto-generated content requiring editing in Rd file 'rowVars.Rd':
  \arguments: \dots: '~~Describe \code{\dots} here~~'
Running 'testthat.R' [159s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(AnchorRegression)
  > 
  > test_check("AnchorRegression")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     2.34    0.31    2.64
Running 'testthat.R' [161s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(andurinha)
  > 
  > test_check("andurinha")
    sample absMax
  1      A  0.465
  2      B  0.402
  3      C  0.474
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 47 ]
  > 
  > proc.time()
     user  system elapsed 
     4.09    0.54    4.62
Running 'testthat.R' [168s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > 
  > test_check("AnglerCreelSurveySimulation")
  Loading required package: AnglerCreelSurveySimulation
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 17 ]
  > 
  > proc.time()
     user  system elapsed 
     1.25    0.26    1.50
Running 'testthat.R' [166s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(angstroms)
  Loading required package: raster
  Loading required package: sp
  > 
  > test_check("angstroms")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 2 ]
  > 
  > proc.time()
     user  system elapsed 
     6.85    0.45    7.31
Running 'testthat.R' [176s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ANN2)
  > 
  > # Only test if not on mac
  > if (tolower(Sys.info()[["sysname"]]) != "darwin") {
  +   test_check("ANN2")
  + }
  [ FAIL 0 | WARN 1 | SKIP 4 | PASS 148 ]
  
  ══ Skipped tests (4) ═══════════════════════════════════════════════════════════
  • On CRAN (4): 'test-cpp.R:4:5', 'test-gradient.R:91:3',
    'test-gradient.R:123:3', 'test-gradient.R:159:3'
  
  [ FAIL 0 | WARN 1 | SKIP 4 | PASS 148 ]
  > 
  > proc.time()
     user  system elapsed 
     3.14    0.34    3.50
Running 'annmatrix.R' [0s]
  Comparing 'annmatrix.Rout' to 'annmatrix.Rout.save' ... OK
  Running 'zz-check.r' [171s]
Running the tests in 'tests/zz-check.r' failed.
Complete output:
  > # Copyright (C) 2022 Brodie Gaslam
  > 
  > # This file is part of "aammrtf - An Almost Most Minimal R Test Framework"
  > #
  > # This program is free software: you can redistribute it and/or modify
  > # it under the terms of the GNU General Public License as published by
  > # the Free Software Foundation, either version 2 or 3 of the License.
  > #
  > # This program is distributed in the hope that it will be useful,
  > # but WITHOUT ANY WARRANTY; without even the implied warranty of
  > # MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
  > # GNU General Public License for more details.
  > #
  > # Go to <https://www.r-project.org/Licenses/GPL-2> for a copy of the license.
  > 
  > flist  <- function(x, y) paste0(x, paste0("'", basename(y), "'", collapse=", "))
  > report <- function(x) {writeLines(character(13)); stop(x, call.=FALSE)}
  > 
  > outs    <- list.files(pattern="\\.Rout$")
  > noascii <- which(lengths(lapply(outs, tools::showNonASCIIfile)) > 0)
  > if(length(noascii)) warning(flist("Outputs with non-ASCII:\n", outs[noascii]))
  > 
  > tar  <- list.files(pattern='\\.Rout\\.save$', full.names=TRUE)
  > cur  <- file.path(dirname(tar), sub('\\.save$', '', basename(tar)))
  > awol <- !file.exists(cur)
  > 
  > if(any(awol)) report(flist(".Rout files missing (failed?):\n", cur[awol]))
  > 
  > diffs <- Map(tools::Rdiff, tar[!awol], cur[!awol], useDiff=TRUE, Log=TRUE)
  > diffs <- vapply(diffs, '[[', 1, 'status')
  > if(any(!!diffs)) report(flist("Test output differences:\n", cur[!!diffs]))
  > 
  > proc.time()
     user  system elapsed 
     0.21    0.07    0.40
Running 'spelling.R' [170s]
  Running 'testthat.R' [1s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.14    0.14    0.20
Running 'testthat.R' [177s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > test_check("ANOFA")
  Loading required package: ANOFA
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 176 ]
  > 
  > proc.time()
     user  system elapsed 
     3.15    0.46    3.56
Running 'testthat.R' [162s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(anovir)
  Loading required package: bbmle
  Loading required package: stats4
  > 
  > test_check("anovir")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 18 ]
  > 
  > proc.time()
     user  system elapsed 
     2.00    0.31    2.29
Running 'testthat.R' [176s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(antaresViz)
  Loading required package: antaresRead
  Loading required package: antaresProcessing
  
  Attaching package: 'antaresProcessing'
  
  The following object is masked from 'package:testthat':
  
      compare
  
  Loading required package: spMaps
  Loading required package: sf
  Linking to GEOS 3.11.2, GDAL 3.8.2, PROJ 9.3.1; sf_use_s2() is TRUE
  Loading required package: sp
  > 
  > test_check("antaresViz")
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 107 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 107 ]
  > 
  > proc.time()
     user  system elapsed 
     3.76    0.84    5.35
Running 'testthat.R' [263s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(anthro)
  > 
  > test_check("anthro")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 186 ]
  > 
  > proc.time()
     user  system elapsed 
    95.65    1.45   97.26
Running 'testthat.R' [173s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(anybadger)
  > 
  > test_check("anybadger")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 11 ]
  > 
  > proc.time()
     user  system elapsed 
     1.01    0.18    1.15
Running 'testthat.R' [173s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(anyLib)
  > 
  > test_check("anyLib")
  * installing *source* package 'dummyPackage' ...
  ** using staged installation
  ** R
  ** byte-compile and prepare package for lazy loading
  ** help
  *** installing help indices
  ** building package indices
  ** testing if installed package can be loaded from temporary location
  ** testing if installed package can be loaded from final location
  ** testing if installed package keeps a record of temporary installation path
  * DONE (dummyPackage)
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     0.65    0.10    2.90
Running 'testthat.R' [165s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(aoos)
  > 
  > test_check("aoos")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 190 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • empty test (1): 'test-DC-publicInterface.R:27:1'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 190 ]
  > 
  > proc.time()
     user  system elapsed 
     2.67    0.37    3.04
Running 'testthat.R' [167s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ao)
  Loading required package: optimizeR
  Thanks for using {ao} version 0.3.3, happy alternating optimization!
  Documentation: https://loelschlaeger.de/ao
  > 
  > test_check("ao")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 30 ]
  > 
  > proc.time()
     user  system elapsed 
     3.96    1.01    4.29
Running 'testthat.R' [169s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(aorsf)
  > 
  > test_check("aorsf")
  Selecting variables: 100%
  [ FAIL 0 | WARN 0 | SKIP 33 | PASS 443 ]
  
  ══ Skipped tests (33) ══════════════════════════════════════════════════════════
  • On CRAN (31): 'test-find_cutpoints.R:6:3', 'test-find_rows_inbag.R:6:3',
    'test-impute_meanmode.R:25:3', 'test-impute_meanmode.R:105:3',
    'test-orsf.R:77:3', 'test-orsf.R:110:3', 'test-orsf.R:180:3',
    'test-orsf.R:217:3', 'test-orsf.R:326:3', 'test-orsf.R:392:3',
    'test-orsf.R:464:3', 'test-orsf.R:492:3', 'test-orsf.R:513:3',
    'test-orsf.R:539:3', 'test-orsf.R:608:3', 'test-orsf.R:627:3',
    'test-orsf.R:760:3', 'test-orsf.R:874:3', 'test-orsf_pd.R:11:3',
    'test-orsf_pd.R:200:3', 'test-orsf_predict.R:543:3',
    'test-orsf_summary.R:48:3', 'test-orsf_train.R:7:3', 'test-orsf_vi.R:14:3',
    'test-orsf_vi.R:318:3', 'test-orsf_vi.R:454:3', 'test-orsf_vint.R:6:3',
    'test-unit_info.R:12:3', 'test-unit_info.R:46:2', 'test-unit_info.R:86:2',
    'test-unit_info.R:105:3'
  • Skipping (2): 'test-verbosity.R:7:3', 'test-verbosity.R:31:3'
  
  [ FAIL 0 | WARN 0 | SKIP 33 | PASS 443 ]
  > 
  > proc.time()
     user  system elapsed 
    16.57    4.29   17.65
Running 'testthat.R' [198s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(APCtools)
  > 
  > test_check("APCtools")
  Loading required package: nlme
  This is mgcv 1.9-1. For overview type 'help("mgcv-package")'.
  Excluding 9565 missing observations of mainTrip_distance...
  Excluding 9565 missing observations of mainTrip_distance...
  Excluding 9565 missing observations of mainTrip_distance...
  Excluding 10 missing observations of household_size...
  Excluding 10 missing observations of household_size...
  Excluding 9565 missing observations of mainTrip_distance...
  Excluding 9565 missing observations of mainTrip_distance...
  Excluding 10 missing observations of household_size...
  Excluding 9565 missing observations of mainTrip_distance...
  Excluding 9565 missing observations of mainTrip_distance...
  Excluding 9565 missing observations of mainTrip_distance...
  Excluding 2743 missing observations of mainTrip_distance...
  Excluding 2743 missing observations of mainTrip_distance...
  Excluding 2743 missing observations of mainTrip_distance...
  Excluding 2950 missing observations of mainTrip_distance...
  Excluding 2923 missing observations of mainTrip_distance...
  [ FAIL 0 | WARN 69 | SKIP 0 | PASS 90 ]
  
  [ FAIL 0 | WARN 69 | SKIP 0 | PASS 90 ]
  > 
  > proc.time()
     user  system elapsed 
    37.17    2.93   40.17
Running 'testthat.R' [179s]
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)
  > library(aPEAR)
  > 
  > test_check("aPEAR")
  
  Attaching package: 'dplyr'
  
  The following object is masked from 'package:testthat':
  
      matches
  
  The following objects are masked from 'package:stats':
  
      filter, lag
  
  The following objects are masked from 'package:base':
  
      intersect, setdiff, setequal, union
  
  [ FAIL 0 | WARN 4 | SKIP 0 | PASS 126 ]
  
  [ FAIL 0 | WARN 4 | SKIP 0 | PASS 126 ]
  > 
  > proc.time()
     user  system elapsed 
     6.95    0.68    7.64
Documented arguments not in \usage in Rd file 'apercu.Rd':
  'c'

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' [150s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(apercu)
  > 
  > test_check("apercu")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 33 ]
  > 
  > proc.time()
     user  system elapsed 
     0.78    0.17    0.93
Running 'testthat.R' [160s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(aphid)
  > 
  > test_check("aphid")
  Applying uniform sequence weights
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 45 ]
  > 
  > proc.time()
     user  system elapsed 
     7.39    0.50    7.84
Running 'testthat.R' [171s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(apisensr)
  Loading required package: ggplot2
  Loading required package: episensr
  Thank you for using episensr!
  This is version 1.3.0 of episensr
  Type 'citation("episensr")' for citing this R package in publications.
  
  > 
  > #test_check("apisensr")
  > 
  > proc.time()
     user  system elapsed 
     1.59    0.42    2.01
installed size is  5.1Mb
  sub-directories of 1Mb or more:
    documents     2.4Mb
    libs          1.1Mb
    screenshots   1.6Mb
Running 'testthat.R' [166s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(appler)
  > 
  > test_check("appler")
  [ FAIL 0 | WARN 0 | SKIP 5 | PASS 0 ]
  
  ══ Skipped tests (5) ═══════════════════════════════════════════════════════════
  • On CRAN (5): 'test-chart.R:1:1', 'test-lookup.R:1:1', 'test-rating.R:1:1',
    'test-review.R:1:1', 'test-search.R:1:1'
  
  [ FAIL 0 | WARN 0 | SKIP 5 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     0.71    0.10    0.81
Running 'spelling.R' [0s]
  Running 'testthat.R' [167s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(applicable)
  Loading required package: ggplot2
  > 
  > test_check("applicable")
  Loading required package: dplyr
  
  Attaching package: 'dplyr'
  
  The following object is masked from 'package:testthat':
  
      matches
  
  The following objects are masked from 'package:stats':
  
      filter, lag
  
  The following objects are masked from 'package:base':
  
      intersect, setdiff, setequal, union
  
  
  Attaching package: 'recipes'
  
  The following object is masked from 'package:stats':
  
      step
  
  
  Attaching package: 'proxyC'
  
  The following object is masked from 'package:stats':
  
      dist
  
  [ FAIL 0 | WARN 0 | SKIP 22 | PASS 93 ]
  
  ══ Skipped tests (22) ══════════════════════════════════════════════════════════
  • On CRAN (22): 'test-hat_values-fit.R:15:3', 'test-hat_values-fit.R:21:3',
    'test-hat_values-fit.R:111:3', 'test-hat_values-fit.R:123:3',
    'test-hat_values-score.R:2:3', 'test-hat_values-score.R:9:3',
    'test-hat_values-score.R:17:3', 'test-isolation-fit.R:38:3',
    'test-misc.R:3:3', 'test-pca-fit.R:21:3', 'test-pca-fit.R:27:3',
    'test-pca-score.R:2:3', 'test-pca-score.R:9:3', 'test-pca-score.R:17:3',
    'test-print.R:4:3', 'test-print.R:36:3', 'test-similarity.R:117:3',
    'test-similarity.R:128:3', 'test-similarity.R:147:3',
    'test-similarity.R:171:3', 'test-similarity.R:186:3',
    'test-similarity.R:202:3'
  
  [ FAIL 0 | WARN 0 | SKIP 22 | PASS 93 ]
  > 
  > proc.time()
     user  system elapsed 
     6.35    0.75    7.09
installed size is  6.8Mb
  sub-directories of 1Mb or more:
    extdata   5.4Mb
Running 'testthat.R' [164s]
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)
  > library(arcgeocoder)
  > 
  > test_check("arcgeocoder")
  Starting 2 test processes
  [ FAIL 0 | WARN 0 | SKIP 26 | PASS 12 ]
  
  ══ Skipped tests (26) ══════════════════════════════════════════════════════════
  • On CRAN (26): 'test-arc_geo_categories.R:2:3',
    'test-arc_geo_categories.R:27:3', 'test-arc_geo_categories.R:67:3',
    'test-arc_geo_categories.R:124:3', 'test-arc_geo.R:2:3',
    'test-arc_geo.R:37:3', 'test-arc_geo.R:51:3', 'test-arc_geo.R:62:3',
    'test-arc_geo.R:142:3', 'test-arc_geo.R:167:3', 'test-arc_geo.R:182:3',
    'test-arc_geo_multi.R:2:3', 'test-arc_geo_multi.R:32:3',
    'test-arc_geo_multi.R:51:3', 'test-arc_geo_multi.R:62:3',
    'test-arc_geo_multi.R:151:3', 'test-arc_geo_multi.R:182:3',
    'test-arc_geo_multi.R:197:3', 'test-arc_reverse_geo.R:2:3',
    'test-arc_reverse_geo.R:17:3', 'test-arc_reverse_geo.R:36:3',
    'test-arc_reverse_geo.R:67:3', 'test-arc_reverse_geo.R:77:3',
    'test-arc_reverse_geo.R:142:3', 'test-arc_reverse_geo.R:164:3',
    'test-arc_reverse_geo.R:189:3'
  
  [ FAIL 0 | WARN 0 | SKIP 26 | PASS 12 ]
  > 
  > proc.time()
     user  system elapsed 
     1.84    0.29    3.23
Package suggested but not available for checking: 'arcgisbinding'
Warning: parse error in file 'lines':
58: unexpected ')'
49: ## End(Not run)
50:                           exportFile = "MinMaxPhases.csv")
                                                             ^
** will not attempt to run examples
Running 'testthat.R' [184s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(archeofrag)
  > 
  > test_check("archeofrag")
              H1 != H2? p.value Obs. value/H1 Obs. value/H2
  edges            TRUE    0.02         lower        within
  weightsum       FALSE    0.06         lower        within
  balance         FALSE    0.45        higher        higher
  disturbance     FALSE     0.9         lower         lower
  admixture       FALSE    0.98        within        within
  cohesion1       FALSE    0.05        within        higher
  cohesion2       FALSE    0.07        within         lower
  [ FAIL 0 | WARN 2 | SKIP 0 | PASS 62 ]
  
  [ FAIL 0 | WARN 2 | SKIP 0 | PASS 62 ]
  > 
  > proc.time()
     user  system elapsed 
    33.04    1.43   34.51
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(archeoViz)
  > 
  > test_check("archeoViz")
  10 X squares, but 9 labels provided: 1, 2, 3, 4, 5, 6, 7, 8, 9.
  
  100 X squares, but 10 labels provided: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10.
  
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 83 ]
  > 
  > proc.time()
     user  system elapsed 
     3.92    0.79    4.82
Running 'testthat.R' [178s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(arcpullr)
  Loading required package: sf
  Linking to GEOS 3.11.2, GDAL 3.8.2, PROJ 9.3.1; sf_use_s2() is TRUE
  > 
  > test_check("arcpullr")
  [ FAIL 0 | WARN 7 | SKIP 0 | PASS 52 ]
  
  [ FAIL 0 | WARN 7 | SKIP 0 | PASS 52 ]
  > 
  > proc.time()
     user  system elapsed 
    10.59    1.10   11.61
Running 'testthat.R' [183s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(arctools)
  > 
  > test_check("arctools")
  [ FAIL 0 | WARN 52 | SKIP 37 | PASS 0 ]
  
  ══ Skipped tests (37) ══════════════════════════════════════════════════════════
  • On CRAN (37): 'test-activity_stats.R:46:3', 'test-activity_stats.R:67:3',
    'test-activity_stats.R:75:3', 'test-get_actigraph_SN.R:7:3',
    'test-get_valid_day_flag.R:68:3', 'test-get_valid_day_flag.R:81:3',
    'test-get_valid_day_flag.R:92:3', 'test-get_valid_day_flag.R:104:3',
    'test-get_valid_day_flag.R:115:3', 'test-get_valid_day_flag.R:123:3',
    'test-get_valid_day_flag.R:131:3', 'test-get_wear_flag.R:62:3',
    'test-get_wear_flag.R:75:3', 'test-get_wear_flag.R:87:3',
    'test-get_wear_flag.R:100:3', 'test-get_wear_flag.R:107:3',
    'test-get_wear_flag.R:115:3', 'test-get_wear_flag.R:123:3',
    'test-get_wear_flag.R:132:3', 'test-get_wear_flag.R:139:3',
    'test-impute_missing_data.R:107:3', 'test-impute_missing_data.R:123:3',
    'test-impute_missing_data.R:136:3', 'test-impute_missing_data.R:150:3',
    'test-impute_missing_data.R:158:3', 'test-impute_missing_data.R:177:3',
    'test-impute_missing_data.R:188:3', 'test-summarize_PA.R:255:3',
    'test-summarize_PA.R:268:3', 'test-summarize_PA.R:332:3',
    'test-summarize_PA.R:344:3', 'test-summarize_PA.R:406:3',
    'test-summarize_PA.R:418:3', 'test-summarize_PA.R:492:3',
    'test-summarize_PA.R:504:3', 'test-summarize_PA.R:534:3',
    'test-summarize_PA.R:556:3'
  
  [ FAIL 0 | WARN 52 | SKIP 37 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     21.9     1.6    23.5
Running 'testthat.R' [276s]
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)
  > library(ARDL)
  To cite the ARDL package in publications:
  
  Use this reference to refer to the validity of the ARDL package.
  
    Natsiopoulos, Kleanthis, and Tzeremes, Nickolaos G. (2022). ARDL
    bounds test for cointegration: Replicating the Pesaran et al. (2001)
    results for the UK earnings equation using R. Journal of Applied
    Econometrics, 37(5), 1079-1090. https://doi.org/10.1002/jae.2919
  
  Use this reference to cite this specific version of the ARDL package.
  
    Kleanthis Natsiopoulos and Nickolaos Tzeremes (2023). ARDL: ARDL, ECM
    and Bounds-Test for Cointegration. R package version 0.2.4.
    https://CRAN.R-project.org/package=ARDL
  > 
  > test_check("ARDL")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 191 ]
  > 
  > proc.time()
     user  system elapsed 
   119.12    5.51  124.76
Running 'testthat.R' [193s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > 
  > test_check("arealDB")
  Loading required package: arealDB
   -> press any key when done: 
   -> press any key when done: 
   -> press any key when done: 
  
  
  
  
  
  
  
  
  
  
   -> press any key when done: 
   -> press any key when done: 
   -> press any key when done: 
  [ FAIL 0 | WARN 0 | SKIP 4 | PASS 106 ]
  
  ══ Skipped tests (4) ═══════════════════════════════════════════════════════════
  • empty test (4): 'test_matchOntology.R:7:1', 'test_matchOntology.R:12:1',
    'test_matchOntology.R:17:1', 'test_matchOntology.R:22:1'
  
  [ FAIL 0 | WARN 0 | SKIP 4 | PASS 106 ]
  > 
  > proc.time()
     user  system elapsed 
    34.35   10.09   37.64
Running 'testthat.R' [160s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(area)
  > 
  > test_check("area")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 8 ]
  > 
  > proc.time()
     user  system elapsed 
     0.68    0.15    0.82
Running 'testthat.R' [172s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(arena2r)
  > 
  > test_check("arena2r")
  [ FAIL 0 | WARN 6 | SKIP 0 | PASS 7 ]
  
  [ FAIL 0 | WARN 6 | SKIP 0 | PASS 7 ]
  > 
  > proc.time()
     user  system elapsed 
     1.39    0.28    1.62
Running 'testthat.R' [165s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > # library(ARGOS)
  > # devtools::load_all(".")
  > # devtools::test()
  > # devtools::test("tests/testthat")
  > library(testthat)
  > library(ARGOS)  # Your package
  > test_check("ARGOS")  # Your package name
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 6 ]
  > 
  > proc.time()
     user  system elapsed 
     4.81    0.76    5.56
Running 'run-all.R' [197s]
Running the tests in 'tests/run-all.R' failed.
Complete output:
  > library("testthat")
  > 
  > test_check("argparse")
  Loading required package: argparse
  [ FAIL 0 | WARN 0 | SKIP 6 | PASS 81 ]
  
  ══ Skipped tests (6) ═══════════════════════════════════════════════════════════
  • On Windows (4): 'test-argparse.R:248:5', 'test-argparse.R:269:5',
    'test-argparse.R:282:5', 'test-argparse.R:358:5'
  • Skip passing -h if not interactive() (1): 'test-argparse.R:200:5'
  • interactive() == FALSE (1): 'test-argparse.R:37:5'
  
  [ FAIL 0 | WARN 0 | SKIP 6 | PASS 81 ]
  > 
  > proc.time()
     user  system elapsed 
     1.43    3.26   31.03
Running 'spelling.R' [0s]
  Running 'testthat.R' [164s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(aricode)
  > test_check("aricode")
  
  -numeric type-
  -integer type-
  -character type-
  -factor type-
  -different types-
  -NA-
  -different sizes-
  -list type-
  -matrix type-
  -data.frame type-[ FAIL 0 | WARN 3 | SKIP 0 | PASS 29 ]
  
  [ FAIL 0 | WARN 3 | SKIP 0 | PASS 29 ]
  > 
  > proc.time()
     user  system elapsed 
     5.09    0.34    5.37
Running 'testthat.R' [166s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(methods)
  > library(testthat)
  > library(ari)
  > library(tuneR)
  > library(purrr)
  
  Attaching package: 'purrr'
  
  The following object is masked from 'package:testthat':
  
      is_null
  
  > 
  > skip_amazon_not_authorized = function() {
  +   # Skip if on CRAN
  +   if(!identical(Sys.getenv("NOT_CRAN"), "true")) {
  +     skip("Amazon not authenticated()")
  +   }
  + 
  +   # Skip if Amazon is not authorized 
  +   # if (text2speech::tts_amazon_authenticated()) {
  +   #   return(invisible(TRUE))
  +   # }
  + 
  +   # Eventually test2speech will be updated so that it no longer needs
  +   # the aws.polly package. Until then we need to skip these tests during
  +   # automated tests.
  +   
  +   skip("Amazon not authenticated()")
  + }
  > 
  > test_check("ari")
  [ FAIL 0 | WARN 0 | SKIP 5 | PASS 1 ]
  
  ══ Skipped tests (5) ═══════════════════════════════════════════════════════════
  • On CRAN (5): 'test_ari_narrate.R:32:3', 'test_ari_narrate.R:49:3',
    'test_ari_narrate.R:65:3', 'test_ari_spin.R:72:3', 'test_ari_stitch.R:20:3'
  
  [ FAIL 0 | WARN 0 | SKIP 5 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     1.53    0.39    1.89
Running 'spelling.R' [0s]
  Running 'testthat.R' [260s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(arkdb)
  > 
  > test_check("arkdb")
  [1] "Testing using backend duckdb_connection"
  [ FAIL 0 | WARN 7 | SKIP 9 | PASS 48 ]
  
  ══ Skipped tests (9) ═══════════════════════════════════════════════════════════
  • MonetDBLite cannot be loaded (2): 'test-arkdb.R:132:3',
    'test-local_db.R:24:3'
  • On CRAN (6): 'test-arkdb.R:287:3', 'test-bulk-import.R:6:3',
    'test-bulk-import.R:72:3', 'test-errors.R:12:3', 'test-errors.R:34:3',
    'test-errors.R:53:3'
  • On Windows (1): 'test-arkdb.R:313:3'
  
  [ FAIL 0 | WARN 7 | SKIP 9 | PASS 48 ]
  Warning messages:
  1: Database is garbage-collected, use dbDisconnect(con, shutdown=TRUE) or duckdb::duckdb_shutdown(drv) to avoid this. 
  2: Connection is garbage-collected, use dbDisconnect() to avoid this. 
  3: Database is garbage-collected, use dbDisconnect(con, shutdown=TRUE) or duckdb::duckdb_shutdown(drv) to avoid this. 
  4: Database is garbage-collected, use dbDisconnect(con, shutdown=TRUE) or duckdb::duckdb_shutdown(drv) to avoid this. 
  5: Database is garbage-collected, use dbDisconnect(con, shutdown=TRUE) or duckdb::duckdb_shutdown(drv) to avoid this. 
  6: Database is garbage-collected, use dbDisconnect(con, shutdown=TRUE) or duckdb::duckdb_shutdown(drv) to avoid this. 
  7: Database is garbage-collected, use dbDisconnect(con, shutdown=TRUE) or duckdb::duckdb_shutdown(drv) to avoid this. 
  8: Database is garbage-collected, use dbDisconnect(con, shutdown=TRUE) or duckdb::duckdb_shutdown(drv) to avoid this. 
  9: Database is garbage-collected, use dbDisconnect(con, shutdown=TRUE) or duckdb::duckdb_shutdown(drv) to avoid this. 
  > 
  > proc.time()
     user  system elapsed 
   104.68    7.79  101.39
Running 'testthat.R' [157s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(armspp)
  > 
  > test_check('armspp')
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 18 ]
  > 
  > proc.time()
     user  system elapsed 
     0.93    0.20    1.12
installed size is  5.3Mb
  sub-directories of 1Mb or more:
    R      2.3Mb
    help   1.2Mb
Running 'testthat.R' [160s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(arpr)
  > 
  > test_check("arpr")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     0.48    0.12    0.59
Running 'testthat.R' [164s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(arrApply)
  > 
  > test_check("arrApply")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 220 ]
  > 
  > proc.time()
     user  system elapsed 
     1.17    0.23    1.40
Running 'tests.R' [157s]
Running the tests in 'tests/tests.R' failed.
Complete output:
  > library ("arrayhelpers")
  Package arrayhelpers, version 1.1-0
  
  If you use this package please cite it appropriately.
     citation("arrayhelpers")
  will give you the correct reference.
  
  The project homepage is http://arrayhelpers.r-forge.r-project.org/
  
  
  > arrayhelpers.unittest ()
                     kind msg
  test(restoredim)     OK    
  test(.rowMeans)      OK    
  test(ndim)           OK    
  test(.rowSums)       OK    
  test(makeNd)         OK    
  test(numericindex)   OK    
  test(slice)          OK    
  test(slice<-)        OK    
  test(delold)         OK    
  test(.colMeans)      OK    
  test(ensuredim)      OK    
  test(drop1d)         OK    
  test(array2df)       OK    
  test(.colSums)       OK    
  test(ta)             OK    
  test(groupsum)       OK    
  > 
  > 
  > proc.time()
     user  system elapsed 
     0.31    0.06    0.35
Installation failed.
See 'd:/Rcompile/CRANpkg/local/4.4/arrow.Rcheck/00install.out' for details.
Running 'testthat.R' [223s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(aRtsy)
  > 
  > test_check("aRtsy")
  
   [Palettes] Runtime: 0.00089 seconds
  
   [Strokes] Runtime: 0.41455 seconds
  
   [Ribbons] Runtime: 0.01992 seconds
  
   [Turmite] Runtime: 0.06252 seconds
  
   [Ant] Runtime: 0.04014 seconds
  
   [Planet] Runtime: 2.05554 seconds
  
   [Squares] Runtime: 0.02948 seconds
  
   [Circlemap] Runtime: 1.79735 seconds
  
   [Function] Runtime: 0.35386 seconds
  
   [Polylines] Runtime: 0.0196 seconds
  
   [Diamonds] Runtime: 0.20018 seconds
  
   [Segments] Runtime: 0.16953 seconds
  
   [Mandelbrot] Runtime: 1.00811 seconds
  
   [Collatz] Runtime: 0.59448 seconds
  
   [Mosaic] Runtime: 11.18931 seconds
  
   [Forest] Runtime: 7.37108 seconds
  
   [Gemstone] Runtime: 5.42166 seconds
  
   [Blacklight] Runtime: 11.42125 seconds
  
   [Stripes] Runtime: 0.02167 seconds
  
   [Nebula] Runtime: 6.17025 seconds
  
   [Watercolors] Runtime: 2.64749 seconds
  
   [Flow] Runtime: 0.74884 seconds
  
   [Maze] Runtime: 1.53684 seconds
  
   [Recaman] Runtime: 0.01874 seconds
  
   [Phyllotaxis] Runtime: 0.1384 seconds
  
   [Cobweb] Runtime: 0.95796 seconds
  
   [Chladni] Runtime: 0.1455 seconds
  
   [Petri] Runtime: 0.30366 seconds
  
   [Splits] Runtime: 0.03451 seconds
  
   [Mesh] Runtime: 0.08438 seconds
  
   [Flame] Runtime: 1.00377 seconds
  
   [Smoke] Runtime: 0.00655 seconds
  
   [Tiles] Runtime: 0.72481 seconds
  
   [Swirls] Runtime: 0.03303 seconds
  
   [Lissajous] Runtime: 0.70843 seconds
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 35 ]
  > 
  > proc.time()
     user  system elapsed 
    54.34    4.51   58.79
installed size is 14.3Mb
  sub-directories of 1Mb or more:
    bin   11.3Mb
    misc   2.1Mb
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(asciiruler)
  > 
  > test_check("asciiruler")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 14 ]
  > 
  > proc.time()
     user  system elapsed 
     0.79    0.17    0.95
Running 'spelling.R' [164s]
  Running 'testthat.R' [187s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.18    0.06    0.21 
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ascotraceR)
  > 
  > test_check("ascotraceR")
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 333 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 333 ]
  > 
  > proc.time()
     user  system elapsed 
    19.98    1.26   21.20
Running 'testthat.R' [169s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ASGS.foyer)
  > 
  > test_check("ASGS.foyer")
  <anonymous>: parameter 'url.tar.gz' changed by assignment
  <anonymous>: local variable 'url.tar.gzs' assigned but may not be used
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 3 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On CRAN (2): 'test-install_asgs.R:4:3', 'test-install_asgs.R:29:3'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 3 ]
  > 
  > proc.time()
     user  system elapsed 
     1.60    0.31    1.85
Running 'testthat.R' [228s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ashr)
  > context("ashr")
  > test_check("ashr")
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 129 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On CRAN (2): 'test_optmethod.R:4:3', 'test_w_mixEM.R:16:3'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 129 ]
  > 
  > proc.time()
     user  system elapsed 
    66.60    3.32   69.98
Running 'simpleTests.R' [172s]
Running the tests in 'tests/simpleTests.R' failed.
Complete output:
  > 
  > ## super-simple
  > ## TODO: proper RUnit tests of a compilation or two
  > 
  > stopifnot(system.file("include", "asio.hpp", package="AsioHeaders") != "")
  > 
  > proc.time()
     user  system elapsed 
     0.21    0.04    0.23
Running 'testthat.R' [157s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(assertive.matrices)
  > 
  > test_check("assertive.matrices")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 5 ]
  > 
  > proc.time()
     user  system elapsed 
     0.67    0.15    0.81
Running 'testthat.R' [151s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(assertive.sets)
  > 
  > test_check("assertive.sets")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 21 ]
  > 
  > proc.time()
     user  system elapsed 
     0.78    0.15    0.90
Running 'testthat.R' [166s]
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)
  > library(assertr)
  > 
  > test_check("assertr")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 639 ]
  > 
  > proc.time()
     user  system elapsed 
     6.51    0.85    7.37
Running 'testthat.R' [164s]
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)
  > library(assessor)
  > 
  > test_check("assessor")
  Classes and Methods for R originally developed in the
  Political Science Computational Laboratory
  Department of Political Science
  Stanford University (2002-2015),
  by and under the direction of Simon Jackman.
  hurdle and zeroinfl functions by Achim Zeileis.
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 13 ]
  > 
  > proc.time()
     user  system elapsed 
     5.76    0.57    6.31
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(AssetAllocation)
  > 
  > test_check("AssetAllocation")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 11 ]
  > 
  > proc.time()
     user  system elapsed 
     7.76    0.48    8.25
Running 'testthat.R' [186s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(assignR)
  knownOrig database version 0.2, 4352 samples from 1986 sites.
  > 
  > test_check("assignR")
  trying URL 'https://wateriso.utah.edu/waterisotopes/media/ArcGrids/CaribSr.zip'
  Content type 'application/zip' length 5393557 bytes (5.1 MB)
  ==================================================
  downloaded 5.1 MB
  
  [ FAIL 0 | WARN 2 | SKIP 0 | PASS 99 ]
  
  [ FAIL 0 | WARN 2 | SKIP 0 | PASS 99 ]
  > 
  > proc.time()
     user  system elapsed 
    16.82    2.51   25.59
Package suggested but not available for checking: 'asteRiskData'
installed size is  5.1Mb
  sub-directories of 1Mb or more:
    doc    2.6Mb
    libs   1.0Mb
Running 'spelling.R' [169s]
  Running 'testthat.R' [156s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.17    0.06    0.21 
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(asymptor)
  > 
  > test_check("asymptor")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 7 ]
  > 
  > proc.time()
     user  system elapsed 
     0.76    0.12    0.82
Running 'testthat.R' [181s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ATbounds)
  > 
  > test_check("ATbounds")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 11 ]
  > 
  > proc.time()
     user  system elapsed 
     7.57    1.35    8.93
Running 'testthat.R' [163s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > if(require(testthat))test_check("atime")
  Loading required package: testthat
  Loading required package: atime
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 44 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 44 ]
  > 
  > proc.time()
     user  system elapsed 
     6.01    1.31    8.11
Running 'testthat.R' [202s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ATNr)
  > 
  > test_check("ATNr")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 44 ]
  > 
  > proc.time()
     user  system elapsed 
    43.20    0.51   42.20
Running 'test-all.R' [169s]
Running the tests in 'tests/test-all.R' failed.
Complete output:
  > library(testthat)
  > library(atom4R)
  > test_check("atom4R")
  [atom4R][INFO] Object 'DCEntry' is VALID according to Atom XML schemas! 
  [ FAIL 0 | WARN 0 | SKIP 5 | PASS 2 ]
  
  ══ Skipped tests (5) ═══════════════════════════════════════════════════════════
  • On CRAN (5): 'test_AtomEntry.R:13:3', 'test_AtomEntry.R:60:3',
    'test_AtomFeed.R:13:3', 'test_DCElement.R:13:3', 'test_DCEntry.R:13:3'
  
  [ FAIL 0 | WARN 0 | SKIP 5 | PASS 2 ]
  > 
  > proc.time()
     user  system elapsed 
     3.90    0.59    4.65
Running 'testthat.R' [225s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(attrib)
  attrib 2021.1.2 https://folkehelseinstituttet.github.io/attrib
  > 
  > test_check("attrib")
  
    |                                                                            
    |                                                                      |   0%
    |                                                                            
    |===================================                                   |  50%
    |                                                                            
    |======================================================================| 100%[ FAIL 0 | WARN 0 | SKIP 0 | PASS 8 ]
  > 
  > proc.time()
     user  system elapsed 
    64.59    3.59   67.51
Running 'testthat.R' [168s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(auctestr)
  > 
  > test_check("auctestr")
  [ FAIL 0 | WARN 4 | SKIP 0 | PASS 12 ]
  
  [ FAIL 0 | WARN 4 | SKIP 0 | PASS 12 ]
  > 
  > proc.time()
     user  system elapsed 
     1.20    0.26    1.45
Running 'testthat.R' [157s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(auctionr)
  > 
  > test_check("auctionr")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 16 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-auction_model.R:26:3'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 16 ]
  > 
  > proc.time()
     user  system elapsed 
     0.84    0.18    0.98
Running 'testthat.R' [175s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(auk)
  auk 0.7.0 is designed for EBD files downloaded after 2023-10-25. 
  No EBD data directory set, see ?auk_set_ebd_path to set EBD_PATH 
  eBird taxonomy version:  2023
  > 
  > test_check("auk")
  [ FAIL 0 | WARN 0 | SKIP 10 | PASS 257 ]
  
  ══ Skipped tests (10) ══════════════════════════════════════════════════════════
  • On CRAN (10): 'test_auk-filter.r:3:1', 'test_auk-keep-drop.r:3:1',
    'test_auk-select.r:3:1', 'test_auk-split.r:4:1', 'test_ebird-species.r:49:3',
    'test_filters.r:3:1', 'test_get-ebird-taxonomy.r:10:3',
    'test_get-ebird-taxonomy.r:24:3', 'test_get-ebird-taxonomy.r:36:3',
    'test_get-ebird-taxonomy.r:48:3'
  
  [ FAIL 0 | WARN 0 | SKIP 10 | PASS 257 ]
  > 
  > proc.time()
     user  system elapsed 
    18.50    8.65   22.04
Running 'testthat.R' [171s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(autocogs)
  > 
  > test_check("autocogs")
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 250 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 250 ]
  > 
  > proc.time()
     user  system elapsed 
     6.78    0.54    7.29
Running 'testthat.R' [194s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library("testthat")
  > library("autokeras")
  > 
  > test_check("autokeras")
  [ FAIL 0 | WARN 0 | SKIP 7 | PASS 0 ]
  
  ══ Skipped tests (7) ═══════════════════════════════════════════════════════════
  • !reticulate::py_module_available("autokeras") is TRUE (7):
    'test-can_create_objects.R:4:3', 'test-can_create_objects.R:12:3',
    'test-can_create_objects.R:20:3', 'test-can_create_objects.R:28:3',
    'test-can_create_objects.R:36:3', 'test-can_create_objects.R:44:3',
    'test-common_workflow.R:5:3'
  
  [ FAIL 0 | WARN 0 | SKIP 7 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     2.29    0.75   44.40
Running 'testthat.R' [151s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(automagic)
  > 
  > test_check("automagic")
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 2 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 2 ]
  > 
  > proc.time()
     user  system elapsed 
     0.73    0.09    0.81
Running 'testthat.R' [164s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(autoplotly)
  > 
  > test_check("autoplotly")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 7 ]
  > 
  > proc.time()
     user  system elapsed 
     2.62    0.29    3.10
Running 'testthat.R' [162s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(available)
  > 
  > test_check("available")
  [ FAIL 0 | WARN 0 | SKIP 8 | PASS 13 ]
  
  ══ Skipped tests (8) ═══════════════════════════════════════════════════════════
  • On CRAN (8): 'test-badwords.R:4:3', 'test-badwords.R:10:3',
    'test-bioc.R:4:3', 'test-bioc.R:10:3', 'test-cran.R:4:3', 'test-cran.R:10:3',
    'test-github.R:4:3', 'test-github.R:10:3'
  
  [ FAIL 0 | WARN 0 | SKIP 8 | PASS 13 ]
  > 
  > proc.time()
     user  system elapsed 
     2.62    0.42    2.98
Running 'testthat.R' [161s]
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)
  > library(avesperu)
  This is avesperu 0.0.2
  > 
  > test_check("avesperu")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
  > 
  > proc.time()
     user  system elapsed 
     0.75    0.07    0.81
Running 'testthat.R' [164s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(avidaR)
  > 
  > test_check("avidaR")
  [ FAIL 0 | WARN 0 | SKIP 29 | PASS 30 ]
  
  ══ Skipped tests (29) ══════════════════════════════════════════════════════════
  • On CRAN (29): 'test_get_db_summary.R:3:3',
    'test_get_docker_image_from_experiment_id.R:3:3',
    'test_get_doi_from_experiment_id.R:3:3',
    'test_get_experiment_id_from_organism_id.R:3:3',
    'test_get_genome_id_from_genome_seq.R:3:3',
    'test_get_genome_id_from_logic_operation.R:3:3',
    'test_get_genome_id_from_phenotype_id.R:3:3',
    'test_get_genome_id_from_transcriptome_id.R:3:3',
    'test_get_genome_id_of_wild_type_organisms.R:3:3',
    'test_get_genome_seq_from_genome_id.R:3:3',
    'test_get_logic_operation_from_phenotype_id.R:3:3',
    'test_get_mutant_at_pos.R:3:3', 'test_get_phenotype_id_from_genome_id.R:3:3',
    'test_get_phenotype_id_from_genome_seq.R:3:3',
    'test_get_phenotype_id_from_logic_operation.R:3:3',
    'test_get_phenotype_id_from_transcriptome_id.R:3:3',
    'test_get_tandem_id_from_genome_id.R:3:3',
    'test_get_tandem_id_from_genome_seq.R:3:3',
    'test_get_tandem_id_from_logic_operation.R:3:3',
    'test_get_tandem_id_from_phenotype_id.R:3:3',
    'test_get_tandem_seq_from_tandem_id.R:3:3',
    'test_get_transcriptome_id_from_genome_id.R:3:3',
    'test_get_transcriptome_id_from_genome_seq.R:3:3',
    'test_get_transcriptome_id_from_logic_operation.R:3:3',
    'test_get_transcriptome_id_from_phenotype_id.R:3:3',
    'test_get_transcriptome_seq_from_transcriptome_id.R:3:3',
    'test_ontology.R:3:3', 'test_plot_transcriptome.R:3:3',
    'test_set_access_options.R:5:3'
  
  [ FAIL 0 | WARN 0 | SKIP 29 | PASS 30 ]
  > 
  > proc.time()
     user  system elapsed 
     2.31    0.39    2.68
installed size is 30.3Mb
  sub-directories of 1Mb or more:
    libs  29.5Mb
Running 'testthat.R' [190s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(av)
  > 
  > if (ps::ps_is_supported()) {
  +   # This sometimes has false positives on MacOS https://github.com/r-lib/ps/issues/90
  +   reporter <- ps::CleanupReporter(testthat::CheckReporter)$new(proc_cleanup = FALSE, proc_fail = FALSE, conn_fail = FALSE)
  +   test_check("av", reporter = reporter)
  + } else {
  +   test_check("av")
  + }
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 195 ]
  > 
  > proc.time()
     user  system elapsed 
    38.71    6.01   33.90
Running 'spelling.R' [0s]
  Running 'testthat.R' [160s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(aweek)
  > 
  > test_check("aweek")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 196 ]
  > 
  > proc.time()
     user  system elapsed 
     1.71    0.18    1.93
Running 'testthat.R' [145s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library("testthat")
  > library("aws.alexa")
  > 
  > token_file <- try(suppressWarnings(readLines("aws.alexa_key")), silent = TRUE)
  > if (!inherits(token_file, "try-error")) {
  +     key <- unlist(strsplit(token, ","))[1]
  +     secret <- unlist(strsplit(token, ","))[2]
  +     set_secret_key(key, secret)
  +     test_check("aws.alexa")
  + }
  > 
  > proc.time()
     user  system elapsed 
     0.82    0.15    0.95
Running 'testthat.R' [158s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library("testthat")
  > test_check("aws.signature")
  Loading required package: aws.signature
  [ FAIL 0 | WARN 0 | SKIP 7 | PASS 23 ]
  
  ══ Skipped tests (7) ═══════════════════════════════════════════════════════════
  • On CRAN (7): 'tests-locate_credentials.R:286:5',
    'tests-read_credentials.R:6:5', 'tests-read_credentials.R:11:5',
    'tests-read_credentials.R:22:5', 'tests-read_credentials.R:29:5',
    'tests-read_credentials.R:38:5', 'tests.R:142:5'
  
  [ FAIL 0 | WARN 0 | SKIP 7 | PASS 23 ]
  > 
  > proc.time()
     user  system elapsed 
     1.04    0.20    2.25
Running 'testthat.R' [158s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library("testthat")
  > library("aws.transcribe")
  > 
  > if (Sys.getenv("AWS_ACCESS_KEY_ID") != "") {
  +     test_check("aws.transcribe")
  + }
  > 
  > proc.time()
     user  system elapsed 
     0.43    0.09    0.51
Running 'testthat.R' [168s]
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)
  > library(aws.wrfsmn)
  > 
  > test_check("aws.wrfsmn")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 15 ]
  > 
  > proc.time()
     user  system elapsed 
     7.75    0.46   12.96
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(AzureAppInsights)
  
  Attaching package: 'AzureAppInsights'
  
  The following object is masked from 'package:utils':
  
      demo
  
  > 
  > local_edition(3)
  > 
  > test_check("AzureAppInsights")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 32 ]
  > 
  > proc.time()
     user  system elapsed 
     1.15    0.17    1.81
Running 'testthat.R' [162s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(AzureAuth)
  > 
  > test_check("AzureAuth")
  [ FAIL 0 | WARN 0 | SKIP 5 | PASS 30 ]
  
  ══ Skipped tests (5) ═══════════════════════════════════════════════════════════
  • Authentication tests skipped: ARM credentials not set (5):
    'test02_jwt.R:13:1', 'test10_v1_token.R:13:1', 'test11_v1_token_misc.R:15:1',
    'test20_v2_token.R:13:1', 'test21_v2_token_misc.R:15:1'
  
  [ FAIL 0 | WARN 0 | SKIP 5 | PASS 30 ]
  > 
  > proc.time()
     user  system elapsed 
     1.01    0.18    1.18
Running 'testthat.R' [169s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(AzureContainers)
  NOTE: docker binary not found
  NOTE: docker-compose binary not found
  NOTE: kubectl binary not found
  NOTE: helm binary not found
  > 
  > test_check("AzureContainers")
  [ FAIL 0 | WARN 0 | SKIP 9 | PASS 0 ]
  
  ══ Skipped tests (9) ═══════════════════════════════════════════════════════════
  • Tests skipped: ARM credentials not set (8): 'test01_acr.R:8:1',
    'test02_aci.R:8:1', 'test03a_aks_msi.R:8:1', 'test03b_aks_acr_msi.R:8:1',
    'test03c_aks_sp.R:8:1', 'test03d_aks_acr_sp.R:8:1',
    'test03e_aks_oldnodes.R:8:1', 'test03f_aks_private.R:8:1'
  • Tests skipped: external tools not found (1): 'test00_tools.R:3:1'
  
  [ FAIL 0 | WARN 0 | SKIP 9 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     0.73    0.31    1.03
Running 'testthat.R' [165s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(AzureGraph)
  > 
  > test_check("AzureGraph")
  [ FAIL 0 | WARN 0 | SKIP 6 | PASS 4 ]
  
  ══ Skipped tests (6) ═══════════════════════════════════════════════════════════
  • App method tests skipped: login credentials not set (1):
    'test02_app_sp.R:6:1'
  • Authentication tests skipped: Microsoft Graph credentials not set (1):
    'test01_auth.R:7:1'
  • Batch tests skipped: login credentials not set (1): 'test04_batch.R:6:1'
  • Paging tests skipped: login credentials not set (2): 'test05_pager.R:6:1',
    'test06_filter.R:6:1'
  • User method tests skipped: login credentials not set (1):
    'test03_usergrp.R:7:1'
  
  [ FAIL 0 | WARN 0 | SKIP 6 | PASS 4 ]
  > 
  > proc.time()
     user  system elapsed 
     0.81    0.20    1.01
Running 'testthat.R' [163s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(AzureKeyVault)
  > 
  > test_check("AzureKeyVault")
  [ FAIL 0 | WARN 0 | SKIP 7 | PASS 0 ]
  
  ══ Skipped tests (7) ═══════════════════════════════════════════════════════════
  • Certificate tests skipped: vault credentials not set (1):
    'test04_certs.R:8:1'
  • Key tests skipped: vault credentials not set (2): 'test02_keys.R:8:1',
    'test06_chartok.R:8:1'
  • Secret tests skipped: vault credentials not set (1): 'test03_secrets.R:8:1'
  • Storage account tests skipped: vault credentials not set (1):
    'test05_storage.R:11:1'
  • Tests skipped: ARM credentials not set (2): 'test01_resource.R:9:1',
    'test01a_softdelete.R:9:1'
  
  [ FAIL 0 | WARN 0 | SKIP 7 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     0.85    0.10    0.95
Running 'testthat.R' [176s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(AzureRMR)
  > 
  > test_check("AzureRMR")
  [ FAIL 0 | WARN 0 | SKIP 8 | PASS 15 ]
  
  ══ Skipped tests (8) ═══════════════════════════════════════════════════════════
  • Authentication tests skipped: ARM credentials not set (1):
    'test01_auth.R:8:1'
  • On CRAN (1): 'test00_pool.R:3:1'
  • RBAC method tests skipped: ARM credentials not set (1): 'test06_rbac.R:9:1'
  • Resource group method tests skipped: ARM credentials not set (4):
    'test03_rg.R:8:1', 'test04_resource.R:8:1', 'test04a_subresource.R:8:1',
    'test05b_template.R:8:1'
  • Subscription method tests skipped: ARM credentials not set (1):
    'test02_sub.R:8:1'
  
  [ FAIL 0 | WARN 0 | SKIP 8 | PASS 15 ]
  > 
  > proc.time()
     user  system elapsed 
     0.92    0.21    1.10
Running 'testthat.R' [164s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(AzureStor)
  > 
  > test_check("AzureStor")
  [ FAIL 0 | WARN 0 | SKIP 34 | PASS 0 ]
  
  ══ Skipped tests (34) ══════════════════════════════════════════════════════════
  • ARM credentials not set (2): 'test06_props.R:8:1', 'test07_metadata.R:8:1'
  • Authentication tests skipped: ARM credentials not set (28):
    'test01_resource.R:8:1', 'test02_blob.R:8:1', 'test02a_blobext.R:8:1',
    'test02b_blobdirs.R:8:1', 'test02c_blobappend.R:8:1',
    'test02d_blobdeldir.R:8:1', 'test02e_blobdirexist.R:8:1',
    'test02f_blobsnapshot.R:8:1', 'test02g_blobversion.R:8:1',
    'test03_file.R:8:1', 'test03a_fileext.R:8:1', 'test03b_filedeldir.R:8:1',
    'test03c_filedirexist.R:8:1', 'test04_adls.R:8:1', 'test04a_adlsext.R:8:1',
    'test04b_adlsdeldir.R:8:1', 'test04c_adlsdirexist.R:8:1',
    'test05_generics.R:8:1', 'test07a_content_type.R:8:1',
    'test08_interop1.R:8:1', 'test08a_interop2.R:8:1', 'test08b_interop3.R:8:1',
    'test08c_interop4.R:8:1', 'test09_azcopy.R:9:1', 'test11_enc.R:8:1',
    'test13_md5.R:8:1', 'test13a_azcopy_md5.R:9:1', 'test15_lease.R:8:1'
  • File format tests skipped: ARM credentials not set (1):
    'test14_format_helpers.R:8:1'
  • SAS tests skipped: ARM credentials not set (2): 'test10_sas.R:9:1',
    'test10a_service_sas.R:9:1'
  • Storage emulator tests skipped: Azurite not running (1):
    'test12_azurite.R:5:1'
  
  [ FAIL 0 | WARN 0 | SKIP 34 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     1.35    0.18    3.51
Running 'testthat.R' [168s]
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)
  > library(b64)
  > 
  > test_check("b64")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 10 ]
  > 
  > proc.time()
     user  system elapsed 
     0.90    0.12    1.01
Running 'testthat.R' [158s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(babelgene)
  > 
  > test_check("babelgene")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 84 ]
  > 
  > proc.time()
     user  system elapsed 
     7.89    0.60    8.43
Package suggested but not available for checking: 'lixoftConnectors'
installed size is  5.3Mb
  sub-directories of 1Mb or more:
    data   5.3Mb
Running 'testthat.R' [196s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(backShift)
  > 
  > test_check("backShift")
  [ FAIL 0 | WARN 31 | SKIP 0 | PASS 32 ]
  
  [ FAIL 0 | WARN 31 | SKIP 0 | PASS 32 ]
  > 
  > proc.time()
     user  system elapsed 
    36.15    2.15   38.35
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bacondecomp)
  > 
  > test_check("bacondecomp")
                        type  weight  avg_est
  1 Earlier vs Later Treated 0.05976 -0.00554
  2 Later vs Earlier Treated 0.03190  0.07032
  3     Treated vs Untreated 0.90834  0.08796
                    type  weight avg_est
  1         Both Treated 0.09121 0.02724
  2 Treated vs Untreated 0.90879 0.09002
                        type  weight  avg_est
  1 Earlier vs Later Treated 0.27800  0.23604
  2 Later vs Earlier Treated 0.13479 -0.02165
  3     Treated vs Untreated 0.58722  0.10182
                    type  weight avg_est
  1         Both Treated 0.09121 0.02724
  2 Treated vs Untreated 0.90879 0.09002
                    type  weight avg_est
  1         Both Treated 0.09121 0.02724
  2 Treated vs Untreated 0.90879 0.09002
                    type  weight avg_est
  1         Both Treated 0.10104 0.02453
  2 Treated vs Untreated 0.89896 0.09132
                    type  weight avg_est
  1         Both Treated 0.09121 0.02724
  2 Treated vs Untreated 0.90879 0.09002
                        type  weight  avg_est
  1 Earlier vs Later Treated 0.05976 -0.00554
  2 Later vs Earlier Treated 0.03190  0.07032
  3     Treated vs Untreated 0.90834  0.08796
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 23 ]
  > 
  > proc.time()
     user  system elapsed 
     2.79    0.40    3.14
Running 'testthat.R' [171s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(badger)
  > 
  > test_check("badger")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 30 ]
  > 
  > proc.time()
     user  system elapsed 
     1.07    0.29    2.75
Running 'testthat.r' [153s]
Running the tests in 'tests/testthat.r' failed.
Complete output:
  > library(testthat)
  > library(baffle)
  > 
  > test_check("baffle")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 13 ]
  > 
  > proc.time()
     user  system elapsed 
     0.75    0.15    0.89
installed size is  7.3Mb
  sub-directories of 1Mb or more:
    libs   5.6Mb
Running 'spelling.R' [168s]
  Running 'testthat.R' [7s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.17    0.07    0.23
installed size is  7.4Mb
  sub-directories of 1Mb or more:
    libs   5.7Mb
installed size is  5.4Mb
  sub-directories of 1Mb or more:
    data   1.1Mb
    libs   3.6Mb
installed size is  5.8Mb
  sub-directories of 1Mb or more:
    R     2.5Mb
    doc   1.8Mb
Running 'tinytest.R' [201s]
Running the tests in 'tests/tinytest.R' failed.
Complete output:
  > 
  > if ( requireNamespace("tinytest", quietly=TRUE) ){
  +   tinytest::test_package("banditpam")
  + }
  
  test_BanditPAM.R..............    0 tests    
  test_BanditPAM.R..............    0 tests    
  test_BanditPAM.R..............    0 tests    
  test_BanditPAM.R..............    0 tests    
  test_BanditPAM.R..............    0 tests    
  test_BanditPAM.R..............    0 tests    
  test_BanditPAM.R..............    0 tests    
  test_BanditPAM.R..............    0 tests    
  test_BanditPAM.R..............    0 tests    
  test_BanditPAM.R..............    0 tests    
  test_BanditPAM.R..............    0 tests    
  test_BanditPAM.R..............    0 tests    
  test_BanditPAM.R..............    0 tests    
  test_BanditPAM.R..............    0 tests    
  test_BanditPAM.R..............    0 tests    
  test_BanditPAM.R..............    0 tests    
  test_BanditPAM.R..............    0 tests    
  test_BanditPAM.R..............    4 tests [0;32mOK[0m [0;34m37.6s[0m
  All ok, 4 results (37.6s)
  > 
  > 
  > proc.time()
     user  system elapsed 
    39.25    0.25   37.89
Package suggested but not available for checking: 'fdpbandsdata'
Running 'testthat.R' [179s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bang)
  > 
  > test_check("bang")
  
   Call: hanova1(n = my_n, resp = RCP26_2[, 1], fac = RCP26_2[, 2], nrep = 50) 
  Model: anova1 
  Number of populations: 28 
  
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 211 ]
  > 
  > proc.time()
     user  system elapsed 
    11.35    1.12   12.51
Running 'testthat.R' [215s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bark)
  > 
  > test_check("bark")
  [1] "Starting BARK-se for this regression problem"
  [1] "Starting BARK-sd for this regression problem"
  [1] "Starting BARK-sd for this regression problem"
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 46 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-depr_bark.r:77:3'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 46 ]
  > 
  > proc.time()
     user  system elapsed 
    36.17    5.60   41.78
installed size is  9.4Mb
  sub-directories of 1Mb or more:
    java   9.3Mb
installed size is  5.9Mb
  sub-directories of 1Mb or more:
    data   3.1Mb
    libs   1.3Mb
Running 'testthat.R' [163s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(base64url)
  > 
  > test_check("base64url")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 204 ]
  > 
  > proc.time()
     user  system elapsed 
     4.28    0.26    4.53
Running 'testthat.R' [174s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(basemaps)
  > 
  > Sys.setenv("R_TESTS" = "") ## needed to pass R CMD check: https://github.com/hadley/testthat/issues/144
  > 
  > test_check("basemaps")
  [ FAIL 0 | WARN 0 | SKIP 7 | PASS 0 ]
  
  ══ Skipped tests (7) ═══════════════════════════════════════════════════════════
  • On CRAN (7): 'test-basemap.R:1:1', 'test-cache.R:1:1', 'test-defaults.R:1:1',
    'test-draw_ext.R:1:1', 'test-get_maptypes.R:1:1', 'test-internal.R:1:1',
    'test-plot.R:1:1'
  
  [ FAIL 0 | WARN 0 | SKIP 7 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     5.96    0.93    6.23
Running 'spelling.R' [0s]
  Running 'testthat.R' [177s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(BaseSet)
  
  Attaching package: 'BaseSet'
  
  The following object is masked from 'package:stats':
  
      filter
  
  The following object is masked from 'package:base':
  
      union
  
  > 
  > test_check("BaseSet")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 467 ]
  > 
  > proc.time()
     user  system elapsed 
     8.90    1.01    9.98
Running 'spelling.R' [143s]
  Running 'testthat.R' [155s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.15    0.06    0.20 
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(basf)
  Loading required package: sf
  Linking to GEOS 3.11.2, GDAL 3.8.2, PROJ 9.3.1; sf_use_s2() is TRUE
  Registered S3 method overwritten by 'basf':
    method  from
    plot.sf sf  
  > 
  > test_check("basf")
  NULL
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 1 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-plot.R:10:3'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     1.35    0.23    1.57
Problems with news in 'NEWS.md':
  Cannot extract version info from the following section titles:
    Earlier versions
Running 'testthat.R' [241s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(basket)
  > 
  > test_check("basket")
  [ FAIL 0 | WARN 0 | SKIP 6 | PASS 15 ]
  
  ══ Skipped tests (6) ═══════════════════════════════════════════════════════════
  • On CRAN (6): 'test-exact.r:21:5', 'test-exact.r:47:3', 'test-mcmc.r:21:5',
    'test-mcmc.r:40:3', 'test-plot.r:17:5', 'test-update.r:19:5'
  
  [ FAIL 0 | WARN 0 | SKIP 6 | PASS 15 ]
  > 
  > proc.time()
     user  system elapsed 
    69.85    0.68   70.56
Running 'testthat.R' [211s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > # setting R_TESTS to empty string because of
  > # https://github.com/hadley/testthat/issues/144
  > # revert this when that issue in R is fixed.
  > Sys.setenv("R_TESTS" = "")
  > 
  > library(testthat)
  > library(batchtools)
  > 
  > test_check("batchtools")
  ### [bt]: Setting seed to 32713 ...
  ### [bt]: Setting seed to 3080 ...
  ### [bt]: Setting seed to 3082 ...
  ### [bt]: Setting seed to 3081 ...
  [ FAIL 0 | WARN 0 | SKIP 13 | PASS 1438 ]
  
  ══ Skipped tests (13) ══════════════════════════════════════════════════════════
  • On CRAN (1): 'test_sweepRegistry.R:37:3'
  • On Windows (8): 'test_ClusterFunctions.R:23:3',
    'test_ClusterFunctionsMulticore.R:2:3', 'test_ClusterFunctionsSSH.R:2:3',
    'test_JobCollection.R:26:3', 'test_memory.R:2:3', 'test_parallelMap.R:8:3',
    'test_runOSCommand.R:2:3', 'test_runOSCommand.R:22:3'
  • Test requires killJobs (2): 'test_killJobs.R:3:3', 'test_waitForJobs.R:14:3'
  • Test requires listJobsRunning (1): 'test_findJobs.R:79:3'
  • manual test (1): 'test_manual.R:2:3'
  
  [ FAIL 0 | WARN 0 | SKIP 13 | PASS 1438 ]
  > 
  > proc.time()
     user  system elapsed 
    18.64    2.60   42.42
Running 'testthat.R' [166s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(batman)
  > 
  > test_check("batman")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 6 ]
  > 
  > proc.time()
     user  system elapsed 
     0.65    0.25    0.87
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bayefdr)
  > 
  > test_check("bayefdr")
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 15 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 15 ]
  > 
  > proc.time()
     user  system elapsed 
     2.43    0.39    2.76
installed size is  8.6Mb
  sub-directories of 1Mb or more:
    doc    1.9Mb
    libs   5.2Mb
Running 'testthat.R' [202s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bayes4psy)
  Loading required package: Rcpp
  > 
  > test_check("bayes4psy")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 74 ]
  > 
  > proc.time()
     user  system elapsed 
    31.31    1.06   32.43
Running 'testthat.R' [167s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bayesbio)
  > test_check("bayesbio")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 3 ]
  > 
  > proc.time()
     user  system elapsed 
     0.70    0.17    0.85
Running 'testthat.R' [158s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > Sys.setenv("R_TESTS" = "")
  > 
  > library(testthat)
  > library(bayesboot)
  > 
  > test_check("bayesboot")
  [ FAIL 0 | WARN 2 | SKIP 2 | PASS 28 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On CRAN (2): 'test-bayesboot-non-deterministic.R:12:3',
    'test-bayesboot-non-deterministic.R:22:3'
  
  [ FAIL 0 | WARN 2 | SKIP 2 | PASS 28 ]
  > 
  > proc.time()
     user  system elapsed 
     1.82    0.21    2.90
Running 'test-all.R' [171s]
Running the tests in 'tests/test-all.R' failed.
Complete output:
  > library(testthat)
  > test_check('BayesCombo')
  Loading required package: BayesCombo
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     0.48    0.15    0.62
installed size is  7.0Mb
  sub-directories of 1Mb or more:
    doc    1.0Mb
    libs   5.5Mb
Package suggested but not available for checking: 'doMC'
installed size is 13.3Mb
  sub-directories of 1Mb or more:
    doc   10.8Mb
    libs   1.4Mb
Running 'testthat.R' [168s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(BayesFluxR)
  
  Attaching package: 'BayesFluxR'
  
  The following object is masked from 'package:stats':
  
      Gamma
  
  > 
  > test_check("BayesFluxR")
  [ FAIL 0 | WARN 0 | SKIP 17 | PASS 0 ]
  
  ══ Skipped tests (17) ══════════════════════════════════════════════════════════
  • On CRAN (17): 'test-BFluxR.R:5:3', 'test-BFluxR.R:21:3',
    'test-BFluxR.R:39:3', 'test-BFluxR.R:66:3', 'test-initialisers.R:5:3',
    'test-likelihoods.R:5:3', 'test-likelihoods.R:18:3',
    'test-likelihoods.R:30:3', 'test-likelihoods.R:42:3', 'test-mcmc.R:5:3',
    'test-mode-finding.R:6:3', 'test-mode-finding.R:35:3', 'test-predict.R:6:3',
    'test-predict.R:32:3', 'test-priors.R:5:3', 'test-priors.R:18:3',
    'test-vi.R:5:3'
  
  [ FAIL 0 | WARN 0 | SKIP 17 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     1.20    0.25    1.43
installed size is  6.7Mb
  sub-directories of 1Mb or more:
    libs   5.6Mb
Running 'testthat.R' [157s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(BayesianLaterality)
  > 
  > test_check("BayesianLaterality")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     2.03    0.25    2.26
installed size is  7.6Mb
  sub-directories of 1Mb or more:
    data   1.3Mb
    help   1.8Mb
    libs   3.4Mb
Running 'spelling.R' [0s]
  Running 'testthat.R' [176s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bayesian)
  Loading required package: brms
  Loading required package: Rcpp
  Loading 'brms' package (version 2.21.0). Useful instructions
  can be found by typing help('brms'). A more detailed introduction
  to the package is available through vignette('brms_overview').
  
  Attaching package: 'brms'
  
  The following object is masked from 'package:stats':
  
      ar
  
  Loading required package: parsnip
  > 
  > library(rlang)
  
  Attaching package: 'rlang'
  
  The following objects are masked from 'package:testthat':
  
      is_false, is_null, is_true
  
  > 
  > test_check("bayesian")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 0 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-bayesian.R:2:3'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     8.35    0.53    8.87
installed size is  5.1Mb
  sub-directories of 1Mb or more:
    doc    2.7Mb
    libs   1.6Mb
installed size is  6.5Mb
  sub-directories of 1Mb or more:
    doc    2.8Mb
    libs   2.1Mb
installed size is  6.2Mb
  sub-directories of 1Mb or more:
    help   6.0Mb
installed size is  5.3Mb
  sub-directories of 1Mb or more:
    data   3.7Mb
    doc    1.0Mb
installed size is  6.4Mb
  sub-directories of 1Mb or more:
    R     1.9Mb
    doc   3.8Mb
Running 'testthat.R' [202s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(BayesPostEst)
  > 
  > test_check("BayesPostEst")
  Loading required package: rjags
  Loading required package: coda
  Linked to JAGS 4.3.1
  Loaded modules: basemod,bugs
  
  Attaching package: 'R2jags'
  
  The following object is masked from 'package:coda':
  
      traceplot
  
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 132 ]
  > 
  > proc.time()
     user  system elapsed 
    35.51    5.59   41.06
Running 'testthat.R' [518s]
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)
  > library(BayesPPD)
  > 
  > test_check("BayesPPD")
  [ FAIL 0 | WARN 4 | SKIP 1 | PASS 4 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • This test is skipped due to its slow speed. (1): 'test_tg_power.R:102:1'
  
  [ FAIL 0 | WARN 4 | SKIP 1 | PASS 4 ]
  > 
  > proc.time()
     user  system elapsed 
   338.26    7.62  346.12
Running 'testthat.R' [261s]
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)
  > library(bayesRecon)
  > 
  > test_check("bayesRecon")
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 31 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 31 ]
  > 
  > proc.time()
     user  system elapsed 
    87.79   11.20   99.04
Running 'testthat.R' [166s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > # library(testthat)
  > # library(BayesRS)
  > 
  > # test_check("BayesRS")
  > # test_check()
  > 
  > proc.time()
     user  system elapsed 
     0.17    0.04    0.20
installed size is  5.5Mb
  sub-directories of 1Mb or more:
    libs   5.2Mb
installed size is  5.9Mb
  sub-directories of 1Mb or more:
    data   1.5Mb
    doc    1.4Mb
    libs   2.2Mb
installed size is 12.8Mb
  sub-directories of 1Mb or more:
    libs  12.7Mb
Running 'testthat.R' [152s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(BayLum)
  Loading required package: coda
  > 
  > test_check("BayLum")
  [ FAIL 0 | WARN 0 | SKIP 10 | PASS 0 ]
  
  ══ Skipped tests (10) ══════════════════════════════════════════════════════════
  • On CRAN (10): 'test_AgeS_Computation.R:2:3', 'test_Age_OSLC14.R:2:3',
    'test_BayLumFiles.R:2:3', 'test_Generate_DataFile_MG.R:2:3',
    'test_combine_DataFiles.R:2:3', 'test_create_FolderTemplates.R:2:3',
    'test_create_ThetaMatrix.R:2:3', 'test_plot_Ages.R:2:3',
    'test_plot_MCMC.R:2:3', 'test_plot_Scatterplots.R:2:3'
  
  [ FAIL 0 | WARN 0 | SKIP 10 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     1.06    0.10    1.18
Running 'testthat.R' [158s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > 
  > library(testthat)
  > test_check("bazar")
  Loading required package: bazar
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 6 ]
  > 
  > proc.time()
     user  system elapsed 
     0.79    0.10    0.90
Running 'testthat.R' [168s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bbknnR)
  > 
  > test_check("bbknnR")
  Running BBKNN using RcppAnnoy...
  Running UMAP...
  Running tSNE...
  All done!
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     9.79    0.79   10.54
Running 'spelling.R' [164s]
  Running 'testthat.R' [3s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.14    0.09    0.21
installed size is  5.9Mb
  sub-directories of 1Mb or more:
    doc       1.2Mb
    extdata   3.3Mb
    libs      1.4Mb
Running 'testthat.R' [256s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(BCEA)
  The BCEA version loaded is: 2.4.6
  
  Attaching package: 'BCEA'
  
  The following object is masked from 'package:graphics':
  
      contour
  
  > 
  > test_check("BCEA")
  [ FAIL 0 | WARN 1 | SKIP 8 | PASS 159 ]
  
  ══ Skipped tests (8) ═══════════════════════════════════════════════════════════
  • INLA cannot be loaded (3): 'test-evppi.R:188:3', 'test-evppi.R:387:3',
    'test-evppi.R:487:3'
  • empty test (3): 'test-ceac_plot_ggplot.R:5:1', 'test-compute_U.R:7:1',
    'test-eib_plot_ggplot.R:9:1'
  • more than two interventions to be revisited after {voi} update (1):
    'test-evppi.R:525:3'
  • plot = TRUE mesh plot to be snapshot (1): 'test-evppi.R:262:3'
  
  [ FAIL 0 | WARN 1 | SKIP 8 | PASS 159 ]
  > 
  > proc.time()
     user  system elapsed 
    80.90   19.78  100.70
S3 methods shown with full name in Rd file 'export.bce.Rd':
  'export.bce'

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.
Running 'spelling.R' [0s]
  Running 'testthat.R' [171s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bcf)
  > 
  > #test_check("bcf")
  > 
  > proc.time()
     user  system elapsed 
     0.65    0.09    0.73
Running 'testthat.R' [216s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bcgam)
  Loading required package: nimble
  nimble version 1.1.0 is loaded.
  For more information on NIMBLE and a User Manual,
  please visit https://R-nimble.org.
  
  Note for advanced users who have written their own MCMC samplers:
    As of version 0.13.0, NIMBLE's protocol for handling posterior
    predictive nodes has changed in a way that could affect user-defined
    samplers in some situations. Please see Section 15.5.1 of the User Manual.
  
  Attaching package: 'nimble'
  
  The following object is masked from 'package:stats':
  
      simulate
  
  The following object is masked from 'package:base':
  
      declare
  
  > 
  > test_check("bcgam")
  ===== Monitors =====
  thin = 1: betalpha, tau
  ===== Samplers =====
  conjugate sampler (5)
    - tau
    - betalpha[]  (4 elements)
  RW sampler (10)
    - betalpha[]  (10 elements)
  thin = 1: betalpha, eta, sigma, tau
  |-------------|-------------|-------------|-------------|
  |-------------------------------------------------------|
  Call:
  bcgam(formula = income ~ sm.incr(prestige, space = "E") + sm.conv(education) + 
      type, data = duncan)
  
  Coefficients:
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 0 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
    16.09    0.40   46.07
Running 'testthat.R' [161s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bcmixed)
  > 
  > test_check("bcmixed")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 2 ]
  > 
  > proc.time()
     user  system elapsed 
     5.00    0.82    5.79
Package suggested but not available for checking: 'BRugs'
Running 'cv-svd-gabriel.R' [4s]
  Running 'cv-svd-wold.R' [3s]
  Running 'impute-svd.R' [3s]
  Running 'spelling.R' [165s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.15    0.04    0.18
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    doc       3.6Mb
    extdata   1.2Mb
Running 'testthat.R' [153s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bdc)
  > 
  > #test_check("bdc")
  > 
  > proc.time()
     user  system elapsed 
     6.78    0.56    7.34
Running 'testthat.R' [164s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bdDwC)
  > 
  > test_check("bdDwC")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 3 ]
  > 
  > proc.time()
     user  system elapsed 
     1.12    0.28    1.37
Running 'testthat.R' [166s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > Sys.setenv("R_TESTS" = "")
  > library(testthat)
  > library(bdl)
  > 
  > test_check("bdl")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 24 ]
  > 
  > proc.time()
     user  system elapsed 
     7.46    0.68    8.51
Running 'tinytest.R' [161s]
Running the tests in 'tests/tinytest.R' failed.
Complete output:
  > 
  > if (requireNamespace("tinytest", quietly = TRUE)) {
  +   if (length(unclass(packageVersion("bdots"))[[1]]) == 4 | Sys.getenv("R_FORCE_TEST") == 'TRUE') {
  +     tinytest::test_package("bdots", pattern = "*\\.[rR]$")
  +   }
  + }
  > 
  > 
  > proc.time()
     user  system elapsed 
     0.17    0.06    0.21
Running 'test_all.R' [180s]
Running the tests in 'tests/test_all.R' failed.
Complete output:
  > library(testthat)
  > test_check("bdpar")
  Loading required package: bdpar
  [ FAIL 0 | WARN 0 | SKIP 4 | PASS 641 ]
  
  ══ Skipped tests (4) ═══════════════════════════════════════════════════════════
  • On CRAN (4): 'test_Bdpar.R:874:3', 'test_Bdpar.R:1047:3',
    'test_Bdpar.R:1167:3', 'test_Bdpar.R:1288:3'
  
  [ FAIL 0 | WARN 0 | SKIP 4 | PASS 641 ]
  > 
  > 
  > proc.time()
     user  system elapsed 
    14.54    0.85   15.40
Running 'testthat.R' [175s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bdscale)
  > 
  > test_check("bdscale")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 8 ]
  > 
  > proc.time()
     user  system elapsed 
     2.20    0.25    2.40
Running 'spelling.R' [166s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.18    0.03    0.20
installed size is  7.7Mb
  sub-directories of 1Mb or more:
    libs   6.1Mb
Running 'tinytest.R' [166s]
Running the tests in 'tests/tinytest.R' failed.
Complete output:
  > if (requireNamespace("tinytest", quietly = TRUE)) {
  +     tinytest::test_package("BEDMatrix")
  + }
  
  test-BEDMatrix.R..............    0 tests    
  test-BEDMatrix.R..............    1 tests [0;32mOK[0m 
  test-BEDMatrix.R..............    2 tests [0;32mOK[0m 
  test-BEDMatrix.R..............   28 tests [0;32mOK[0m [0;34m0.3s[0m
  
  test-crochet.R................    0 tests    
  test-crochet.R................    0 tests    
  test-crochet.R................    0 tests    
  test-crochet.R................    0 tests    
  test-crochet.R................    0 tests    
  test-crochet.R................    0 tests    
  test-crochet.R................  771 tests [0;32mOK[0m [0;34m1.3s[0m
  
  test-length.R.................    0 tests    
  test-length.R.................    1 tests [0;32mOK[0m [0;36m71ms[0m
  All ok, 800 results (1.7s)
  > 
  > proc.time()
     user  system elapsed 
     1.62    0.39    1.93
Running 'test.all.R' [155s]
Running the tests in 'tests/test.all.R' failed.
Complete output:
  > # The bedr package is copyright (c) 2014 Ontario Institute for Cancer Research (OICR)
  > # This package and its accompanying libraries is free software; you can redistribute it and/or modify it under the terms of the GPL
  > # (either version 1, or at your option, any later version) or the Artistic License 2.0.  Refer to LICENSE for the full license text.
  > # OICR makes no representations whatsoever as to the SOFTWARE contained herein.  It is experimental in nature and is provided WITHOUT
  > # WARRANTY OF MERCHANTABILITY OR FITNESS FOR A PARTICULAR PURPOSE OR ANY OTHER WARRANTY, EXPRESS OR IMPLIED. OICR MAKES NO REPRESENTATION
  > # OR WARRANTY THAT THE USE OF THIS SOFTWARE WILL NOT INFRINGE ANY PATENT OR OTHER PROPRIETARY RIGHT.
  > # By downloading this SOFTWARE, your Institution hereby indemnifies OICR against any loss, claim, damage or liability, of whatsoever kind or
  > # nature, which may arise from your Institution's respective use, handling or storage of the SOFTWARE.
  > # If publications result from research using this SOFTWARE, we ask that the Ontario Institute for Cancer Research be acknowledged and/or
  > # credit be given to OICR scientists, as scientifically appropriate.
  > 
  > library("testthat")
  > library("bedr")
  
  
  ######################
  #### bedr v1.0.7 ####
  ######################
  
  checking binary availability...
    * Checking path for bedtools... FAIL
    * Checking path for bedops... FAIL
    * Checking path for tabix... FAIL
  tests and examples will be skipped on R CMD check if binaries are missing
  
  > test_package("bedr")
  No installed testthat tests found for bedr
  > 
  > proc.time()
     user  system elapsed 
     0.56    0.18    0.71
installed size is  5.3Mb
  sub-directories of 1Mb or more:
    data   1.7Mb
    libs   3.1Mb
Running 'testthat.R' [157s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library("testthat")
  > test_check("benchmarkmeData")
  Loading required package: benchmarkmeData
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 0 ]
  
  ══ Skipped tests (3) ═══════════════════════════════════════════════════════════
  • On CRAN (3): 'test-datatable_past.R:2:3', 'test-get_benchmarks.R:2:3',
    'test-plot_past.R:2:3'
  
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     1.00    0.20    1.18
Running 'testthat.R' [155s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library("testthat")
  > test_check("benchmarkme")
  Loading required package: benchmarkme
  [ FAIL 0 | WARN 0 | SKIP 13 | PASS 0 ]
  
  ══ Skipped tests (13) ══════════════════════════════════════════════════════════
  • On CRAN (13): 'test-benchmark_io.R:2:3', 'test-benchmark_std.R:2:3',
    'test-bm_parallel.R:2:3', 'test-byte_compiler.R:2:3', 'test-cpu.R:2:3',
    'test-platform_info.R:2:3', 'test-plot_results.R:2:3', 'test-ram.R:2:3',
    'test-ranking.R:2:3', 'test-rnorm.R:2:3', 'test-sys_details.R:2:3',
    'test-timings.R:2:3', 'test-upload_results.R:2:3'
  
  [ FAIL 0 | WARN 0 | SKIP 13 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     2.09    0.39    2.48
Running 'run-all.R' [148s]
Running the tests in 'tests/run-all.R' failed.
Complete output:
  > library(testthat)
  > library(benford.analysis)
  > test_check("benford.analysis")
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 61 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-benford.R:98:13'
  • empty test (1): 'test-benford.R:121:1'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 61 ]
  > 
  > proc.time()
     user  system elapsed 
     3.89    0.54    4.37
Running 'testthat-bestNormalize.R' [172s]
  Running 'testthat-custom-parallel.R' [163s]
  Running 'testthat-main-transforms.R' [5s]
  Running 'testthat-methods-step.R' [10s]
  Running 'testthat-minor-transforms.R' [4s]
Running the tests in 'tests/testthat-bestNormalize.R' failed.
Complete output:
  > library(testthat)
  > library(bestNormalize)
  > 
  > test_check(package = 'bestNormalize', filter = "bestNormalize")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 51 ]
  > 
  > proc.time()
     user  system elapsed 
     8.14    0.51    8.67 
Running the tests in 'tests/testthat-custom-parallel.R' failed.
Complete output:
  > library(testthat)
  > library(bestNormalize)
  > 
  > test_check(package = 'bestNormalize', filter = "parallel|custom")
  [ FAIL 0 | WARN 0 | SKIP 7 | PASS 106 ]
  
  ══ Skipped tests (7) ═══════════════════════════════════════════════════════════
  • On CRAN (7): 'test_bn_custom_normstat.R:92:3',
    'test_bn_custom_normstat.R:101:3', 'test_bn_custom_normstat.R:110:3',
    'test_bn_parallel.R:3:1', 'test_custom_fn.R:345:3', 'test_custom_fn.R:353:3',
    'test_custom_fn.R:360:3'
  
  [ FAIL 0 | WARN 0 | SKIP 7 | PASS 106 ]
  > 
  > proc.time()
     user  system elapsed 
    10.93    0.56   11.50
installed size is  6.7Mb
  sub-directories of 1Mb or more:
    doc    3.3Mb
    help   1.1Mb
    libs   1.5Mb
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bgmfiles)
  > 
  > test_check("bgmfiles")
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 3 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 3 ]
  > 
  > proc.time()
     user  system elapsed 
     0.67    0.12    0.78
Running 'testthat.R' [160s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bgmm)
  Loading required package: mvtnorm
  Loading required package: car
  Loading required package: carData
  Loading required package: lattice
  Loading required package: combinat
  
  Attaching package: 'combinat'
  
  The following object is masked from 'package:utils':
  
      combn
  
  > 
  > test_check("bgmm")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 10 ]
  > 
  > proc.time()
     user  system elapsed 
     2.71    0.42    3.10
installed size is  5.5Mb
  sub-directories of 1Mb or more:
    doc    2.8Mb
    libs   1.2Mb
installed size is 149.2Mb
  sub-directories of 1Mb or more:
    include  148.1Mb
Argument items with no description in Rd file 'h.pr.u.Rd':
  'z' 'ih' 'mu' 'sigma' 'pk' 'K' 'H' 'n'
Argument items with no description in Rd file 'hatpai.u.Rd':
  'z' 'hk1' 'hk0' 'ph1' 'ph0' 'sigma1' 'sigma0' 'mu1' 'mu0' 'pai' 'H'
  'n'
Argument items with no description in Rd file 'ind.u.Rd':
  'pr'
Argument items with no description in Rd file 'lambda.u.Rd':
  'nu'
Argument items with no description in Rd file 'mu.k.u.Rd':
  'k' 'ik' 'z' 'sigma' 'mu0'
Argument items with no description in Rd file 'nu.u.Rd':
  'ind' 'tau' 'H'
Argument items with no description in Rd file 'pai.u.Rd':
  'b' 'a.pai' 'b.pai'
Argument items with no description in Rd file 'sig.k.u.Rd':
  'k' 'ik' 'z' 'mu0' 'a0' 'b0'
Argument items with no description in Rd file 'z.pr.u.Rd':
  'z' 'hk' 'mu' 'sigma' 'ph' 'H' 'n'
Running 'testthat.R' [168s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(BiasCorrector)
  > 
  > test_check("BiasCorrector")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 0 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-lints.R:14:5'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     0.96    0.25    1.18
Running 'testthat.R' [157s]
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)
  > library(biblioverlap)
  > 
  > test_check("biblioverlap")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 3 ]
  > 
  > proc.time()
     user  system elapsed 
     1.37    0.21    1.59
Running 'testthat.R' [183s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(biClassify)
  > 
  > test_check("biClassify")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 32 ]
  > 
  > proc.time()
     user  system elapsed 
    13.20    2.64   15.79
Running 'testthat.R' [184s]
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)
  > library(bidask)
  > 
  > test_check("bidask")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 5 ]
  > 
  > proc.time()
     user  system elapsed 
    14.28    1.54   15.78
Running 'testthat.R' [166s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(BiDimRegression)
  > 
  > test_check("BiDimRegression")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 14 ]
  > 
  > proc.time()
     user  system elapsed 
     0.82    0.14    0.95
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'.
Running 'testthat.R' [160s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bigassertr)
  > 
  > test_check("bigassertr")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 83 ]
  > 
  > proc.time()
     user  system elapsed 
     1.28    0.20    1.45
Package suggested but not available for checking: 'ffbase'
Invalid package aliases in Rd file 'package_bigdist.Rd':
  'package_bigdist-package'
Running 'spelling.R' [167s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.18    0.04    0.21
Running 'testthat.R' [158s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bigDM)
  > 
  > test_check("bigDM")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     2.84    0.59    3.39
Package suggested but not available for checking: 'rrelaxiv'
Running 'testthat.R' [178s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bigparallelr)
  Loading required package: foreach
  > 
  > test_check("bigparallelr")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 453 ]
  > 
  > proc.time()
     user  system elapsed 
     4.35    1.06   10.06
Running 'spelling.R' [169s]
  Running 'testthat.R' [163s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > spelling::spell_check_test(vignettes = TRUE, error = FALSE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.18    0.04    0.21 
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bigreadr)
  > 
  > test_check("bigreadr")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 317 ]
  > 
  > proc.time()
     user  system elapsed 
     4.28    0.93    5.64
installed size is 16.5Mb
  sub-directories of 1Mb or more:
    libs  16.2Mb
Running 'testthat.R' [157s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bigsimr)
  > 
  > test_check("bigsimr")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 0 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-bigsimr.R:2:3'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     0.62    0.15    0.71
Running 'spelling.R' [157s]
  Running 'testthat.R' [77s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > spelling::spell_check_test(vignettes = TRUE, error = FALSE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.20    0.06    0.25
Running 'spelling.R' [0s]
  Running 'testthat.R' [220s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bigstatsr)
  > 
  > test_check("bigstatsr")
  Loading required package: foreach
  ========== SEED: 1 ==========
  [1] -0.9892638
  [ FAIL 0 | WARN 1 | SKIP 10 | PASS 3464 ]
  
  ══ Skipped tests (10) ══════════════════════════════════════════════════════════
  • On CRAN (2): 'test-pcor.R:31:3', 'test-pcor.R:50:3'
  • not_cran is not TRUE (8): 'test-FBM-convert.R:47:3', 'test-FBM-file.R:99:3',
    'test-copy.R:81:3', 'test-openmp.R:6:1', 'test-spLinReg.R:272:3',
    'test-spLinReg.R:328:3', 'test-spLogReg.R:272:3', 'test-spLogReg.R:326:3'
  
  [ FAIL 0 | WARN 1 | SKIP 10 | PASS 3464 ]
  > 
  > proc.time()
     user  system elapsed 
    65.14    4.50   72.48
Running 'testthat.R' [171s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(billboarder)
  > 
  > test_check("billboarder")
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 219 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 219 ]
  > 
  > proc.time()
     user  system elapsed 
     3.03    0.70    3.70
Running 'testthat.R' [160s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bindrcpp)
  > 
  > test_check("bindrcpp")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 15 ]
  > 
  > proc.time()
     user  system elapsed 
     0.92    0.12    1.03
Running 'testthat.R' [154s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(binman)
  > 
  > if (identical(tolower(Sys.getenv("NOT_CRAN")), "true")) {
  +   test_check("binman")
  + }
  > 
  > proc.time()
     user  system elapsed 
     0.45    0.10    0.54
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(binovisualfields)
  > 
  > test_check("binovisualfields")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 12 ]
  > 
  > proc.time()
     user  system elapsed 
     0.79    0.14    0.92
Running 'testthat.R' [171s]
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)
  > library(binpackr)
  > 
  > test_check("binpackr")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 6 ]
  > 
  > proc.time()
     user  system elapsed 
     1.84    0.39    2.23
installed size is  6.4Mb
  sub-directories of 1Mb or more:
    libs   5.9Mb
Running 'testthat.R' [157s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(BiocManager)
  Bioconductor version '3.18' requires R version '4.3'; use `version = '3.19'`
    with R version 4.4; see https://bioconductor.org/install
  > 
  > test_check("BiocManager")
  [ FAIL 0 | WARN 0 | SKIP 28 | PASS 72 ]
  
  ══ Skipped tests (28) ══════════════════════════════════════════════════════════
  • On CRAN (8): 'test_repositories.R:80:5', 'test_repositories.R:173:5',
    'test_repositories.R:211:5', 'test_version.R:17:5', 'test_version.R:39:5',
    'test_version.R:235:5', 'test_version.R:246:5', 'test_version.R:277:5'
  • mis-configuration, R 4.4.0, Bioconductor 3.18 (19): 'test_install.R:26:5',
    'test_install.R:44:5', 'test_install.R:218:5', 'test_install.R:347:5',
    'test_repositories.R:4:5', 'test_repositories.R:13:5',
    'test_repositories.R:19:5', 'test_repositories.R:25:5',
    'test_repositories.R:33:5', 'test_repositories.R:89:5',
    'test_repositories.R:100:5', 'test_repositories.R:163:5', 'test_valid.R:4:5',
    'test_version.R:91:5', 'test_version.R:106:5', 'test_version.R:146:5',
    'test_version.R:193:5', 'test_version.R:327:5', 'test_version.R:386:5'
  • too idiosyncratic for standardized testing (1): 'test_install.R:179:5'
  
  [ FAIL 0 | WARN 0 | SKIP 28 | PASS 72 ]
  > 
  > proc.time()
     user  system elapsed 
     2.82    0.48    6.06
S3 methods shown with full name in Rd file 'select.cfs.Rd':
  'select.cfs'

S3 methods shown with full name in Rd file 'select.fast.filter.Rd':
  'select.fast.filter'

S3 methods shown with full name in Rd file 'select.forward.Corr.Rd':
  'select.forward.Corr'

S3 methods shown with full name in Rd file 'select.forward.wrapper.Rd':
  'select.forward.wrapper'

S3 methods shown with full name in Rd file 'select.inf.chi2.Rd':
  'select.inf.chi2'

S3 methods shown with full name in Rd file 'select.inf.gain.Rd':
  'select.inf.gain'

S3 methods shown with full name in Rd file 'select.inf.symm.Rd':
  'select.inf.symm'

S3 methods shown with full name in Rd file 'select.process.Rd':
  'select.process'

S3 methods shown with full name in Rd file 'select.relief.Rd':
  'select.relief'

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.
Running 'testthat.R' [159s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(biodosetools)
  > 
  > test_check("biodosetools")
  ! Problem with `glm()` -> constraint ML optimization will be used instead
  ! Problem with `glm()` -> constraint ML optimization will be used instead
  number of iterations= 43 
  Loading required package: shiny
  
  ── Dose estimation calculations ────────────────────────────────────────────────
  ℹ Parsing dose-effect curve...
  
  ── Dose estimation calculations ────────────────────────────────────────────────
  ℹ Parsing dose-effect curve...
  
  ── Dose estimation calculations ────────────────────────────────────────────────
  ℹ Parsing dose-effect curve...
  ! Problem with `glm()` -> constraint ML optimization will be used instead
  ! Problem with `glm()` -> constraint ML optimization will be used instead
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 236 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-golem-recommended.R:71:5'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 236 ]
  > 
  > proc.time()
     user  system elapsed 
    10.32    1.04   11.39
Running 'testthat.R' [160s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(biogas)
  > 
  > test_check("biogas")
  [ FAIL 0 | WARN 2 | SKIP 0 | PASS 38 ]
  
  [ FAIL 0 | WARN 2 | SKIP 0 | PASS 38 ]
  > 
  > proc.time()
     user  system elapsed 
     1.14    0.17    1.29
Running 'test-all.R' [177s]
Running the tests in 'tests/test-all.R' failed.
Complete output:
  > library(testthat)
  > 
  > test_check("biogram")
  Loading required package: biogram
  Loading required package: slam
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 46 ]
  > 
  > proc.time()
     user  system elapsed 
     6.39    0.89    7.25
Running 'testthat.R' [185s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(BIOMASS)
  Using temporary cache
    It is recommended to use a permanent cache to avoid to re-download files on each session.
    See function createCache() or BIOMASS.cache option.
  > 
  > test_check("BIOMASS")
  pj_obj_create: Cannot find proj.db
  pj_obj_create: Cannot find proj.db
  pj_obj_create: Cannot find proj.db
  pj_obj_create: Cannot find proj.db
  pj_obj_create: Cannot find proj.db
  pj_obj_create: Cannot find proj.db
  pj_obj_create: Cannot find proj.db
  pj_obj_create: Cannot find proj.db
  trying URL 'https://github.com/umr-amap/BIOMASS/raw/master/data-raw/climate_variable/E.zip'
  Content type 'application/zip' length 31208287 bytes (29.8 MB)
  ==================================================
  downloaded 29.8 MB
  
  pj_obj_create: Cannot find proj.db
  [ FAIL 0 | WARN 21 | SKIP 21 | PASS 190 ]
  
  ══ Skipped tests (21) ══════════════════════════════════════════════════════════
  • On CRAN (21): 'test_00_modelHD.R:15:7', 'test_00_modelHD.R:15:7',
    'test_00_modelHD.R:15:7', 'test_00_modelHD.R:15:7', 'test_00_modelHD.R:15:7',
    'test_00_modelHD.R:15:7', 'test_00_modelHD.R:15:7', 'test_00_modelHD.R:15:7',
    'test_00_modelHD.R:49:3', 'test_00_modelHD.R:57:3', 'test_00_modelHD.R:75:3',
    'test_02_getWoodDensity.R:13:5', 'test_02_getWoodDensity.R:66:5',
    'test_03_AGBmonteCarlo.R:23:3', 'test_03_AGBmonteCarlo.R:104:3',
    'test_03_AGBmonteCarlo.R:128:3', 'test_03_AGBmonteCarlo.R:176:3',
    'test_03_AGBmonteCarlo.R:203:3', 'test_03_AGBmonteCarlo.R:227:3',
    'test_03_AGBmonteCarlo.R:253:3', 'test_03_AGBmonteCarlo.R:280:3'
  
  [ FAIL 0 | WARN 21 | SKIP 21 | PASS 190 ]
  > 
  > proc.time()
     user  system elapsed 
    12.15    1.59   17.34
Documented arguments not in \usage in Rd file 'predict2.em.Rd':
  'na.rm'

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.
installed size is  5.5Mb
  sub-directories of 1Mb or more:
    data      1.6Mb
    extdata   2.0Mb
installed size is  6.2Mb
  sub-directories of 1Mb or more:
    data   1.6Mb
    help   2.6Mb
Invalid package aliases in Rd file 'bios2cor-package.Rd':
  'bios2cor-package'
Running 'testthat.R' [195s]
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)
  > library(biosampleR)
  > 
  > test_check("biosampleR")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 46 ]
  > 
  > proc.time()
     user  system elapsed 
    24.87    0.67   25.53
installed size is  6.6Mb
  sub-directories of 1Mb or more:
    extdata   4.8Mb
    libs      1.2Mb
installed size is  6.1Mb
  sub-directories of 1Mb or more:
    doc   5.5Mb
Running 'testthat.R' [157s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(biotic)
  This is biotic, version 0.1.2
  > 
  > test_check("biotic")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 7 ]
  > 
  > proc.time()
     user  system elapsed 
     0.76    0.20    0.93
Installation failed.
See 'd:/Rcompile/CRANpkg/local/4.4/BioVenn.Rcheck/00install.out' for details.
Running 'testthat.R' [173s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(BipartiteModularityMaximization)
  > 
  > test_check("BipartiteModularityMaximization")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     2.54    0.45    3.00
Depends: includes the non-default packages:
  'colorspace', 'deldir', 'rgl', 'tcltk', 'tcltk2', 'tkrplot'
Adding so many packages to the search path is excessive and importing
selectively is preferable.
Package listed in more than one of Depends, Imports, Suggests, Enhances:
  'colorspace'
A package should be listed in only one of these fields.
Packages in Depends field not imported from:
  'deldir' 'rgl' 'tcltk' 'tcltk2' 'tkrplot'
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
checkRd: (-1) FighterAircraft.Rd:32: Escaped LaTeX specials: \&
Running 'testthat.R' [165s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(birankr)
  Loading required package: Matrix
  Loading required package: data.table
  > test_check("birankr")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 23 ]
  > 
  > proc.time()
     user  system elapsed 
     4.04    0.21    4.25
Running 'testthat.R' [151s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(birtr)
  > 
  > check_api <- function() {
  + #  if (not_working()) {
  +     skip("API not available")
  + #  }
  + }
  > 
  > test_that("foo api returns bar when given baz", {
  +   check_api()
  +   ...
  + })
  ── Skip: foo api returns bar when given baz ────────────────────────────────────
  Reason: API not available
  
  > 
  > proc.time()
     user  system elapsed 
     1.14    0.12    1.25
Running 'testthat.R' [169s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bistablehistory)
  Loading required package: loo
  This is loo version 2.7.0
  - Online documentation and vignettes at mc-stan.org/loo
  - As of v2.0.0 loo defaults to 1 core but we recommend using as many as possible. Use the 'cores' argument or set options(mc.cores = NUM_CORES) for an entire session. 
  - Windows 10 users: loo may be very slow if 'mc.cores' is set in your .Rprofile file (see https://github.com/stan-dev/loo/issues/94).
  
  Attaching package: 'loo'
  
  The following object is masked from 'package:testthat':
  
      compare
  
  Loading required package: rlang
  
  Attaching package: 'rlang'
  
  The following objects are masked from 'package:testthat':
  
      is_false, is_null, is_true
  
  Loading required package: rstantools
  This is rstantools version 2.4.0
  
  Attaching package: 'bistablehistory'
  
  The following object is masked from 'package:loo':
  
      loo
  
  > 
  > test_check("bistablehistory")
  [ FAIL 0 | WARN 5 | SKIP 0 | PASS 101 ]
  
  [ FAIL 0 | WARN 5 | SKIP 0 | PASS 101 ]
  > 
  > proc.time()
     user  system elapsed 
     8.87    0.59    9.45
Running 'testthat.R' [189s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > test_check("bit")
  Loading required package: bit
  
  Attaching package: 'bit'
  
  The following object is masked from 'package:base':
  
      xor
  
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 13905 ]
  > 
  > 
  > 
  > proc.time()
     user  system elapsed 
    30.26    1.29   31.62
Running 'testthat.R' [162s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(biwavelet)
  biwavelet 0.20.21 loaded.
  > 
  > test_check("biwavelet")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 195 ]
  > 
  > proc.time()
     user  system elapsed 
     3.46    0.68    4.15
Running 'testthat.R' [182s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bizdays)
  
  Attaching package: 'bizdays'
  
  The following object is masked from 'package:stats':
  
      offset
  
  > 
  > test_check("bizdays")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 256 ]
  > 
  > proc.time()
     user  system elapsed 
    20.85    0.93   21.76
Argument items with no description in Rd file 'ONA_compiled.Rd':
  'ATN'
Running 'testthat.R' [186s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(blastula)
  > 
  > test_check("blastula")
  [ FAIL 0 | WARN 0 | SKIP 10 | PASS 151 ]
  
  ══ Skipped tests (10) ══════════════════════════════════════════════════════════
  • On CRAN (10): 'test-add_cta_button.R:10:3', 'test-blocks.R:6:3',
    'test-blocks.R:25:3', 'test-blocks.R:54:3', 'test-helper_fcns.R:15:3',
    'test-integration.R:105:3', 'test-render_blocks.R:6:3',
    'test-render_blocks.R:14:3', 'test-render_blocks.R:29:3',
    'test-render_blocks.R:76:3'
  
  [ FAIL 0 | WARN 0 | SKIP 10 | PASS 151 ]
  > 
  > proc.time()
     user  system elapsed 
    18.57    1.35   20.40
install_blat: no visible global function definition for 'download.file'
install_blat: no visible global function definition for 'unzip'
Undefined global functions or variables:
  download.file unzip
Consider adding
  importFrom("utils", "download.file", "unzip")
to your NAMESPACE file.
Argument items with no description in Rd file 'export.dyadic.Rd':
  'blauObj'
Package suggested but not available for checking: 'cmdstanr'
installed size is  8.1Mb
  sub-directories of 1Mb or more:
    R          1.2Mb
    libs       5.2Mb
    testdata   1.4Mb
installed size is  5.8Mb
  sub-directories of 1Mb or more:
    data   3.5Mb
    libs   1.1Mb
Running 'testthat.R' [162s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(BLModel)
  > 
  > test_check("BLModel")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 25 ]
  > 
  > proc.time()
     user  system elapsed 
     0.92    0.23    1.14
Running 'testthat.R' [179s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(blockForest)
  > 
  > test_check("blockForest")
  [ FAIL 0 | WARN 4 | SKIP 0 | PASS 411 ]
  
  [ FAIL 0 | WARN 4 | SKIP 0 | PASS 411 ]
  > 
  > proc.time()
     user  system elapsed 
    30.03   13.06   18.48
Running 'testthat.R' [175s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(blocklength)
  > 
  > test_check("blocklength")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 33 ]
  > 
  > proc.time()
     user  system elapsed 
     3.20    0.26    4.01
Running 'testthat.R' [180s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(BLOQ)
  > 
  > test_check("BLOQ")
  [1] "The message from maximizing censored log-likelihood: gradient close to zero (gradtol)"
  [1] "The message from maximizing censored log-likelihood for column 2 : successive function values within relative tolerance limit (reltol)"
  [1] "The message from maximizing censored log-likelihood for column 4 : gradient close to zero (gradtol)"
  [1] "The message from maximizing censored log-likelihood for column 5 : gradient close to zero (gradtol)"
  [1] "The message from maximizing censored log-likelihood for column 6 : gradient close to zero (gradtol)"
  [1] "The message from maximizing censored log-likelihood: gradient close to zero (gradtol)"
  [1] "The message from maximizing censored log-likelihood for column 2 : successive function values within relative tolerance limit (reltol)"
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 9 ]
  > 
  > 
  > proc.time()
     user  system elapsed 
     4.25    0.46    4.65
Running 'testthat.R' [163s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(blsR)
  > 
  > test_check("blsR")
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 98 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • BLS API key is not set. (2): 'test-requests.R:38:3', 'test-requests.R:50:3'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 98 ]
  > 
  > proc.time()
     user  system elapsed 
     2.00    0.39    2.39
installed size is  9.4Mb
  sub-directories of 1Mb or more:
    libs   8.7Mb
installed size is  6.8Mb
  sub-directories of 1Mb or more:
    libs   6.3Mb
Running 'testthat.R' [172s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(BMisc)
  > 
  > test_check("BMisc")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 7 ]
  > 
  > proc.time()
     user  system elapsed 
     1.15    0.31    1.45
Running 'test-all.R' [162s]
Running the tests in 'tests/test-all.R' failed.
Complete output:
  > library(testthat)
  > library(bmp)
  > 
  > test_check("bmp")
  [ FAIL 0 | WARN 7 | SKIP 0 | PASS 14 ]
  
  [ FAIL 0 | WARN 7 | SKIP 0 | PASS 14 ]
  > 
  > proc.time()
     user  system elapsed 
     0.98    0.18    1.14
installed size is  7.9Mb
  sub-directories of 1Mb or more:
    libs   4.6Mb
Running 'testthat.R' [165s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(BoltzMM)
  > 
  > test_check("BoltzMM")
  Input variable dimensions do not matchInput variable dimensions do not match[ FAIL 0 | WARN 0 | SKIP 0 | PASS 47 ]
  > 
  > 
  > proc.time()
     user  system elapsed 
     1.00    0.21    1.20
Installation failed.
See 'd:/Rcompile/CRANpkg/local/4.4/BonEV.Rcheck/00install.out' for details.
Running 'test-all.R' [153s]
  Running 'test-rmd.R' [0s]
  Running 'testthat.R' [13s]
Running the tests in 'tests/test-all.R' failed.
Complete output:
  > library(testit)
  > test_pkg('bookdown')
  > 
  > proc.time()
     user  system elapsed 
     0.40    0.28    1.10
installed size is 40.5Mb
  sub-directories of 1Mb or more:
    include  10.5Mb
    lib      29.5Mb
Running 'testthat.R' [188s]
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)
  > library(boostingDEA)
  > 
  > test_check("boostingDEA")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 30 ]
  > 
  > proc.time()
     user  system elapsed 
    20.29    0.78   21.09
Running 'testthat.R' [159s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bootES)
  Loading required package: boot
  > 
  > test_check("bootES")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 67 ]
  > 
  > proc.time()
     user  system elapsed 
     4.20    0.37    4.57
Running 'testthat.R' [173s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(BootstrapQTL)
  Loading required package: MatrixEQTL
  > 
  > test_check("BootstrapQTL")
  Mapping QTLs and obtaining nominal effect size estimates...
  Optimising data for bootstrap procedure...
  Running bootstrap procedure for 10 bootstraps on 1 cores.
  Restoring global environment...
  Mapping QTLs and obtaining nominal effect size estimates...
  Restoring global environment...
  Done!
  Registering 2 cores for bootstrap procedure.
  Mapping QTLs and obtaining nominal effect size estimates...
  Optimising data for bootstrap procedure...
  Running bootstrap procedure for 10 bootstraps on 2 cores.
  Removing winner's curse...
  Restoring global environment...
  Done!
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 0 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • empty test (1): 'test.R:3:1'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     2.84    0.40    4.65
Running 'testthat.R' [177s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(Boruta)
  > 
  > test_check("Boruta")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 91 ]
  > 
  > 
  > proc.time()
     user  system elapsed 
    38.29    5.90   11.50
Documented arguments not in \usage in Rd file 'InternalFunctions.Rd':
  'metric' 'matrix'

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.
Error(s) in re-building vignettes:
--- re-building 'BOSO.Rmd' using rmarkdown

Quitting from lines 475-492 [plot_comparison_BOSOvsREST] (BOSO.Rmd)
Error: processing vignette 'BOSO.Rmd' failed with diagnostics:
The `legend.pos` theme element is not defined in the element hierarchy.
--- failed re-building 'BOSO.Rmd'

SUMMARY: processing the following file failed:
  'BOSO.Rmd'

Error: Vignette re-building failed.
Execution halted
Running 'spelling.R' [167s]
  Running 'testthat.R' [1s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.15    0.04    0.18
Running 'spelling.R' [0s]
  Running 'testthat.R' [171s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(boundingbox)
  > 
  > test_check("boundingbox")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 3 ]
  > 
  > proc.time()
     user  system elapsed 
     0.65    0.14    0.78
Running 'testthat.R' [180s]
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)
  > library(boxly)
  > 
  > test_check("boxly")
  In observation level data, the facet variable 'PARAM' is automatically transformed into a factor.
  In observation level data, the group variable 'AVISITN' is automatically transformed into a factor.
  In observation level data, the facet variable 'PARAM' is automatically transformed into a factor.
  In observation level data, the group variable 'AVISITN' is automatically transformed into a factor.
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 37 ]
  > 
  > proc.time()
     user  system elapsed 
     6.23    0.45    6.68
Running 'testthat.R' [154s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bpa)
  > 
  > test_check("bpa")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 13 ]
  > 
  > proc.time()
     user  system elapsed 
     0.75    0.18    0.92
Running 'testthat.R' [164s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(braggR)
  > 
  > test_check("braggR")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 21 ]
  > 
  > proc.time()
     user  system elapsed 
     1.04    0.10    1.14
Documented arguments not in \usage in Rd file 'utils.Rd':
  'max.len'

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 'spelling.R' [156s]
  Running 'testthat.R' [1s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.17    0.04    0.18
Running 'spelling.R' [0s]
  Running 'testthat.R' [159s]
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)
  > library(BREADR)
  > 
  > test_check("BREADR")
  No site distance filter.
  Using default minimum of 1e5.
  Testing H0       : "Ind1 - Ind2" are 1st-degree relatives.
  Expected PMR     : 0.1635
  Observed PMR     : 0.2042
  Estimated degree : 2.9826
  p-value          : 2.666909e-05
  Decision         : Reject H0
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 32 ]
  > 
  > proc.time()
     user  system elapsed 
     1.42    0.17    1.57
Running 'testthat.R' [310s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > ################################################################################
  > # Use testthat to test that nothing important breaks
  > ################################################################################
  > 
  > library(testthat)
  > library(breakaway)
  > library(phyloseq)
  > library(magrittr)
  
  Attaching package: 'magrittr'
  
  The following objects are masked from 'package:testthat':
  
      equals, is_less_than, not
  
  > 
  > test_check("breakaway")
  Estimate of richness from method breakaway:
    Estimate is 1552
   with standard error 304.71
    Confidence interval: (1007, 47805)
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 251 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 251 ]
  > 
  > proc.time()
     user  system elapsed 
   138.51    9.01  147.76
Running 'test-all.R' [205s]
Running the tests in 'tests/test-all.R' failed.
Complete output:
  > library(testthat)
  > 
  > options(Ncpus = parallelly::availableCores(omit = 1))
  > test_check("breathtestcore")
  Loading required package: breathtestcore
  Starting 1 test process
  [ FAIL 0 | WARN 11 | SKIP 4 | PASS 359 ]
  
  ══ Skipped tests (4) ═══════════════════════════════════════════════════════════
  • On CRAN (4): 'test_coef_by_group.R:55:3', 'test_coef_diff_by_group.R:51:3',
    'test_plot_breathtestfit.R:49:3', 'test_read_iris_csv.R:49:3'
  
  [ FAIL 0 | WARN 11 | SKIP 4 | PASS 359 ]
  > 
  > proc.time()
     user  system elapsed 
     4.12    0.53   33.28
Running 'testthat.R' [173s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bridgedist)
  The argument `scale` has been replaced with `phi` in this version.
  The top of page 77o in Wang Louis 2003 states phi is not a scale.
  Please start using the `phi` argument now.
  > 
  > test_check("bridgedist")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 16 ]
  > 
  > proc.time()
     user  system elapsed 
     0.75    0.15    0.89
Running 'testthat.R' [158s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(brio)
  
  Attaching package: 'brio'
  
  The following objects are masked from 'package:base':
  
      readLines, writeLines
  
  > 
  > test_check("brio")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 81 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-write_lines.R:60:3'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 81 ]
  > 
  > proc.time()
     user  system elapsed 
     1.42    0.31    1.75
Running 'testthat.R' [171s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(briqr)
  > 
  > test_check("briqr")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 18 ]
  > 
  > proc.time()
     user  system elapsed 
     1.25    0.29    1.46
Running 'testthat.R' [190s]
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)
  > library(brms.mmrm)
  > 
  > test_check("brms.mmrm")
  [ FAIL 0 | WARN 0 | SKIP 22 | PASS 524 ]
  
  ══ Skipped tests (22) ══════════════════════════════════════════════════════════
  • On CRAN (22): 'test-brm_marginal_draws.R:2:3',
    'test-brm_marginal_draws.R:117:3', 'test-brm_marginal_draws.R:263:3',
    'test-brm_marginal_draws.R:334:3', 'test-brm_marginal_draws_average.R:2:3',
    'test-brm_marginal_draws_average.R:97:3',
    'test-brm_marginal_probabilities.R:2:3',
    'test-brm_marginal_probabilities.R:67:3',
    'test-brm_marginal_probabilities.R:120:3',
    'test-brm_marginal_summaries.R:2:3', 'test-brm_marginal_summaries.R:123:3',
    'test-brm_marginal_summaries.R:258:3', 'test-brm_model.R:2:3',
    'test-brm_plot_compare.R:2:3', 'test-brm_plot_compare.R:98:3',
    'test-brm_plot_draws.R:2:3', 'test-brm_plot_draws.R:59:3',
    'test-brm_simulate_outline.R:73:3', 'test-brm_simulate_outline.R:92:3',
    'test-brm_simulate_outline.R:110:3', 'test-brm_simulate_outline.R:130:3',
    'test-brm_simulate_prior.R:2:3'
  
  [ FAIL 0 | WARN 0 | SKIP 22 | PASS 524 ]
  > 
  > proc.time()
     user  system elapsed 
    34.89    2.43   36.96
installed size is  8.6Mb
  sub-directories of 1Mb or more:
    R     3.7Mb
    doc   3.6Mb
Running 'testthat.R' [165s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library("testthat")
  > test_check("Brobdingnag")
  Loading required package: Brobdingnag
  Loading required package: Matrix
  
  Attaching package: 'Brobdingnag'
  
  The following objects are masked from 'package:Matrix':
  
      diag, t
  
  The following objects are masked from 'package:base':
  
      diag, t
  
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 132 ]
  > 
  > proc.time()
     user  system elapsed 
     3.29    0.34    3.59
Package suggested but not available for checking: 'glmmADMB'
Running 'spelling.R' [158s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > spelling::spell_check_test(vignettes = TRUE, error = FALSE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.18    0.07    0.25
Installation failed.
See 'd:/Rcompile/CRANpkg/local/4.4/BRugs.Rcheck/00install.out' for details.
Running 'spelling.R' [157s]
  Running 'testthat.R' [2s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.15    0.06    0.20
Running 'testthat.R' [166s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(brunnermunzel)
  > 
  > test_check("brunnermunzel")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 20 ]
  > 
  > proc.time()
     user  system elapsed 
     0.68    0.20    0.87
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bs4Dash)
  
  Attaching package: 'bs4Dash'
  
  The following object is masked from 'package:graphics':
  
      box
  
  > 
  > test_check("bs4Dash")
  NULL
  [1] "popoiiuu"
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 106 ]
  > 
  > proc.time()
     user  system elapsed 
     1.65    0.34    1.93
Argument items with no description in Rd file 'plot.bshazard.Rd':
  '\dots'
Argument items with no description in Rd file 'print.bshazard.Rd':
  '\dots'
Argument items with no description in Rd file 'summary.bshazard.Rd':
  '\dots'
Running 'spelling.R' [0s]
  Running 'testthat.R' [163s]
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)
  > library(bsitar)
  > 
  > test_check("bsitar")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     7.50    0.56    8.04
Running 'spelling.R' [171s]
  Running 'testthat.R' [176s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.17    0.03    0.18 
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)
  > library(bskyr)
  > 
  > test_check("bskyr")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 54 ]
  > 
  > proc.time()
     user  system elapsed 
     8.15    0.78    9.00
installed size is 11.6Mb
  sub-directories of 1Mb or more:
    fonts   3.7Mb
    lib     4.5Mb
Running 'testthat.R' [197s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bslib)
  
  Attaching package: 'bslib'
  
  The following object is masked from 'package:utils':
  
      page
  
  > 
  > test_check("bslib")
  Starting 2 test processes
  [ FAIL 0 | WARN 0 | SKIP 29 | PASS 468 ]
  
  ══ Skipped tests (29) ══════════════════════════════════════════════════════════
  • On CRAN (29): 'test-zzzz-bs-sass.R:4:3', 'test-zzzz-bs-sass.R:26:3',
    'test-zzzz-bs-sass.R:51:3', 'test-zzz-precompile.R:18:3',
    'test-bs-theme-preset-builtin.R:5:5', 'test-bs-theme-preset.R:7:5',
    'test-bs-theme-preset.R:14:5', 'test-bs-theme-preset.R:34:5',
    'test-fill.R:31:3', 'test-fill.R:48:3', 'test-fill.R:65:3',
    'test-fill.R:96:3', 'test-fill.R:115:3', 'test-fill.R:148:3',
    'test-fill.R:160:3', 'test-fill.R:191:3', 'test-fill.R:216:3',
    'test-fill.R:248:3', 'test-fill.R:261:3', 'test-fill.R:304:3',
    'test-layout.R:2:3', 'test-layout.R:50:3', 'test-layout.R:68:3',
    'test-layout.R:128:3', 'test-layout.R:134:3', 'test-page.R:68:3',
    'test-page.R:90:5', 'test-value-box.R:56:3', 'test-value-box.R:106:3'
  
  [ FAIL 0 | WARN 0 | SKIP 29 | PASS 468 ]
  Deleting unused snapshots:
  • page/card.html
  • page/modern-page.html
  • zzzz-bs-sass/bs4-imports
  • zzzz-bs-sass/bs5-imports
  > 
  > proc.time()
     user  system elapsed 
     3.84    0.39   37.50
Running 'testthat.R' [157s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bsplus)
  > 
  > test_check("bsplus")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 104 ]
  > 
  > proc.time()
     user  system elapsed 
     1.54    0.34    1.89
installed size is  7.5Mb
  sub-directories of 1Mb or more:
    data   1.1Mb
    doc    2.8Mb
    libs   3.1Mb
Running 'test_all.R' [200s]
Running the tests in 'tests/test_all.R' failed.
Complete output:
  > Sys.setenv("OMP_NUM_THREADS" = 2)
  > 
  > library("testthat")
  > test_check("bssm")
  Loading required package: bssm
  
  Attaching package: 'bssm'
  
  The following object is masked from 'package:base':
  
      gamma
  
  
  Starting IS-correction phase with 2 thread(s).
  [ FAIL 0 | WARN 3 | SKIP 10 | PASS 926 ]
  
  ══ Skipped tests (10) ══════════════════════════════════════════════════════════
  • On CRAN (10): 'test_approx.R:164:3', 'test_ekpf.R:6:3', 'test_ekpf.R:45:3',
    'test_mcmc.R:10:3', 'test_mcmc.R:40:3', 'test_mcmc.R:69:3',
    'test_mcmc.R:454:3', 'test_post_correct.R:61:4', 'test_predict.R:208:3',
    'test_sde.R:5:3'
  
  [ FAIL 0 | WARN 3 | SKIP 10 | PASS 926 ]
  > 
  > proc.time()
     user  system elapsed 
    33.57    0.84   34.39
Running 'testthat.R' [169s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > if (requireNamespace("BSW")) {
  +   library(BSW)
  +   library(testthat)
  +   test_check("BSW")
  + }
  Loading required namespace: BSW
  Loading required package: Matrix
  Loading required package: matrixStats
  Loading required package: quadprog
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
  > 
  > proc.time()
     user  system elapsed 
     2.48    0.20    2.67
installed size is  6.1Mb
  sub-directories of 1Mb or more:
    doc       2.3Mb
    extdata   3.4Mb
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bulkAnalyseR)
  > 
  > test_check("bulkAnalyseR")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     1.12    0.21    1.32
Running 'testthat.R' [151s]
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)
  > library(bulkreadr)
  Loading required package: purrr
  
  Attaching package: 'purrr'
  
  The following object is masked from 'package:testthat':
  
      is_null
  
  Welcome to bulkreadr package! To learn more, please run:
  vignette("bulkreadr")
  > 
  > test_check("bulkreadr")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 15 ]
  > 
  > proc.time()
     user  system elapsed 
     4.06    1.43    7.89
Running 'testthat.R' [196s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bumbl)
  > 
  > test_check("bumbl")
  Warning: cannot find valid starting values: please specify some for colonyID '6'. Omitting from results.
  Warning: object 'fit' not found for colonyID '7'. Omitting from results.
  Warning: cannot find valid starting values: please specify some for colonyID '6'. Omitting from results.
  Warning: Search for optimal switchpoint did not converge for colonyID '7'. Omitting from results.
  
  Attaching package: 'dplyr'
  
  The following object is masked from 'package:testthat':
  
      matches
  
  The following objects are masked from 'package:stats':
  
      filter, lag
  
  The following objects are masked from 'package:base':
  
      intersect, setdiff, setequal, union
  
  Creating plots for 6 colonies...
  Creating plots for 6 colonies...
  Creating plots for 6 colonies...
  [ FAIL 0 | WARN 7 | SKIP 1 | PASS 41 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-brkpt.R:52:3'
  
  [ FAIL 0 | WARN 7 | SKIP 1 | PASS 41 ]
  > 
  > proc.time()
     user  system elapsed 
    31.84    0.71   32.53
Running 'testthat.R' [190s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bunching)
  Loading required package: BB
  Loading required package: dplyr
  
  Attaching package: 'dplyr'
  
  The following object is masked from 'package:testthat':
  
      matches
  
  The following objects are masked from 'package:stats':
  
      filter, lag
  
  The following objects are masked from 'package:base':
  
      intersect, setdiff, setequal, union
  
  Loading required package: ggplot2
  Loading required package: tidyr
  
  Attaching package: 'tidyr'
  
  The following object is masked from 'package:testthat':
  
      matches
  
  > 
  > test_check("bunching")
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 188 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 188 ]
  > 
  > proc.time()
     user  system elapsed 
    31.68    0.60   32.31
Running 'testthat.R' [368s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bunchr)
  > 
  > test_check("bunchr")
  [ FAIL 0 | WARN 18 | SKIP 0 | PASS 63 ]
  
  [ FAIL 0 | WARN 18 | SKIP 0 | PASS 63 ]
  > 
  > proc.time()
     user  system elapsed 
   202.45    5.84  208.36
Documented arguments not in \usage in Rd file 'count.Rd':
  '.data'

Documented arguments not in \usage in Rd file 'unite.Rd':
  '.data'

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' [176s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(burnr)
  > 
  > test_check("burnr")
  [ FAIL 0 | WARN 6 | SKIP 0 | PASS 110 ]
  
  [ FAIL 0 | WARN 6 | SKIP 0 | PASS 110 ]
  > 
  > proc.time()
     user  system elapsed 
     8.60    1.06    9.67
Running 'testthat.R' [164s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > require("testthat")
  Loading required package: testthat
  > test_check("businessPlanR")
  Loading required package: businessPlanR
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 22 ]
  > 
  > proc.time()
     user  system elapsed 
     1.21    0.20    1.42
Running 'testthat.R' [184s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(butcher)
  > 
  > test_check("butcher")
  [ FAIL 0 | WARN 0 | SKIP 35 | PASS 220 ]
  
  ══ Skipped tests (35) ══════════════════════════════════════════════════════════
  • On CRAN (34): 'test-c5.R:2:3', 'test-earth.R:2:3', 'test-earth.R:31:3',
    'test-elnet.R:2:3', 'test-flexsurvreg.R:2:3', 'test-flexsurvreg.R:15:3',
    'test-flexsurvreg.R:43:3', 'test-gausspr.R:2:3', 'test-glmnet.R:2:3',
    'test-kknn.R:2:3', 'test-klaR.R:2:3', 'test-klaR.R:17:3', 'test-ksvm.R:2:3',
    'test-mda.R:2:3', 'test-mda.R:23:3', 'test-mda.R:83:3',
    'test-mixOmics.R:2:3', 'test-mixOmics.R:21:3', 'test-mixOmics.R:38:3',
    'test-multnet.R:2:3', 'test-nnet.R:2:3', 'test-randomForest.R:2:3',
    'test-rpart.R:2:3', 'test-rpart.R:18:3', 'test-sclass.R:2:3',
    'test-survreg.R:2:3', 'test-survreg.penal.R:2:3', 'test-train.R:2:3',
    'test-train.R:42:3', 'test-train.recipe.R:9:3', 'test-ui.R:9:3',
    'test-weigh.R:12:3', 'test-xgb.R:6:3', 'test-xgb.R:34:3'
  • mixOmics cannot be loaded (1): 'test-recipe.R:419:3'
  
  [ FAIL 0 | WARN 0 | SKIP 35 | PASS 220 ]
  > 
  > proc.time()
     user  system elapsed 
    19.31    1.98   18.23
installed size is  5.1Mb
  sub-directories of 1Mb or more:
    libs   2.8Mb
Running 'testthat.R' [159s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bws)
  > 
  > test_check("bws")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 12 ]
  > 
  > proc.time()
     user  system elapsed 
     7.71    0.43    8.14
Running 'testthat.R' [244s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bwsTools)
  > 
  > test_check("bwsTools")
  [ FAIL 0 | WARN 3 | SKIP 0 | PASS 118 ]
  
  [ FAIL 0 | WARN 3 | SKIP 0 | PASS 118 ]
  > 
  > proc.time()
     user  system elapsed 
    74.15    0.90   75.06
Running 'testthat.R' [172s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(bysykkel)
  > 
  > test_check("bysykkel")
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 0 ]
  
  ══ Skipped tests (3) ═══════════════════════════════════════════════════════════
  • On CRAN (3): 'test_api.R:4:1', 'test_df_attr.R:4:1',
    'test_oslow_removed.R:4:1'
  
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     1.12    0.09    1.20
Running 'testthat.R' [155s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(jsonlite)
  > library(c3)
  
  Attaching package: 'c3'
  
  The following objects are masked from 'package:graphics':
  
      grid, legend
  
  > 
  > test_check("c3")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 135 ]
  > 
  > proc.time()
     user  system elapsed 
     1.76    0.28    2.01
Running 'testthat.R' [165s]
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)
  > library(C50)
  > 
  > test_check("C50")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 0 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-basic-execution.R:11:3'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     2.17    0.43    2.56
Running 'spelling.R' [0s]
  Running 'testthat.R' [157s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(caesar)
  > 
  > test_check("caesar")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 81 ]
  > 
  > proc.time()
     user  system elapsed 
     1.23    0.12    1.35
installed size is  8.8Mb
  sub-directories of 1Mb or more:
    libs   8.7Mb
Running 'testthat.R' [215s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(calculus)
  > 
  > test_check("calculus")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 240 ]
  > 
  > proc.time()
     user  system elapsed 
    44.64    1.81   46.53
Running 'testthat.R' [167s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(calcUnique)
  > 
  > test_check("calcUnique")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 2 ]
  > 
  > proc.time()
     user  system elapsed 
     0.43    0.15    0.57
Package suggested but not available for checking: 'ReGenesees'
Running 'testthat.R' [232s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(callr)
  > 
  > test_check("callr")
  [ FAIL 0 | WARN 0 | SKIP 38 | PASS 265 ]
  
  ══ Skipped tests (38) ══════════════════════════════════════════════════════════
  • On CRAN (36): 'test-archs.R:3:3', 'test-archs.R:13:3', 'test-archs.R:27:3',
    'test-archs.R:45:3', 'test-error.R:3:3', 'test-error.R:11:3',
    'test-error.R:19:3', 'test-error.R:35:3', 'test-error.R:55:3',
    'test-error.R:66:3', 'test-error.R:80:3', 'test-error.R:94:3',
    'test-error.R:108:3', 'test-error.R:118:3', 'test-error.R:135:3',
    'test-error.R:143:3', 'test-error.R:152:3', 'test-error.R:165:3',
    'test-error.R:186:3', 'test-error.R:198:3', 'test-error.R:211:3',
    'test-error.R:224:3', 'test-error.R:237:3', 'test-error.R:255:3',
    'test-eval.R:203:3', 'test-load-client.R:104:3', 'test-messages.R:10:3',
    'test-package.R:3:3', 'test-r-bg.R:62:3', 'test-r-session.R:90:3',
    'test-r-session.R:224:3', 'test-rcmd-process.R:15:3', 'test-rcmd.R:90:3',
    'test-rscript.R:44:3', 'test-rscript.R:67:3', 'test-spelling.R:3:3'
  • On Windows (1): 'test-load-client.R:57:3'
  • Unix only (1): 'test-libpath.R:177:3'
  
  [ FAIL 0 | WARN 0 | SKIP 38 | PASS 265 ]
  > 
  > proc.time()
     user  system elapsed 
    12.75    2.87   78.95
Running 'testthat.R' [198s]
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)
  > library(callsync)
  > 
  > test_check("callsync")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 52 ]
  > 
  > proc.time()
     user  system elapsed 
    16.62    2.93   19.57
Running 'spelling.R' [0s]
  Running 'testthat.R' [202s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(calmr)
  
  Attaching package: 'calmr'
  
  The following object is masked from 'package:base':
  
      parse
  
  > 
  > test_check("calmr")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 175 ]
  > 
  > proc.time()
     user  system elapsed 
    22.71    1.14   27.43
Running 'testthat.R' [180s]
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)
  > library(camcorder)
  > 
  > test_check("camcorder")
  [ FAIL 0 | WARN 0 | SKIP 4 | PASS 11 ]
  
  ══ Skipped tests (4) ═══════════════════════════════════════════════════════════
  • On CRAN (4): 'test-recording.R:33:3', 'test-recording.R:72:3',
    'test-recording.R:107:3', 'test-recording.R:146:3'
  
  [ FAIL 0 | WARN 0 | SKIP 4 | PASS 11 ]
  Deleting unused snapshots:
  • recording/camcorder_preview_ggplot2.png
  • recording/camcorder_preview_patchwork.png
  • recording/camcorder_preview_polaroid.png
  > 
  > proc.time()
     user  system elapsed 
     8.34    1.82    8.65
installed size is  7.4Mb
  sub-directories of 1Mb or more:
    doc        2.2Mb
    pictures   4.1Mb
Running 'testthat.R' [3s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(canadianmaps)
  > 
  > test_check("canadianmaps")
  [ FAIL 2 | WARN 0 | SKIP 0 | PASS 4 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-functions.R:14:3'): check-functions: scale_fill_map() returns a ggplot manual fill object ──
  output$scale_name (`actual`) not equal to "manual" (`expected`).
  
  `actual` is NULL
  `expected` is a character vector ('manual')
  ── Failure ('test-functions.R:23:3'): check-functions: scale_color_map() returns a ggplot manual fill object ──
  output$scale_name (`actual`) not equal to "manual" (`expected`).
  
  `actual` is NULL
  `expected` is a character vector ('manual')
  
  [ FAIL 2 | WARN 0 | SKIP 0 | PASS 4 ]
  Error: Test failures
  Execution halted
Running 'testthat.R' [288s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(canaper)
  > 
  > test_check("canaper")
  [1] "Dropping tips from the tree because they are not present in the community data:"
  [1] "sp5" "sp3"
  [1] "Dropping taxa from the community because they are not present in the phylogeny:"
  [1] "sp1" "sp2"
  [1] "Dropping taxa from the community because they are not present in the phylogeny:"
  [1] "sp1" "sp2"
  [1] "Dropping tips from the tree because they are not present in the community data:"
  [1] "sp5" "sp3"
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 274 ]
  
  ══ Skipped tests (3) ═══════════════════════════════════════════════════════════
  • On CRAN (2): 'test-cpr_rand_test.R:623:3', 'test-cpr_rand_test.R:666:3'
  • Skipping extended tests (1): 'test-cpr_rand_test.R:438:3'
  
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 274 ]
  > 
  > proc.time()
     user  system elapsed 
   104.79    2.18  125.00
Running 'spelling.R' [157s]
  Running 'testthat.R' [3s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if (requireNamespace("spelling", quietly = TRUE)) {
  +   spelling::spell_check_test(
  +     vignettes = TRUE, error = FALSE,
  +     skip_on_cran = TRUE
  +   )
  + }
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.17    0.06    0.20
Argument items with no description in Rd file 'makeEventHistory.Rd':
  'type'
Argument items with no description in Rd file 'plotSeqCount.Rd':
  'segColors'
Running 'testthat.R' [162s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(canprot)
  Loading required package: CHNOSZ
  CHNOSZ version 2.1.0 (2024-02-11)
  reset: creating "thermo" object
  OBIGT: loading default database with 1940 aqueous, 3486 total species
  human_base: 21006 proteins
  human_additional: 2187 proteins
  human_extra: 2449 proteins
  > 
  > test_check("canprot")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 7 ]
  > 
  > proc.time()
     user  system elapsed 
     1.14    0.17    1.29
Running 'ci-tests.R' [161s]
  Running 'testthat.R' [3s]
Running the tests in 'tests/ci-tests.R' failed.
Complete output:
  > # #!/usr/bin/env Rscript
  > # args = commandArgs(trailingOnly=TRUE)
  > # 
  > # library(devtools)
  > # library(testthat)
  > # library(here)
  > # 
  > # cat(args[1])
  > # cat(" ")
  > # cat(print("cape" %in% (.packages())))
  > # 
  > # 
  > # # set output xml file
  > # options(testthat.output_file = here("tests/test-out.xml"))
  > # 
  > # # run tests
  > # testthat::test_dir(here("tests/testthat"), env=.GlobalEnv, reporter = "junit")  #, filter = 'run')
  > 
  > proc.time()
     user  system elapsed 
     0.18    0.01    0.18
Problems with news in 'NEWS.md':
  Cannot extract version info from the following section titles:
    captr .1.4
    captr .1.3
    captr .1.2
Running 'testthat.R' [162s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > 
  > py_ver <- tryCatch({
  +   cfg <- reticulate::py_config()
  +   base::numeric_version(cfg$version)
  + }, error = function(e) {
  +   base::numeric_version("1")
  + })
  > 
  > if (py_ver >= "3" && reticulate::py_module_available("sympy")) {
  +   local_sympy <- reticulate::import("sympy")
  +   
  +   if (base::numeric_version(local_sympy$`__version__`) >= "1.4") {
  +     # All okay:
  +     library(caracas)
  + 
  +     test_check("caracas")
  +   }
  + }
  > 
  > proc.time()
     user  system elapsed 
     1.68    0.42   11.73
Running 'testthat.R' [173s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library("testthat")
  > test_check("caRamel")
  Loading required package: caRamel
  Loading required package: geometry
  Loading required package: parallel
  Package 'caRamel' version 1.3
  
    |                                                                            
    |                                                                      |   0%
    |                                                                            
    |======================================================================| 100%
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 9 ]
  > 
  > proc.time()
     user  system elapsed 
     0.93    0.20    1.12
Running 'testthat.R' [159s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(card)
  > 
  > test_check("card")
  [ FAIL 0 | WARN 3 | SKIP 0 | PASS 10 ]
  
  [ FAIL 0 | WARN 3 | SKIP 0 | PASS 10 ]
  > 
  > proc.time()
     user  system elapsed 
     5.23    0.35    5.57
Running 'spelling.R' [0s]
  Running 'testthat.R' [180s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > test_check("cardx")
  Loading required package: cardx
  
  Attaching package: 'cardx'
  
  The following object is masked from 'package:testthat':
  
      matches
  
  Starting 2 test processes
  [ FAIL 0 | WARN 0 | SKIP 9 | PASS 24 ]
  
  ══ Skipped tests (9) ═══════════════════════════════════════════════════════════
  • On CRAN (9): 'test-ard_chisqtest.R:23:3', 'test-ard_kruskaltest.R:20:3',
    'test-ard_moodtest.R:20:3', 'test-ard_proportion_ci.R:50:3',
    'test-ard_ttest.R:25:3', 'test-ard_ttest.R:70:3',
    'test-ard_regression.R:2:3', 'test-proportion_ci.R:10:3',
    'test-proportion_ci.R:136:3'
  
  [ FAIL 0 | WARN 0 | SKIP 9 | PASS 24 ]
  > 
  > proc.time()
     user  system elapsed 
     1.64    0.37    5.84
Running 'spelling.R' [171s]
  Running 'testthat.R' [177s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if (requireNamespace("spelling", quietly = TRUE)) {
  +   spelling::spell_check_test(
  +     vignettes = TRUE, error = FALSE,
  +     skip_on_cran = TRUE
  +   )
  + }
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.15    0.04    0.18 
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(caRecall)
  > 
  > test_check("caRecall")
  [ FAIL 0 | WARN 0 | SKIP 14 | PASS 7 ]
  
  ══ Skipped tests (14) ══════════════════════════════════════════════════════════
  • No authentication available (14): 'test-recall_count.R:2:3',
    'test-recall_count.R:11:3', 'test-recall_count.R:20:3',
    'test-recall_count.R:29:3', 'test-recall_count.R:38:3',
    'test-recall_data.R:2:3', 'test-recall_data.R:48:3',
    'test-recall_data.R:74:3', 'test-recall_data.R:110:3',
    'test-recall_data.R:132:3', 'test-recall_data.R:149:3', 'test-utils.R:2:3',
    'test-utils.R:15:3', 'test-utils.R:25:3'
  
  [ FAIL 0 | WARN 0 | SKIP 14 | PASS 7 ]
  > 
  > proc.time()
     user  system elapsed 
     1.25    0.21   10.32
Running 'testthat.R' [216s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(caretEnsemble)
  > 
  > test_check("caretEnsemble")
  [ FAIL 0 | WARN 0 | SKIP 31 | PASS 413 ]
  
  ══ Skipped tests (31) ══════════════════════════════════════════════════════════
  • Basic skip failed (1): 'test-a-skip.R:3:3'
  • On CRAN (27): 'test-a-skip.R:9:3', 'test-caretList.R:165:3',
    'test-caretList.R:192:3', 'test-caretList.R:254:7', 'test-caretList.R:254:7',
    'test-caretList.R:254:7', 'test-caretList.R:254:7', 'test-caretList.R:305:3',
    'test-caretList.R:362:3', 'test-caretList.R:448:3', 'test-caretList.R:491:3',
    'test-caretList.R:524:3', 'test-classSelection.R:89:3',
    'test-classSelection.R:124:3', 'test-ensemble.R:123:3',
    'test-ensembleMethods.R:18:3', 'test-ensembleMethods.R:34:3',
    'test-ensembleMethods.R:52:3', 'test-ensembleMethods.R:80:3',
    'test-ensembleMethods.R:129:3', 'test-ensembleMethods.R:180:3',
    'test-ensembleMethods.R:236:3', 'test-ensembleMethods.R:257:3',
    'test-ensembleMethods.R:275:3', 'test-helper_functions.R:138:3',
    'test-lintr.R:3:3', 'test-parallel.R:5:3'
  • empty test (3): 'test-a-skip.R:5:1', 'test-caretList.R:245:1',
    'test-caretStack.R:44:1'
  
  [ FAIL 0 | WARN 0 | SKIP 31 | PASS 413 ]
  > 
  > proc.time()
     user  system elapsed 
    54.78    1.98   56.71
Running 'testthat.R' [167s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(Carlson)
  > 
  > test_check("Carlson")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 58 ]
  > 
  > proc.time()
     user  system elapsed 
     0.93    0.23    1.10
Running 'testthat.R' [163s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(carpenter)
  > 
  > test_check("carpenter")
  [ FAIL 0 | WARN 11 | SKIP 0 | PASS 21 ]
  
  [ FAIL 0 | WARN 11 | SKIP 0 | PASS 21 ]
  > 
  > proc.time()
     user  system elapsed 
     2.20    0.18    2.37
Running 'testthat.R' [161s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cartograflow)
  > 
  > test_check("cartograflow")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     1.85    0.45    2.25
Package suggested but not available for checking: 'rnaturalearthhires'
installed size is 12.2Mb
  sub-directories of 1Mb or more:
    www  12.1Mb
installed size is  6.6Mb
  sub-directories of 1Mb or more:
    doc   5.4Mb
Invalid package aliases in Rd file 'EcoLinkPredict.Rd':
  'EcoLinkPredict-package'
Running 'testthat.R' [180s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cassowaryr)
  > 
  > test_check("cassowaryr")
  
  Attaching package: 'dplyr'
  
  The following object is masked from 'package:testthat':
  
      matches
  
  The following objects are masked from 'package:stats':
  
      filter, lag
  
  The following objects are masked from 'package:base':
  
      intersect, setdiff, setequal, union
  
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 16 ]
  > 
  > proc.time()
     user  system elapsed 
    21.37    0.81   22.17
Running 'testthat.R' [261s]
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")
  > library("cat2cat")
  > 
  > test_check("cat2cat")
  
  Attaching package: 'dplyr'
  
  The following object is masked from 'package:testthat':
  
      matches
  
  The following objects are masked from 'package:stats':
  
      filter, lag
  
  The following objects are masked from 'package:base':
  
      intersect, setdiff, setequal, union
  
  Loading required package: ggplot2
  Loading required package: lattice
  randomForest 4.7-1.1
  Type rfNews() to see new features/changes/bug fixes.
  
  Attaching package: 'randomForest'
  
  The following object is masked from 'package:ggplot2':
  
      margin
  
  The following object is masked from 'package:dplyr':
  
      combine
  
  Adding missing grouping variables: `index_c2c`
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 150 ]
  > 
  > proc.time()
     user  system elapsed 
    94.96   12.42  107.39
Running 'testthat.R' [176s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(catcont)
  > 
  > test_check("catcont")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 50 ]
  > 
  > proc.time()
     user  system elapsed 
      1.5     0.2     1.7
Running 'testthat.R' [172s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(catlearn)
  > suppressWarnings(RNGversion("3.5.0"))
  > test_check("catlearn")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 41 ]
  > 
  > proc.time()
     user  system elapsed 
     1.23    0.20    1.42
installed size is 20.2Mb
  sub-directories of 1Mb or more:
    doc  19.9Mb
Running 'testthat.R' [179s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > Sys.setenv("R_TESTS" = "")
  > if (require(testthat)) {
  +   test_check("catmaply")
  + }
  Loading required package: testthat
  Loading required package: catmaply
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 109 ]
  > 
  > proc.time()
     user  system elapsed 
     6.29    0.48    6.78
Running 'testthat.R' [163s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(catsim)
  > 
  > test_check("catsim")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 116 ]
  > 
  > proc.time()
     user  system elapsed 
     5.23    0.82    6.09
Running 'testthat.R' [202s]
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)
  > library(causalBatch)
  > 
  > test_check("causalBatch")
  Found2batches
  Adjusting for1covariate(s) or covariate level(s)
  Standardizing Data across genes
  Fitting L/S model and finding priors
  Finding parametric adjustments
  Adjusting the Data
  
  Found2batches
  Adjusting for1covariate(s) or covariate level(s)
  Standardizing Data across genes
  Fitting L/S model and finding priors
  Finding parametric adjustments
  Adjusting the Data
  
  Loading required package: ks
  
  Attaching package: 'ks'
  
  The following object is masked from 'package:testthat':
  
      compare
  
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 38 ]
  
  ══ Skipped tests (3) ═══════════════════════════════════════════════════════════
  • On CRAN (3): 'test-causal_cdcorr.R:31:3', 'test-causal_cdcorr.R:46:3',
    'test-causal_cdcorr.R:89:3'
  
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 38 ]
  > 
  > proc.time()
     user  system elapsed 
    30.90    1.04   31.98
Running 'spelling.R' [174s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.14    0.04    0.18
Running 'testthat.R' [156s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(causaldrf)
  > 
  > 
  > # in order to get output log file or .pdf help file, you need to run the next line.
  > # test_check("causaldrf")
  > context("scratch test")
  > 
  > test_that("just see if test_that works", {
  +   expect_equal(1, 1)
  + })
  Test passed 🎊
  > 
  > proc.time()
     user  system elapsed 
     2.14    0.26    2.39
Running 'testthat.R' [166s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(CausalGPS)
  > 
  > Sys.setenv("R_TESTS" = "")
  > library(testthat)
  > test_check("CausalGPS")
  [ FAIL 0 | WARN 0 | SKIP 34 | PASS 35 ]
  
  ══ Skipped tests (34) ══════════════════════════════════════════════════════════
  • On CRAN (34): 'test-CausalGPS_smooth.R:3:4', 'test-absolute_corr_fun.R:4:3',
    'test-absolute_weighted_corr_fun.R:4:3', 'test-check_arguments.R:2:3',
    'test-check_covar_balance.R:2:1', 'test-check_covar_balance.R:59:1',
    'test-check_kolmogorov_smirnov.R:2:3', 'test-compile_pseudo_pop.R:3:3',
    'test-compute_density.R:3:3', 'test-compute_minmax.R:3:3',
    'test-compute_outer.R:3:3', 'test-compute_resid.R:3:3',
    'test-create_weighting.R:3:3', 'test-create_weighting.R:37:3',
    'test-estimate_gps.R:3:3', 'test-estimate_gps.R:51:3',
    'test-estimate_gps.R:71:3', 'test-estimate_gps.R:93:3',
    'test-estimate_gps.R:124:3', 'test-estimate_hat_vals.R:3:3',
    'test-estimate_npmetric_erf.R:2:3', 'test-estimate_npmetric_erf.R:44:3',
    'test-estimate_pmetric_erf.R:5:3', 'test-estimate_semipmetric_erf.R:4:3',
    'test-generate_pseudo_pop.R:2:3', 'test-generate_pseudo_pop.R:325:3',
    'test-generate_synthetic_data.R:4:3', 'test-generate_wrap_sl_lib.R:3:3',
    'test-matching_fn.R:3:3', 'test-set_logger.R:3:5', 'test-smooth_erf.R:3:3',
    'test-train_it.R:3:3', 'test-train_it.R:18:3', 'test-trim_gps.R:3:3'
  
  [ FAIL 0 | WARN 0 | SKIP 34 | PASS 35 ]
  > 
  > proc.time()
     user  system elapsed 
     3.12    0.45    3.57
Running 'CausalImpact_import_test.R' [162s]
  Running 'testthat.R' [35s]
Running the tests in 'tests/CausalImpact_import_test.R' failed.
Complete output:
  > # Copyright 2014-2022 Google Inc. All rights reserved.
  > #
  > # Licensed under the Apache License, Version 2.0 (the "License");
  > # you may not use this file except in compliance with the License.
  > # You may obtain a copy of the License at
  > #
  > # http://www.apache.org/licenses/LICENSE-2.0
  > #
  > # Unless required by applicable law or agreed to in writing, software
  > # distributed under the License is distributed on an "AS IS" BASIS,
  > # WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
  > # See the License for the specific language governing permissions and
  > # limitations under the License.
  > 
  > # Unit test for CausalImpact imports.
  > #
  > # Checks whether `CausalImpact()` can be called without attaching the
  > # CausalImpact package. The aim of this test is to check whether CausalImpact
  > # correctly imports all functions needed.
  > #
  > # We therefore intentionally do not call `library(CausalImpact)` in this test.
  > #
  > # Author: alhauser@google.com (Alain Hauser)
  > 
  > 
  > library(testthat)
  > 
  > # Create a data set with one explanatory variable.
  > set.seed(1)
  > x1 <- 100 + arima.sim(model = list(ar = 0.999), n = 100)
  > y <- 1.2 * x1 + rnorm(100)
  > y[71:100] <- y[71:100] + 10
  > data <- cbind(y, x1)
  > 
  > # Test that a `CausalImpact` object is created when the package is not loaded.
  > impact <- CausalImpact::CausalImpact(data, c(1, 70), c(71, 100))
  > expect_is(impact, "CausalImpact")
  > 
  > # Request dynamic regression to check that `GammaPrior()` is correctly imported.
  > impact <- CausalImpact::CausalImpact(
  +     data, c(1, 70), c(71, 100), model.args = list(dynamic.regression = TRUE))
  > expect_is(impact, "CausalImpact")
  > 
  > proc.time()
     user  system elapsed 
     4.06    0.42    4.46
Running 'testthat.R' [161s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(CausalMBSTS)
  Loading required package: KFAS
  Please cite KFAS in publications by using: 
  
    Jouni Helske (2017). KFAS: Exponential Family State Space Models in R. Journal of Statistical Software, 78(10), 1-39. doi:10.18637/jss.v078.i10.
  > 
  > test_check("CausalMBSTS")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 6 ]
  > 
  > proc.time()
     user  system elapsed 
     3.32    0.45    3.78
Running 'testthat.R' [386s]
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)
  > library(CausalMetaR)
  > 
  > test_check("CausalMetaR")
  Loading required package: nnls
  Loading required namespace: glmnet
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 16 ]
  > 
  > proc.time()
     user  system elapsed 
   206.45   13.73  220.21
Package suggested but not available for checking: 'rkeops'
Running 'testthat.R' [174s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > 
  > library(CausalQueries)
  Loading required package: dplyr
  
  Attaching package: 'dplyr'
  
  The following object is masked from 'package:testthat':
  
      matches
  
  The following objects are masked from 'package:stats':
  
      filter, lag
  
  The following objects are masked from 'package:base':
  
      intersect, setdiff, setequal, union
  
  Loading required package: Rcpp
  > 
  > test_check("CausalQueries")
  [ FAIL 0 | WARN 0 | SKIP 34 | PASS 49 ]
  
  ══ Skipped tests (34) ══════════════════════════════════════════════════════════
  • On CRAN (34): 'test_data_helpers.R:9:1', 'test_data_strategy.R:9:1',
    'test_draw_causal_type.R:5:1', 'test_get_ambiguity_matrix.R:8:1',
    'test_get_causal_types.R:8:1', 'test_get_event_prob.R:9:1',
    'test_get_nodal_types.R:9:1', 'test_get_query_types.R:8:1',
    'test_get_type_prob.R:8:1', 'test_get_types.R:8:1', 'test_helpers.R:7:1',
    'test_layering.R:9:1', 'test_lookuptype.R:10:1', 'test_make_data.R:4:1',
    'test_make_events.R:5:1', 'test_make_model.R:3:1',
    'test_map_query_to_causal_types.R:8:1', 'test_map_query_to_nodal_type.R:9:1',
    'test_misc.R:8:1', 'test_observe.R:9:1', 'test_parmap.R:3:1',
    'test_plot_dag.R:3:1', 'test_prep_stan_data.R:8:1',
    'test_query_helpers.R:8:1', 'test_query_model.R:4:1',
    'test_restrictions.R:8:1', 'test_reveal_outcomes.R:8:1',
    'test_set_confound.R:3:1', 'test_set_parameter_matrix.R:8:1',
    'test_set_parameters.R:8:1', 'test_set_prior_distribution.R:9:1',
    'test_set_priors.R:4:1', 'test_set_restrictions.R:6:1',
    'test_update_model.R:9:1'
  
  [ FAIL 0 | WARN 0 | SKIP 34 | PASS 49 ]
  > 
  > if (length(strsplit(packageDescription("CausalQueries")$Version, "\\.")[[1]]) > 3) {
  +   Sys.setenv("RunAllRcppTests"="yes")
  + }
  > 
  > proc.time()
     user  system elapsed 
     5.31    0.51    5.28
Running 'testthat.R' [189s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(CausCor)
  > 
  > test_check("CausCor")
  [ FAIL 0 | WARN 4582 | SKIP 0 | PASS 2 ]
  
  [ FAIL 0 | WARN 4582 | SKIP 0 | PASS 2 ]
  > 
  > proc.time()
     user  system elapsed 
    27.40    0.68   28.07
installed size is 12.5Mb
  sub-directories of 1Mb or more:
    libs  12.0Mb
Running 'testthat.R' [176s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cbsodataR)
  > 
  > test_check("cbsodataR")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 22 ]
  > 
  > proc.time()
     user  system elapsed 
     0.81    0.15    0.96
Running 'testthat.R' [205s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cchsflow)
  Loading required package: haven
  Loading required package: dplyr
  
  Attaching package: 'dplyr'
  
  The following object is masked from 'package:testthat':
  
      matches
  
  The following objects are masked from 'package:stats':
  
      filter, lag
  
  The following objects are masked from 'package:base':
  
      intersect, setdiff, setequal, union
  
  Loading required package: sjlabelled
  
  Attaching package: 'sjlabelled'
  
  The following object is masked from 'package:dplyr':
  
      as_label
  
  The following objects are masked from 'package:haven':
  
      as_factor, read_sas, read_spss, read_stata, write_sas, zap_labels
  
  Loading required package: stringr
  Loading required package: magrittr
  
  Attaching package: 'magrittr'
  
  The following objects are masked from 'package:testthat':
  
      equals, is_less_than, not
  
  > 
  > test_check("cchsflow")
  Using the passed data variable name as database_name
  Using the passed data variable name as database_name
  Using the passed data variable name as database_name
  Using the passed data variable name as database_name
  [ FAIL 0 | WARN 8 | SKIP 0 | PASS 314 ]
  
  [ FAIL 0 | WARN 8 | SKIP 0 | PASS 314 ]
  > 
  > proc.time()
     user  system elapsed 
    28.01    1.42   29.46
Running 'testthat.R' [262s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ccid)
  > 
  > test_check("ccid")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 61 ]
  > 
  > proc.time()
     user  system elapsed 
    73.03   16.29   89.29
Running 'testthat.R' [204s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ccpsyc)
  > 
  > test_check("ccpsyc")
  You have set orthogonal latent variables to be true. This is the default
              as most exploratory research uses varimax rotations modelling fators as orthogonal.
              To disable this set orthog = F
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
  > 
  > proc.time()
     user  system elapsed 
    26.12    0.81   26.92
Running 'testthat.R' [151s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cellKey) # nolint
  Loading required package: sdcHierarchies
  Loading required package: shinythemes
  Package "sdcHierarchies" 0.21.0 has been loaded.
  Loading required package: data.table
  Package cellKey 1.0.2 has been loaded. To enable parallel processing, set `Sys.setenv('CK_RUN_PARALLEL' = TRUE)`
  > 
  > test_check("cellKey")
  [ FAIL 0 | WARN 0 | SKIP 6 | PASS 0 ]
  
  ══ Skipped tests (6) ═══════════════════════════════════════════════════════════
  • On CRAN (6): 'test_ck_generate_rkeys.R:1:1', 'test_ck_setup.R:1:1',
    'test_countvars.R:1:1', 'test_numvars.R:1:1', 'test_params_cnts.R:1:1',
    'test_params_nums.R:1:1'
  
  [ FAIL 0 | WARN 0 | SKIP 6 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     3.06    0.45    3.50
Running 'testthat.R' [167s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cellpypes)
  > 
  > test_check("cellpypes")
  converting counts to integer mode
  [ FAIL 0 | WARN 5 | SKIP 0 | PASS 55 ]
  
  [ FAIL 0 | WARN 5 | SKIP 0 | PASS 55 ]
  > 
  > proc.time()
     user  system elapsed 
    10.87    1.07   11.93
Running 'testthat.R' [166s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(celltrackR)
  > 
  > test_check("celltrackR")
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 325 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 325 ]
  > 
  > proc.time()
     user  system elapsed 
    17.28    0.57   17.86
installed size is  7.3Mb
  sub-directories of 1Mb or more:
    data   3.2Mb
    doc    2.0Mb
    libs   1.7Mb
Running 'spelling.R' [165s]
  Running 'testthat.R' [3s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if (requireNamespace('spelling', quietly = TRUE)) {
  +   spelling::spell_check_test(
  +     vignettes = TRUE, error = FALSE,
  +     skip_on_cran = TRUE
  +   )
  + }
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.10    0.09    0.18
Auto-generated content requiring editing in Rd file 'CensMFM-package.Rd':
  \details: '...o use the package, including the most important functions ~~'
Running 'testthat.R' [163s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(censo2017)
  CENSO 2017
  La documentacion del paquete y ejemplos de uso se encuentran en https://pacha.dev/censo2017/.
  Visita https://buymeacoffee.com/pacha si deseas donar para contribuir al desarrollo de este software.
  Esta libreria necesita 3.5 GB libres para la crear la base de datos localmente. Una vez creada la base, esta ocupa 1.0 GB en disco.
  
  > test_check("censo2017")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 0 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-simple-checkout.R:7:3'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     0.67    0.14    0.79
Unexported objects imported by ':::' calls:
  'copula:::dCdu' 'copula:::fitCopStart'
  See the note in ?`:::` about the use of this operator.
Running 'testthat.R' [377s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(censored)
  Loading required package: parsnip
  Loading required package: survival
  > 
  > test_check("censored")
  [ FAIL 0 | WARN 0 | SKIP 11 | PASS 718 ]
  
  ══ Skipped tests (11) ══════════════════════════════════════════════════════════
  • On CRAN (11): 'test-bag_tree-rpart.R:92:3',
    'test-proportional_hazards-glmnet.R:30:3',
    'test-proportional_hazards-glmnet.R:1121:3',
    'test-proportional_hazards-glmnet.R:1149:3',
    'test-proportional_hazards-glmnet.R:1158:3',
    'test-proportional_hazards-glmnet.R:1180:3',
    'test-proportional_hazards-glmnet.R:1287:3',
    'test-proportional_hazards-survival.R:143:3',
    'test-proportional_hazards.R:10:3',
    'test-survival_reg-flexsurvspline.R:459:3', 'test-survival_reg.R:9:3'
  
  [ FAIL 0 | WARN 0 | SKIP 11 | PASS 718 ]
  > 
  > proc.time()
     user  system elapsed 
   202.75    9.39  209.18
Running 'testthat.R' [163s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(Census2016)
  For additional data packages for the 2016 Census, visit https://github.com/HughParsonage/Census2016.DataPack
  > 
  > test_check("Census2016")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 4 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • visualTest cannot be loaded (1): 'test_see_question.R:15:3'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 4 ]
  > 
  > proc.time()
     user  system elapsed 
     0.87    0.21    1.07
Argument items with no description in Rd file 'centralplot.Rd':
  'alpha'
Running 'testthat.R' [175s]
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)
  > library(cereal)
  > 
  > test_check("cereal")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 19 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-json.R:18:5'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 19 ]
  > 
  > proc.time()
     user  system elapsed 
     1.10    0.25    1.34
Running 'testthat.R' [157s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > requireNamespace("testthat")
  Loading required namespace: testthat
  > requireNamespace("Certara.NLME8")
  Loading required namespace: Certara.NLME8
  > 
  > testthat::test_check("Certara.NLME8")
  Loading required package: Certara.NLME8
  [ FAIL 0 | WARN 0 | SKIP 9 | PASS 0 ]
  
  ══ Skipped tests (9) ═══════════════════════════════════════════════════════════
  • On CRAN (9): 'test_VPC.r:2:3', 'test_bootstrap.r:2:3', 'test_profile.r:2:3',
    'test_shotgun.r:2:3', 'test_simIntegrationErrors.r:2:3',
    'test_simpleFit.r:2:3', 'test_simpleFitMultIds.R:2:3', 'test_sortFit.r:2:3',
    'test_stepwise.r:2:3'
  
  [ FAIL 0 | WARN 0 | SKIP 9 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     1.00    0.10    1.07
Running 'testthat.R' [159s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cesR)
  > 
  > test_check("cesR")
  [ FAIL 0 | WARN 0 | SKIP 4 | PASS 3 ]
  
  ══ Skipped tests (4) ═══════════════════════════════════════════════════════════
  • On CRAN (4): 'test-get_ces.R:5:3', 'test-get_ces.R:99:3',
    'test-get_decon.R:5:3', 'test-get_decon.R:14:3'
  
  [ FAIL 0 | WARN 0 | SKIP 4 | PASS 3 ]
  > 
  > proc.time()
     user  system elapsed 
     0.89    0.09    0.96
Problems with news in 'NEWS.md':
  Cannot extract version info from the following section titles:
    Major refactoring of the code
Documented arguments not in \usage in Rd file 'create_epa.Rd':
  'clean_pbp_dat' 'df'

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' [248s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cfda)
  Loading required package: fda
  Loading required package: splines
  Loading required package: fds
  Loading required package: rainbow
  Loading required package: MASS
  Loading required package: pcaPP
  Loading required package: RCurl
  Loading required package: deSolve
  
  Attaching package: 'fda'
  
  The following object is masked from 'package:graphics':
  
      matplot
  
  Loading required package: ggplot2
  INFO: Since cfda 0.11, the computing method of compute_optimal_encoding function has changed. To use the former one, add the argument: method='parallel'
  > 
  > test_check("cfda")
  [ FAIL 0 | WARN 1 | SKIP 12 | PASS 355 ]
  
  ══ Skipped tests (12) ══════════════════════════════════════════════════════════
  • On CRAN (12): 'test.bootstrap.R:157:3', 'test.bootstrap.R:209:3',
    'test.encoding.R:39:3', 'test.encoding.R:89:3', 'test.encoding.R:145:3',
    'test.encoding.R:187:3', 'test.encoding.R:235:3', 'test.encoding.R:395:1',
    'test.encoding0columnManagement.R:147:3',
    'test.encoding0columnManagement.R:178:3',
    'test.encoding0columnManagement.R:270:3', 'test.predict.R:5:1'
  
  [ FAIL 0 | WARN 1 | SKIP 12 | PASS 355 ]
  > 
  > proc.time()
     user  system elapsed 
    71.59    5.90   77.54
Running 'spelling.R' [176s]
  Running 'testthat.R' [8s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if (requireNamespace("spelling", quietly = TRUE)) {
  +   spelling::spell_check_test(
  +     vignettes = TRUE, error = TRUE,
  +     skip_on_cran = TRUE
  +   )
  + }
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.20    0.01    0.20
installed size is 38.7Mb
  sub-directories of 1Mb or more:
    include  38.4Mb
Running 'testthat.R' [165s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(CGPfunctions)
  > 
  > test_check("CGPfunctions")
  [ FAIL 0 | WARN 3 | SKIP 0 | PASS 4 ]
  
  [ FAIL 0 | WARN 3 | SKIP 0 | PASS 4 ]
  > 
  > proc.time()
     user  system elapsed 
     4.07    0.60    4.67
Running 'testthat.R' [184s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(chandwich)
  > 
  > test_check("chandwich")
  Waiting for profiling to be done...
  Waiting for profiling to be done...
  Waiting for profiling to be done...
  Waiting for profiling to be done...
  Waiting for profiling to be done...
  Waiting for profiling to be done...
  Waiting for profiling to be done...
  Waiting for profiling to be done...
  Waiting for profiling to be done...
  Waiting for profiling to be done...
  Waiting for profiling to be done...
  Waiting for profiling to be done...
  Waiting for profiling to be done...
  Waiting for profiling to be done...
  Waiting for profiling to be done...
  Waiting for profiling to be done...
  Waiting for profiling to be done...
  Waiting for profiling to be done...
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 103 ]
  > 
  > proc.time()
     user  system elapsed 
    16.50    0.71   17.21
Invalid package aliases in Rd file 'ChangePointAnalyzer-package.Rd':
  'ChangePointAnalyzer-package'
Auto-generated content requiring editing in Rd file 'ChangePointAnalyzer-package.Rd':
  \references: 'This optional section can contain literature or other refere...'
  \seealso: 'Optional links to other man pages'
  \examples: '\dontrun{      ## Optional simple examples of the most impor...'
Running 'testthat.R' [213s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(changeRangeR)
  To get started with multiple species, see the demo with 
  vignette(package='changeRangeR')
  > 
  > test_check("changeRangeR")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 26 ]
  > 
  > proc.time()
     user  system elapsed 
    31.17    6.09   37.29
Found the following significant warnings:
  checks.c:489:80: warning: unknown conversion type character 'j' in format [-Wformat=]
  checks.c:489:36: warning: too many arguments for format [-Wformat-extra-args]
  checks.c:493:80: warning: unknown conversion type character 'j' in format [-Wformat=]
  checks.c:493:36: warning: too many arguments for format [-Wformat-extra-args]
  checks.c:497:80: warning: unknown conversion type character 'j' in format [-Wformat=]
  checks.c:497:36: warning: too many arguments for format [-Wformat-extra-args]
See 'd:/Rcompile/CRANpkg/local/4.4/checkmate.Rcheck/00install.out' for details.
* used C compiler: 'gcc.exe (GCC) 13.2.0'
Package suggested but not available for checking: 'darts'
Running 'testthat.R' [163s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(checkpoint)
  
  checkpoint: Part of the Reproducible R Toolkit from Microsoft
  https://mran.microsoft.com/documents/rro/reproducibility/
  > 
  > test_check("checkpoint")
  [ FAIL 0 | WARN 0 | SKIP 6 | PASS 6 ]
  
  ══ Skipped tests (6) ═══════════════════════════════════════════════════════════
  • On CRAN (6): 'test02a_checkpoint1.R:3:1', 'test02b_checkpoint2.R:3:1',
    'test03_mran.R:3:1', 'test04_checkpoint_mft.R:3:1',
    'test05_checkpoint_rver.R:3:1', 'test06_checkpoint_src.R:3:1'
  
  [ FAIL 0 | WARN 0 | SKIP 6 | PASS 6 ]
  > 
  > proc.time()
     user  system elapsed 
     0.96    0.17    1.12
Running 'spelling.R' [172s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.14    0.07    0.18
Running 'tinytest.R' [168s]
Running the tests in 'tests/tinytest.R' failed.
Complete output:
  > if (require(tinytest, quietly = TRUE)) test_package("ChemoSpec2D", verbose = TRUE)
  Loading required package: ChemoSpecUtils
  
  As of version 6, ChemoSpec2D offers new graphics output options
  
  Functions plotScores and plotScree will work with the new options
  For details, please see ?GraphicsOptions
  
  The ChemoSpec graphics option is set to 'ggplot2'
  To change it, do
  	options(ChemoSpecGraphics = 'option'),
  	where 'option' is one of 'base' or 'ggplot2' or'plotly'.
  
  test_centscaleSpectra2D.R.....    5 tests [0;32mOK[0m  [0;36m92ms[0m
  
  test_hats_alignSpectra2D.R....    0 tests     [0;36m2ms[0m
   num [1:50, 1:100, 1:10] 0.08046 0.03152 0.05684 0.00853 0.00185 ...
   - attr(*, "dimnames")=List of 3
    ..$ : chr [1:50] "I" "I" "I" "I" ...
    ..$ : chr [1:100] "J" "J" "J" "J" ...
    ..$ : chr [1:10] "K" "K" "K" "K" ...
  
  test_makeArray.R..............    2 tests [0;32mOK[0m  [0;36m29ms[0m
  All ok, 7 results (0.1s)
  > 
  > 
  > proc.time()
     user  system elapsed 
     1.21    0.39    1.61
Running 'testthat.R' [164s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cherryblossom)
  > 
  > test_check("cherryblossom")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 9 ]
  > 
  > proc.time()
     user  system elapsed 
     0.85    0.09    0.93
Running 'testthat.R' [184s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library("testthat")
  > library("chessboard")
  > 
  > test_check("chessboard")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1273 ]
  > 
  > proc.time()
     user  system elapsed 
    13.68    1.85   15.73
Package suggested but not available for checking: 'countreg'
Running 'testthat.R' [157s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(chilemapas)
  Loading required package: sf
  Linking to GEOS 3.11.2, GDAL 3.8.2, PROJ 9.3.1; sf_use_s2() is TRUE
  La documentacion del paquete y ejemplos de uso se encuentran en https://pacha.dev/chilemapas/.
  Visita https://buymeacoffee.com/pacha/ si deseas donar para contribuir al desarrollo de este software.
  > 
  > test_check("chilemapas")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 1 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-aggregation.R:4:3'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     1.54    0.39    1.90
Invalid package aliases in Rd file 'ChIPtest-package.Rd':
  'ChIPtest_1.0-package'
Package unavailable to check Rd xrefs: 'cmdstanr'
Running 'testthat.R' [154s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(chlorpromazineR)
  > 
  > test_check("chlorpromazineR")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 55 ]
  > 
  > proc.time()
     user  system elapsed 
     0.96    0.21    1.18
Running 'testthat.R' [165s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(CHNCapitalStock)
  > 
  > test_check("CHNCapitalStock")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 6 ]
  > 
  > proc.time()
     user  system elapsed 
     0.90    0.20    1.07
Running 'testthat.R' [160s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(CholWishart)
  > 
  > test_check("CholWishart")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 117 ]
  > 
  > proc.time()
     user  system elapsed 
     1.34    0.20    1.53
Running 'testthat.R' [174s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(chords)
  > 
  > test_check("chords")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 17 ]
  > 
  > proc.time()
     user  system elapsed 
     3.93    0.23    4.17
Package suggested but not available for checking: 'entab'
Running 'testthat.R' [206s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(chromConverter)
  > 
  > test_check("chromConverter")
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 2 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • entab cannot be loaded (1): 'test-read_chroms.R:21:3'
  • required packages aston not available for testing (1):
    'test-read_chroms.R:9:3'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 2 ]
  > 
  > proc.time()
     user  system elapsed 
     3.67    1.01   34.36
Running 'test-all.R' [160s]
Running the tests in 'tests/test-all.R' failed.
Complete output:
  > library('testthat')
  > test_check('chromer')
  Loading required package: chromer
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 0 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On CRAN (2): 'test-data-summary.R:5:5', 'test-rank-query.R:5:5'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     1.07    0.12    1.17
Running 'testthat.R' [158s]
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)
  > library(chronochrt)
  > 
  > test_check("chronochrt")
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 89 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On CRAN (2): 'test_geoms_chronochrt.R:18:3', 'test_geoms_image.R:3:3'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 89 ]
  Warning message:
  In file.remove("Test_that.jpg") :
    cannot remove file 'Test_that.jpg', reason 'No such file or directory'
  > 
  > proc.time()
     user  system elapsed 
     6.50    1.75    7.50
Running 'tinytest.R' [159s]
Running the tests in 'tests/tinytest.R' failed.
Complete output:
  > if (requireNamespace("tinytest", quietly=TRUE)){
  + 	tinytest::test_package("chronosphere")
  + }
  Chronosphere - Evolving Earth System Variables
  Important: never fetch data as a superuser / with admin. privileges!
  
  Note that the package was split for efficient maintenance and development:
   - Plate tectonic calculations -> package 'rgplates'
   - Arrays of raster and vector spatials -> package 'via'
  
  test_configure.R..............    0 tests    
  test_configure.R..............    1 tests [0;32mOK[0m 
  test_configure.R..............    2 tests [0;32mOK[0m 
  test_configure.R..............    3 tests [0;32mOK[0m 
  test_configure.R..............    4 tests [0;32mOK[0m 
  test_configure.R..............    4 tests [0;32mOK[0m 
  test_configure.R..............    4 tests [0;32mOK[0m 
  test_configure.R..............    5 tests [0;32mOK[0m [0;36m87ms[0m
  All ok, 5 results (90ms)
  > 
  > proc.time()
     user  system elapsed 
     0.26    0.12    0.37
Running 'testthat.R' [173s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(chunked)
  Loading required package: dplyr
  
  Attaching package: 'dplyr'
  
  The following object is masked from 'package:testthat':
  
      matches
  
  The following objects are masked from 'package:stats':
  
      filter, lag
  
  The following objects are masked from 'package:base':
  
      intersect, setdiff, setequal, union
  
  > 
  > test_check("chunked")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 46 ]
  > 
  > proc.time()
     user  system elapsed 
     3.46    0.37    3.81
Running 'spelling.R' [167s]
  Running 'testthat.R' [1s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.18    0.06    0.23
Running 'testthat.R' [155s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(chunkR)
  
    <-- chunkR --< 
  
     Version 1.1.1 
     GitHub: chunkR_devel() 
     Comments / suggestions / bug reports: learoser@gmail.com 
  
  > 
  > test_check("chunkR")
  Counting lines in file... done.
  New chunker object
  Path: D:\temp\RtmpOCLnYa\file727c524da8
  Counting lines in file... done.
  New chunker object
  Path: D:\temp\RtmpOCLnYa\file727c524da8
  Counting lines in file... done.
  New chunker object
  Path: D:\temp\RtmpOCLnYa\file727c17eb15bf
  New chunker object
  Path: D:\temp\RtmpOCLnYa\file727c17eb15bf
  Counting lines in file... done.
  New chunker object
  Path: D:\temp\RtmpOCLnYa\file727c6c1b872
  New chunker object
  Path: D:\temp\RtmpOCLnYa\file727c6c1b872
  New chunker object
  Path: D:\temp\RtmpOCLnYa\file727c524da8
  Counting lines in file... done.
  New chunker object
  Path: D:\temp\RtmpOCLnYa\file727c1f38348d
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 50 ]
  > 
  > proc.time()
     user  system elapsed 
     0.96    0.21    1.17
Running 'run-all.R' [159s]
Running the tests in 'tests/run-all.R' failed.
Complete output:
  > library(testthat)
  > test_check("ciCalibrate")
  Loading required package: ciCalibrate
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     0.79    0.14    0.92
installed size is  6.6Mb
  sub-directories of 1Mb or more:
    R         1.7Mb
    extdata   4.3Mb
Running 'testthat.R' [169s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cinterpolate)
  > 
  > test_check("cinterpolate")
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 79 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-package.R:4:3'
  • empty test (1): 'test-search.R:17:1'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 79 ]
  > 
  > proc.time()
     user  system elapsed 
     1.17    0.21    1.35
Package suggested but not available for checking: 'userfriendlyscience'
Running 'spelling.R' [0s]
  Running 'testthat.R' [151s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(circletyper)
  > 
  > test_check("circletyper")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 8 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-circletype.R:47:3'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 8 ]
  > 
  > proc.time()
     user  system elapsed 
     1.03    0.20    1.23
Running 'testthat.R' [164s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > 
  > proc.time()
     user  system elapsed 
     0.18    0.01    0.18
installed size is  7.4Mb
  sub-directories of 1Mb or more:
    doc   7.2Mb
Running 'testthat.R' [188s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(circumplex)
  > 
  > test_check("circumplex")
  [ FAIL 0 | WARN 0 | SKIP 17 | PASS 117 ]
  
  ══ Skipped tests (17) ══════════════════════════════════════════════════════════
  • On CRAN (17): 'test-instrument_oop.R:24:3', 'test-instrument_oop.R:30:3',
    'test-instrument_oop.R:40:3', 'test-instrument_oop.R:51:3',
    'test-instrument_oop.R:56:3', 'test-ssm_analysis.R:2:3',
    'test-ssm_analysis.R:52:3', 'test-ssm_analysis.R:103:3',
    'test-ssm_analysis.R:168:3', 'test-ssm_analysis.R:222:3',
    'test-ssm_analysis.R:265:3', 'test-ssm_analysis.R:321:3',
    'test-ssm_oop.R:31:3', 'test-ssm_visualization.R:10:3',
    'test-ssm_visualization.R:24:3', 'test-ssm_visualization.R:39:3',
    'test-ssm_visualization.R:54:3'
  
  [ FAIL 0 | WARN 0 | SKIP 17 | PASS 117 ]
  > 
  > proc.time()
     user  system elapsed 
    18.90    2.35   21.29
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > 
  > test_check("citation")
  Loading required package: citation
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 9 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • !file.exists(citationFile) is TRUE (1): 'test-cff2r.R:3:3'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 9 ]
  > 
  > proc.time()
     user  system elapsed 
     1.01    0.18    1.15
Running 'testthat.R' [158s]
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)
  > library(cities)
  > 
  > test_check("cities")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 3 ]
  > 
  > proc.time()
     user  system elapsed 
     2.34    0.25    2.59
Running 'spelling.R' [0s]
  Running 'testthat.R' [154s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cito)
  Torch is not yet installed
  Please run the following before using cito
  "library("torch")"
  "install_torch()"
  see: https://torch.mlverse.org/docs/articles/installation.html
  > 
  > test_check("cito")
  [ FAIL 0 | WARN 0 | SKIP 13 | PASS 0 ]
  
  ══ Skipped tests (13) ══════════════════════════════════════════════════════════
  • On CRAN (13): 'test-dnn.R:37:3', 'test-dnn.R:74:3', 'test-dnn.R:121:3',
    'test-dnn.R:159:3', 'test-dnn.R:186:3', 'test-dnn.R:207:3',
    'test-dnn.R:269:3', 'test-dnn.R:287:3', 'test-dnn.R:317:3',
    'test-examples.R:5:3', 'test-xAI.R:4:3', 'test-xAI.R:32:3', 'test-xAI.R:82:3'
  
  [ FAIL 0 | WARN 0 | SKIP 13 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     1.73    0.37    2.09
Running 'testthat.R' [168s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(civis)
  > 
  > test_check("civis")
  [ FAIL 0 | WARN 5 | SKIP 0 | PASS 1059 ]
  
  [ FAIL 0 | WARN 5 | SKIP 0 | PASS 1059 ]
  > 
  > proc.time()
     user  system elapsed 
     8.10    1.25   11.54
Running 'testthat.R' [174s]
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)
  > library(cjbart)
  Loading required package: BART
  Loading required package: nlme
  Loading required package: nnet
  Loading required package: survival
  > 
  > test_check("cjbart")
  Detected forced-choice outcome
  *****Into main of pbart
  *****Data:
  data:n,p,np: 50, 2, 0
  y1,yn: 0, 1
  x1,x[n*p]: 0.370309, 0.337626
  *****Number of Trees: 5
  *****Number of Cut Points: 10 ... 10
  *****burn and ndpost: 100, 1000
  *****Prior:mybeta,alpha,tau: 2.000000,0.950000,0.670820
  *****binaryOffset: 0.000000
  *****Dirichlet:sparse,theta,omega,a,b,rho,augment: 0,0,1,0.5,1,2,0
  *****nkeeptrain,nkeeptest,nkeeptreedraws: 1000,1000,1000
  *****printevery: 100
  *****skiptr,skipte,skiptreedraws: 1,1,1
  
  MCMC
  done 0 (out of 1100)
  done 100 (out of 1100)
  done 200 (out of 1100)
  done 300 (out of 1100)
  done 400 (out of 1100)
  done 500 (out of 1100)
  done 600 (out of 1100)
  done 700 (out of 1100)
  done 800 (out of 1100)
  done 900 (out of 1100)
  done 1000 (out of 1100)
  time: 0s
  check counts
  trcnt,tecnt: 1000,0
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     1.95    0.28    2.18
Running 'testthat.R' [174s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(CJIVE)
  > 
  > test_check("CJIVE")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 3 ]
  > 
  > proc.time()
     user  system elapsed 
     0.57    0.17    0.73
Running 'testthat.R' [180s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cjoint)
  Loading required package: sandwich
  Loading required package: lmtest
  Loading required package: zoo
  
  Attaching package: 'zoo'
  
  The following objects are masked from 'package:base':
  
      as.Date, as.Date.numeric
  
  Loading required package: ggplot2
  Loading required package: survey
  Loading required package: grid
  Loading required package: Matrix
  Loading required package: survival
  
  Attaching package: 'survey'
  
  The following object is masked from 'package:graphics':
  
      dotchart
  
  cjoint: AMCE Estimator for Conjoint Experiments
  Version: 2.1.1
  Authors: Soubhik Barari, Elissa Berwick, Jens Hainmueller, Daniel Hopkins, Sean Liu, Anton Strezhnev, Teppei Yamamoto
  
  > 
  > test_check("cjoint")
  
  MISSING VALUES TEST
  MISSING RESPONDENT VAR TEST
  TEST NUMERIC OUTCOME
  TEST BASELINE ERRORS
  TEST CLUSTERING
  TEST RESPONDENT ID
  TEST WEIGHTS
  TEST RESPONDENT VARYING
  TEST DESIGN OBJECT
  TEST DESIGN OBJECT IN DATA
  TEST FACTOR LEVEL OF ATTRIBUTE
  TEST VALID STRING
  TEST SUBSETTING
  TEST SUBSET LENGTH
  TEST READ QUALTRICS[1] "Old qualtrics format detected."
  
  TEST NUMBER OF RESPONSES[1] "Old qualtrics format detected."
  
  TEST NUMBER OF COLUMNS[1] "Old qualtrics format detected."
  
  TEST LEVELS OF VARIABLES
  TEST PLOT OBJECT[ FAIL 0 | WARN 1 | SKIP 0 | PASS 30 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 30 ]
  > 
  > proc.time()
     user  system elapsed 
    18.42    4.15   22.56
Running 'testthat.R' [164s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > # testthat.R -- automated test cases
  > #
  > # MS
  > # Created: Feb 8, 2015
  > 
  > require("testthat")
  Loading required package: testthat
  > require("Ckmeans.1d.dp")
  Loading required package: Ckmeans.1d.dp
  > 
  > test_check("Ckmeans.1d.dp")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 176 ]
  > 
  > proc.time()
     user  system elapsed 
    13.04    0.31   13.29
installed size is  6.8Mb
  sub-directories of 1Mb or more:
    data   1.1Mb
    doc    3.6Mb
Running 'testthat.R' [158s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > # ==================================================================== #
  > # TITLE                                                                #
  > # cleaner: Fast and Easy Data Cleaning                                 #
  > #                                                                      #
  > # SOURCE                                                               #
  > # https://github.com/msberends/cleaner                                 #
  > #                                                                      #
  > # LICENCE                                                              #
  > # (c) 2022 Berends MS (m.s.berends@umcg.nl)                            #
  > #                                                                      #
  > # This R package is free software; you can freely use and distribute   #
  > # it for both personal and commercial purposes under the terms of the  #
  > # GNU General Public License version 2.0 (GNU GPL-2), as published by  #
  > # the Free Software Foundation.                                        #
  > #                                                                      #
  > # This R package was publicly released in the hope that it will be     #
  > # useful, but it comes WITHOUT ANY WARRANTY OR LIABILITY.              #
  > # ==================================================================== #
  > 
  > library(testthat)
  > library(cleaner)
  > 
  > test_check("cleaner")
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 19 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On CRAN (2): 'test-clean.R:23:3', 'test-percentage.R:23:3'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 19 ]
  > 
  > proc.time()
     user  system elapsed 
     1.17    0.18    1.34
Running 'test-all.R' [171s]
Running the tests in 'tests/test-all.R' failed.
Complete output:
  > library(testthat)
  > test_check("cleangeo")
  Loading required package: cleangeo
  Reading layer `example' from data source 
    `D:\RCompile\CRANpkg\lib\4.4\cleangeo\extdata\example.shp' 
    using driver `ESRI Shapefile'
  Simple feature collection with 3 features and 1 field
  Geometry type: MULTIPOLYGON
  Dimension:     XY
  Bounding box:  xmin: -120.7992 ymin: 38.33745 xmax: -120.6791 ymax: 38.46756
  CRS:           NA
  [cleangeo][INFO] Geometry validity: 
  [1] "Valid Geometry"
  [cleangeo][INFO] Geometry validity: 
  [1] "Self-intersection[5 5]"
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 44 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 44 ]
  > 
  > proc.time()
     user  system elapsed 
     2.42    0.40    2.82
Running 'testthat.R' [156s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cleanrmd)
  > 
  > test_check("cleanrmd")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 35 ]
  > 
  > proc.time()
     user  system elapsed 
     0.89    0.29    1.36
Running 'runit.R' [2s]
  Running 'testthat.R' [171s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cleanr)
  > 
  > test_check("cleanr")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     0.50    0.20    0.68
Running 'spelling.R' [162s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.14    0.07    0.20
Problems with news in 'NEWS.md':
  Cannot extract version info from the following section titles:
    clhs_0.7-2
    clhs_0.7-0
    clhs_0.6-0
    clhs_0.5-7
    clhs_0.5-6
    clhs_0.5-3
    clhs_0.5-2
    clhs_0.5-1
    clhs_0.5-0
    clhs_0.4-3
    clhs_0.4-2
    clhs_0.4-1
    clhs_0.4-0
    clhs_0.3-2
    clhs_0.3-1
    clhs_0.3-0
    clhs_0.2-1
    clhs_0.2-0
    clhs_0.1-0
Running 'testthat.R' [200s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cliapp)
  > 
  > ## Run the tests in fancy mode and non-fancy mode as well
  > ## Also, run them in latin1 encoding as well, this is for Unix,
  > ## because Windows encoding names are different.
  > 
  > withr::with_options(
  +   list(cli.unicode = FALSE),
  +   test_check("cliapp")
  + )
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 134 ]
  > 
  > withr::with_options(
  +   list(cli.unicode = TRUE),
  +   test_check("cliapp")
  + )
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 134 ]
  > 
  > has_locale <- function(l) {
  +   has <- TRUE
  +   tryCatch(
  +     withr::with_locale(c(LC_CTYPE = l), "foobar"),
  +     warning = function(w) has <<- FALSE,
  +     error = function(e) has <<- FALSE
  +   )
  +   has
  + }
  > 
  > if (l10n_info()$`UTF-8` && has_locale("en_US.ISO8859-1")) {
  +   withr::with_locale(
  +     c(LC_CTYPE = "en_US.ISO8859-1"),
  +     test_check("cliapp")
  +   )
  + }
  > 
  > proc.time()
     user  system elapsed 
    27.26    0.62   38.51
Running 'spelling.R' [0s]
  Running 'testthat.R' [169s]
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)
  > library(clidatajp)
  > 
  > test_check("clidatajp")
  Timeout was reached: [www.data.jma.go.jp] Operation timed out after 1002 milliseconds with 0 bytes received
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 10 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • download_area_links() is not available (1): 'test-download.R:9:5'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 10 ]
  > 
  > proc.time()
     user  system elapsed 
     1.01    0.20   10.46
Running 'spelling.R' [0s]
  Running 'test-all.R' [171s]
Running the tests in 'tests/test-all.R' failed.
Complete output:
  > library(testthat)
  > library(clifro)
  > 
  > test_check("clifro")
  [ FAIL 0 | WARN 1 | SKIP 4 | PASS 11 ]
  
  ══ Skipped tests (4) ═══════════════════════════════════════════════════════════
  • On CRAN (4): 'test-cf_find_station.R:4:3', 'test-cf_last_query.R:4:3',
    'test-cf_query.R:4:3', 'test-cf_station.R:4:3'
  
  [ FAIL 0 | WARN 1 | SKIP 4 | PASS 11 ]
  > 
  > proc.time()
     user  system elapsed 
     1.87    0.31    2.17
Running 'testthat.R' [168s]
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)
  > library(climateStability)
  > 
  > test_check("climateStability")
  terra 1.7.71
  
  Attaching package: 'terra'
  
  The following objects are masked from 'package:testthat':
  
      compare, describe
  
  [1] "D:\\temp\\RtmpI9A9M4/badFile.txt"  "D:\\temp\\RtmpI9A9M4/badFile2.txt"
  [3] "D:\\temp\\RtmpI9A9M4/badFile3.txt"
  txt is not a supported file extension.
  
  [1] "D:\\temp\\RtmpI9A9M4/raster1.tif" "D:\\temp\\RtmpI9A9M4/raster2.tif"
  [3] "D:\\temp\\RtmpI9A9M4/raster3.tif" "D:\\temp\\RtmpI9A9M4/raster4.tif"
  [5] "D:\\temp\\RtmpI9A9M4/raster5.tif"
  [1] "D:\\temp\\RtmpI9A9M4/raster1.tif" "D:\\temp\\RtmpI9A9M4/raster2.tif"
  [3] "D:\\temp\\RtmpI9A9M4/raster3.tif" "D:\\temp\\RtmpI9A9M4/raster4.tif"
  [5] "D:\\temp\\RtmpI9A9M4/raster5.tif"
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 26 ]
  > 
  > proc.time()
     user  system elapsed 
     5.64    0.50    6.12
installed size is  5.5Mb
  sub-directories of 1Mb or more:
    data   3.4Mb
    doc    1.9Mb
installed size is 48.6Mb
  sub-directories of 1Mb or more:
    extdata  48.5Mb
Running 'testthat.R' [164s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(clinicalsignificance)
  > 
  > test_check("clinicalsignificance")
  [ FAIL 0 | WARN 0 | SKIP 10 | PASS 108 ]
  
  ══ Skipped tests (10) ══════════════════════════════════════════════════════════
  • On CRAN (10): 'test-calc_recovered.R:23:3', 'test-cs_combined.R:10:3',
    'test-cs_combined.R:33:3', 'test-cs_distribution.R:10:3',
    'test-cs_distribution.R:33:3', 'test-cs_get_n.R:28:3',
    'test-cs_percentage.R:28:3', 'test-cs_statistical.R:10:3',
    'test-plot.R:43:3', 'test-prep_data.R:91:3'
  
  [ FAIL 0 | WARN 0 | SKIP 10 | PASS 108 ]
  Deleting unused snapshots:
  • plot/combined-ha-plot.svg
  • plot/combined-hlm-plot.svg
  • plot/combined-jt-plot-grouped.svg
  • plot/combined-jt-plot.svg
  • plot/distribution-en-plot.svg
  • plot/distribution-ha-plot.svg
  • plot/distribution-hlm-plot.svg
  • plot/percentage-plot-grouped.svg
  • plot/percentage-plot-with-impdet.svg
  • plot/percentage-plot.svg
  • plot/statistical-ha-plot.svg
  • plot/statistical-jt-plot.svg
  > 
  > proc.time()
     user  system elapsed 
     7.35    0.76    8.10
installed size is  6.4Mb
  sub-directories of 1Mb or more:
    doc   5.4Mb
Running 'testthat.R' [179s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(clinUtils)
  > 
  > test_check("clinUtils")
  [ FAIL 0 | WARN 1 | SKIP 2 | PASS 302 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On CRAN (2): 'test_getClinDT.R:838:7', 'test_getClinDT.R:855:7'
  
  [ FAIL 0 | WARN 1 | SKIP 2 | PASS 302 ]
  > 
  > proc.time()
     user  system elapsed 
     9.93    1.79   12.98
Running 'testthat.R' [169s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(clipr)
  Welcome to clipr. See ?write_clip for advisories on writing to the clipboard in R.
  > 
  > test_check("clipr")
  Is clipr available?: FALSE
  [ FAIL 0 | WARN 0 | SKIP 15 | PASS 2 ]
  
  ══ Skipped tests (15) ══════════════════════════════════════════════════════════
  • System clipboard is not available - skipping test. (13):
    'test-diagnostics.R:52:3', 'test-render.R:4:3', 'test-render.R:15:3',
    'test-render.R:32:3', 'test-render.R:39:3', 'test-render.R:52:3',
    'test-render.R:61:3', 'test-render.R:74:3', 'test-render.R:80:3',
    'test-render.R:93:3', 'test-render.R:106:3', 'test-render.R:119:3',
    'test-render.R:126:3'
  • empty test (1): 'test-systems.R:3:1'
  • identical(Sys.getenv("GITHUB_ACTIONS"), "true") is not TRUE (1):
    'test-diagnostics.R:5:3'
  
  [ FAIL 0 | WARN 0 | SKIP 15 | PASS 2 ]
  > 
  > proc.time()
     user  system elapsed 
     1.01    0.14    1.15
Installation failed.
See 'd:/Rcompile/CRANpkg/local/4.4/cli.Rcheck/00install.out' for details.
Running 'testthat.R' [174s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(clisymbols)
  > 
  > test_check("clisymbols")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 3 ]
  > 
  > proc.time()
     user  system elapsed 
     0.56    0.12    0.67
Running 'test01-Simplex.R' [171s]
  Running 'test02-WV.R' [1s]
  Comparing 'test02-WV.Rout' to 'test02-WV.Rout.save' ... OK
  Running 'test03-simulate.R' [29s]
  Comparing 'test03-simulate.Rout' to 'test03-simulate.Rout.save' ... OK
  Running 'test04-algorithm.R' [71s]
  Comparing 'test04-algorithm.Rout' to 'test04-algorithm.Rout.save' ... OK
Running the tests in 'tests/test01-Simplex.R' failed.
Complete output:
  > library(CloneSeeker)
  > 
  > suppressWarnings( RNGversion("3.5.0") )
  > set.seed(461283)
  > sampleSimplex(4, 3)
             [,1]      [,2]      [,3]
  [1,] 0.41142650 0.2341796 0.3543939
  [2,] 0.37775202 0.2191589 0.4030891
  [3,] 0.30840307 0.5882078 0.1033891
  [4,] 0.05101856 0.7764820 0.1724994
  > all( apply(sampleSimplex(4, 3), 1, sum) == 1) # assertion
  [1] TRUE
  > 
  > generateSimplex(5, 3)
       [,1] [,2] [,3]
  [1,]  1.0  0.0  0.0
  [2,]  0.8  0.2  0.0
  [3,]  0.6  0.4  0.0
  [4,]  0.6  0.2  0.2
  [5,]  0.4  0.4  0.2
  > 
  > # These should all fail, for obvious reasons.
  > try( sampleSimplex(0) )
  Error in `[<-`(`*tmp*`, i, , value = diff(sort(c(0, 1, runif(d - 1, 0,  : 
    subscript out of bounds
  > try( sampleSimplex(-1) )
  Error in matrix(NA, nrow = n, ncol = d) : invalid 'nrow' value (< 0)
  > try( sampleSimplex(4, 0) )
  Error in runif(d - 1, 0, 1) : invalid arguments
  > try( sampleSimplex(4, -1) )
  Error in matrix(NA, nrow = n, ncol = d) : invalid 'ncol' value (< 0)
  > 
  > proc.time()
     user  system elapsed 
     1.14    0.18    1.31
Running 'testthat.R' [159s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cloudml)
  Loading required package: tfruns
  > 
  > if (identical(Sys.getenv("NOT_CRAN"), "true") && nchar(Sys.getenv("GCLOUD_ACCOUNT_FILE")) > 0) {
  +   test_check("cloudml")
  + }
  > 
  > proc.time()
     user  system elapsed 
     0.40    0.17    0.56
Running 'testthat.R' [176s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cloudstoR)
  > 
  > test_check("cloudstoR")
  [ FAIL 0 | WARN 0 | SKIP 5 | PASS 2 ]
  
  ══ Skipped tests (5) ═══════════════════════════════════════════════════════════
  • Environment variable not available (5): 'test-cloudstorapi-access.R:27:3',
    'test-cloudstorapi-access.R:39:3', 'test-cloudstorapi-access.R:51:3',
    'test-cloudstorapi-access.R:61:3', 'test-cloudstorapi-access.R:74:3'
  
  [ FAIL 0 | WARN 0 | SKIP 5 | PASS 2 ]
  > 
  > proc.time()
     user  system elapsed 
     0.76    0.28    1.03
Objects in \usage without \alias in Rd file 'clpm-internal.Rd':
  'lpm.newton2' 'lpm.fit' 'lpm.newton' 'L_lambda'

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' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(clustAnalytics)
  Loading required package: igraph
  
  Attaching package: 'igraph'
  
  The following object is masked from 'package:testthat':
  
      compare
  
  The following objects are masked from 'package:stats':
  
      decompose, spectrum
  
  The following object is masked from 'package:base':
  
      union
  
  > 
  > test_check("clustAnalytics")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
  > 
  > proc.time()
     user  system elapsed 
     1.87    0.34    2.18
Documented arguments not in \usage in Rd file 'calculate_connectivity.Rd':
  'datdf'

Documented arguments not in \usage in Rd file 'dunn_metric.Rd':
  'distance' 'method'

Documented arguments not in \usage in Rd file 'evaluate_all_column_dataset.Rd':
  'data'

Documented arguments not in \usage in Rd file 'information_external.Rd':
  'info'

Documented arguments not in \usage in Rd file 'information_internal.Rd':
  'info'

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' [153s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > test_check("clusterSim")
  Loading required package: clusterSim
  Loading required package: cluster
  Loading required package: MASS
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 24 ]
  > 
  > proc.time()
     user  system elapsed 
     0.93    0.25    1.17
Running 'spelling.R' [164s]
  Running 'testthat.R' [10s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.15    0.06    0.20
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    data   5.2Mb
Running 'testthat.R' [425s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cmcR)
  > 
  > test_check("cmcR",reporter = SummaryReporter)
    adding: bindata/ (stored 0%)
    adding: bindata/data.bin (deflated 58%)
    adding: main.xml (deflated 63%)
    adding: md5checksum.hex (stored 0%)
    adding: bindata/ (stored 0%)
    adding: bindata/data.bin (deflated 58%)
    adding: main.xml (deflated 63%)
    adding: md5checksum.hex (stored 0%)
  comparison: ..
  decision: ..........
  diagnosticTools: ....
  preProcess: S
  
  ══ Skipped ═════════════════════════════════════════════════════════════════════
  1. preProcess_ functions work as expected ('test-preProcess.R:5:3') - Reason: On CRAN
  
  ══ DONE ════════════════════════════════════════════════════════════════════════
  > 
  > # test_package("cmcR",reporter = SummaryReporter,filter="preProcess", invert=TRUE)
  > 
  > proc.time()
     user  system elapsed 
   175.42   72.39  256.64
Running 'testthat.R' [168s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cmdfun)
  > library(magrittr)
  
  Attaching package: 'magrittr'
  
  The following objects are masked from 'package:testthat':
  
      equals, is_less_than, not
  
  > 
  > test_check("cmdfun")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 412 ]
  > 
  > proc.time()
     user  system elapsed 
     2.67    0.28    2.95
Running 'testthat.R' [167s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cmna)
  > 
  > test_check("cmna")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 57 ]
  > 
  > proc.time()
     user  system elapsed 
     6.09    0.28    6.37
Running 'spelling.R' [159s]
  Running 'testthat.R' [276s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if (requireNamespace("spelling", quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.15    0.07    0.21 
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cmsafops)
  > 
  > test_check("cmsafops")
  149016292920292920149016149016149016149028149016[ FAIL 0 | WARN 0 | SKIP 0 | PASS 9082 ]
  > 
  > proc.time()
     user  system elapsed 
    97.67    6.67  104.67
Running 'spelling.R' [171s]
  Running 'testthat.R' [173s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if (requireNamespace("spelling", quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.17    0.06    0.21 
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cmsafvis)
  > 
  > test_check("cmsafvis")
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 0 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On CRAN (2): 'test-set_time_locale.R:2:3', 'test-set_time_locale.R:8:3'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     0.79    0.12    0.92
Running 'testthat.R' [167s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cms)
  > 
  > test_check("cms")
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 4 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On CRAN (2): 'test-get_mpfs.R:4:3', 'test-get_mpfs.R:10:3'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 4 ]
  > 
  > proc.time()
     user  system elapsed 
     0.78    0.15    0.89
Package suggested but not available for checking: 'tobit1'
Running 'testthat.R' [163s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > test_check("cnbdistr")
  Loading required package: cnbdistr
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 53 ]
  > 
  > proc.time()
     user  system elapsed 
     2.71    0.31    2.96
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    doc       3.2Mb
    extdata   1.7Mb
Package suggested but not available for checking: 'PopGenome'
Documented arguments not in \usage in Rd file 'get_superior.Rd':
  'stirng'

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' [157s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(checkmate)
  > library(coalitions)
  > 
  > test_check("coalitions")
  [ FAIL 0 | WARN 1 | SKIP 6 | PASS 48 ]
  
  ══ Skipped tests (6) ═══════════════════════════════════════════════════════════
  • On CRAN (6): 'test-scrapers.R:5:3', 'test-scrapers.R:43:3',
    'test-scrapers.R:87:3', 'test-scrapers.R:97:3', 'test-scrapers.R:114:3',
    'test-workflow.R:79:2'
  
  [ FAIL 0 | WARN 1 | SKIP 6 | PASS 48 ]
  > 
  > proc.time()
     user  system elapsed 
     2.82    0.26    3.09
Package suggested but not available for checking: 'disttree'
Running 'spelling.R' [161s]
  Running 'testthat.R' [6s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.17    0.06    0.20
Running '0_pt-ex.R' [2s]
  Running 'ex1.R' [6s]
  Running 'ex2-long.R' [7s]
  Running 'ex3.R' [161s]
  Running 'multi-constr.R' [3s]
  Comparing 'multi-constr.Rout' to 'multi-constr.Rout.save' ... OK
  Running 'roof.R' [3s]
  Comparing 'roof.Rout' to 'roof.Rout.save' ... OK
  Running 'small-ex.R' [2s]
  Comparing 'small-ex.Rout' to 'small-ex.Rout.save' ... OK
  Running 'spline-ex.R' [2s]
  Comparing 'spline-ex.Rout' to 'spline-ex.Rout.save' ... OK
  Running 'temp.R' [2s]
  Comparing 'temp.Rout' to 'temp.Rout.save' ... OK
  Running 'wind.R' [7s]
Running the tests in 'tests/ex3.R' failed.
Complete output:
  > suppressMessages(library(cobs))
  > 
  > options(digits = 6)
  > ## pdf("ex3.pdf")
  > 
  > data(women) # 15 obs.
  > attach(women)
  > 
  > ## Interpolation! very easy problem,   BUT :
  > try( ## gives  "ifl = 5" !!!!!
  + cobw <- cobs(weight, height, knots = weight, nknots = length(weight))
  + )
  Warning message:
  In cobs(weight, height, knots = weight, nknots = length(weight)) :
    The number of knots can't be equal to the number of unique x for degree = 2.
  'cobs' has automatically deleted the middle knot.
  > 
  > cat('Time elapsed: ', proc.time(),'\n') # for ``statistical reasons''
  Time elapsed:  1.48 0.23 1.7 NA NA 
  > 
  > proc.time()
     user  system elapsed 
     1.48    0.23    1.70
Running 'testthat.R' [203s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > # Copyright 2018-2018 Steven E. Pav. All Rights Reserved.
  > # Author: Steven E. Pav
  > 
  > # This file is part of cocktailApp.
  > #
  > # cocktailApp 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.
  > #
  > # cocktailApp 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 cocktailApp.  If not, see <http://www.gnu.org/licenses/>.
  > 
  > # env var:
  > # nb: 
  > # see also:
  > # todo:
  > # changelog: 
  > #
  > # Created: 2018-07-01
  > # Copyright: Steven E. Pav, 2018-2018
  > # 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)
  > library(cocktailApp)
  Loading required package: shiny
  > 
  > # once you have a directory of tests, uncomment this.
  > test_check("cocktailApp")
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 37 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 37 ]
  > 
  > #for vim modeline: (do not edit)
  > # vim:fdm=marker:fmr=FOLDUP,UNFOLD:cms=#%s:syn=r:ft=r
  > 
  > proc.time()
     user  system elapsed 
    28.28    0.98   29.25
Running 'testthat.R' [198s]
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)
  > library(coconots)
  > 
  > test_check("coconots")
  [ FAIL 0 | WARN 32 | SKIP 13 | PASS 17 ]
  
  ══ Skipped tests (13) ══════════════════════════════════════════════════════════
  • On CRAN (13): 'test-coconots.R:3:3', 'test-coconots.R:8:3',
    'test-coconots.R:29:3', 'test-coconots.R:51:3', 'test-coconots.R:73:3',
    'test-coconots.R:96:3', 'test-coconots.R:126:3', 'test-coconots.R:154:3',
    'test-coconots.R:182:3', 'test-coconots.R:453:3', 'test-coconots.R:468:3',
    'test-coconots.R:484:3', 'test-coconots.R:499:3'
  
  [ FAIL 0 | WARN 32 | SKIP 13 | PASS 17 ]
  > 
  > proc.time()
     user  system elapsed 
    48.23    0.53   48.71
Package which this enhances but not available for checking: 'rkward'
Running 'testthat.R' [158s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > # the tests are realized using the "testthat" package
  > # and can be found in testthat/tests.r
  > 
  > library(testthat)
  > library(cocor)
  > test_check("cocor")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 143 ]
  > 
  > proc.time()
     user  system elapsed 
     1.32    0.28    1.64
Running 'testthat.R' [214s]
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)
  > library(CodelistGenerator)
  > 
  > test_check("CodelistGenerator")
  Starting 2 test processes
  [ FAIL 0 | WARN 0 | SKIP 8 | PASS 283 ]
  
  ══ Skipped tests (8) ═══════════════════════════════════════════════════════════
  • On CRAN (2): 'test-summariseCodeUse.R:2:1', 'test-summariseCodeUse.R:290:3'
  • Sys.getenv("CDM5_REDSHIFT_DBNAME") == "" is TRUE (4):
    'test-codesFrom.R:100:3', 'test-dbms.R:6:3', 'test-findUnmappedCodes.R:3:3',
    'test-summariseCodeUse.R:498:3'
  • Sys.getenv("CDM5_SQL_SERVER_SERVER") == "" is TRUE (1):
    'test-codesInUse.R:36:3'
  • Sys.getenv("darwinDbDatabaseServer") == "" is TRUE (1):
    'test-synthea_sql_server.R:2:3'
  
  [ FAIL 0 | WARN 0 | SKIP 8 | PASS 283 ]
  > 
  > proc.time()
     user  system elapsed 
     2.17    0.35   47.25
Running 'testthat.R' [168s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(codemetar)
  > 
  > test_check("codemetar")
  [ FAIL 0 | WARN 0 | SKIP 15 | PASS 56 ]
  
  ══ Skipped tests (15) ══════════════════════════════════════════════════════════
  • On CRAN (14): 'test-create_codemeta.R:3:3', 'test-extract_badges.R:19:3',
    'test-frame.R:3:5', 'test-give_opinions.R:6:3', 'test-give_opinions.R:14:3',
    'test-give_opinions.R:32:3', 'test-give_opinions.R:41:3',
    'test-give_opinions.R:49:3', 'test-give_opinions.R:79:3',
    'test-guess_metadata.R:3:3', 'test-guess_metadata.R:80:3',
    'test-guess_metadata.R:95:3', 'test-guess_metadata.R:116:3',
    'test-write_codemeta.R:2:3'
  • nzchar(Sys.getenv("GITHUB_PAT")) is not TRUE (1):
    'test-guess_metadata.R:61:3'
  
  [ FAIL 0 | WARN 0 | SKIP 15 | PASS 56 ]
  > 
  > proc.time()
     user  system elapsed 
     2.21    0.29    2.51
Running 'testthat.R' [157s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(coder)
  > 
  > test_check("coder")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 120 ]
  > 
  > proc.time()
     user  system elapsed 
    11.85    0.79   12.64
Running 'testthat.R' [212s]
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)
  > library(codez)
  > 
  > test_check("codez")
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 0 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • tensorflow not available for testing (2): 'test-main.R:9:15',
    'test-main.R:36:13'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     4.28    1.09   39.96
Running 'testthat.R' [199s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat) 
  > library(codyn)
  > test_check("codyn")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 360 ]
  > 
  > proc.time()
     user  system elapsed 
    38.14    1.56   39.75
Running 'spelling.R' [169s]
  Running 'testthat.R' [1s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.17    0.06    0.21
Running 'testthat.R' [149s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cofeatureR)
  > 
  > test_check("cofeatureR")
  [ FAIL 0 | WARN 23 | SKIP 0 | PASS 3 ]
  
  [ FAIL 0 | WARN 23 | SKIP 0 | PASS 3 ]
  > 
  > proc.time()
     user  system elapsed 
     2.28    0.17    2.43
Running 'testthat.R' [168s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cogmapr)
  > 
  > test_check("cogmapr")
  [ FAIL 0 | WARN 8 | SKIP 0 | PASS 22 ]
  
  [ FAIL 0 | WARN 8 | SKIP 0 | PASS 22 ]
  > 
  > proc.time()
     user  system elapsed 
     5.10    0.48    5.54
Error(s) in re-building vignettes:
--- re-building 'a01_Single_event_of_interest.Rmd' using rmarkdown

Quitting from lines 47-53 [unnamed-chunk-5] (a01_Single_event_of_interest.Rmd)
Error: processing vignette 'a01_Single_event_of_interest.Rmd' failed with diagnostics:
No known SQL translation
--- failed re-building 'a01_Single_event_of_interest.Rmd'

Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
Warning: Database is garbage-collected, use dbDisconnect(con, shutdown=TRUE) or duckdb::duckdb_shutdown(drv) to avoid this.
--- re-building 'a02_Competing_risk_survival.Rmd' using rmarkdown

Quitting from lines 55-63 [unnamed-chunk-5] (a02_Competing_risk_survival.Rmd)
Error: processing vignette 'a02_Competing_risk_survival.Rmd' failed with diagnostics:
No known SQL translation
--- failed re-building 'a02_Competing_risk_survival.Rmd'

Warning: Connection is garbage-collected, use dbDisconnect() to avoid this.
Warning: Database is garbage-collected, use dbDisconnect(con, shutdown=TRUE) or duckdb::duckdb_shutdown(drv) to avoid this.
SUMMARY: processing the following files failed:
  'a01_Single_event_of_interest.Rmd' 'a02_Competing_risk_survival.Rmd'

Error: Vignette re-building failed.
Execution halted
Running 'testthat.R' [198s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(coil)
  
  Attaching package: 'coil'
  
  The following object is masked from 'package:graphics':
  
      frame
  
  > 
  > test_check("coil")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 119 ]
  > 
  > proc.time()
     user  system elapsed 
    29.07    1.67   30.81
Running 'testthat.R' [172s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(coinmarketcapr)
  
  Attaching package: 'coinmarketcapr'
  
  The following object is masked from 'package:testthat':
  
      setup
  
  > 
  > #test_check("coinmarketcapr")
  > 
  > proc.time()
     user  system elapsed 
     0.85    0.25    1.07
Running 'testthat.R' [169s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(colf)
  Loading required package: nlsr
  > 
  > test_check("colf")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 49 ]
  > 
  > proc.time()
     user  system elapsed 
     1.06    0.25    1.32
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    R      1.0Mb
    libs   2.4Mb
Running 'testthat.R' [391s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > # rm(list = ls())
  > # Sys.setenv(R_TESTS = "")
  > library(testthat)
  > options(collapse_export_F = TRUE)
  > # library(collapse)
  > 
  > test_check("collapse")
  Loading required package: collapse
  collapse 2.0.11, see ?`collapse-package` or ?`collapse-documentation`
  
  Attaching package: 'collapse'
  
  The following object is masked from 'package:stats':
  
      D
  
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 19589 ]
  > 
  > 
  > proc.time()
     user  system elapsed 
   205.57   18.14  224.32
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(collapsibleTree)
  > 
  > test_check("collapsibleTree")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 48 ]
  > 
  > proc.time()
     user  system elapsed 
     4.26    0.23    4.48
Running 'testthat.R' [157s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(collections)
  
  Attaching package: 'collections'
  
  The following object is masked from 'package:utils':
  
      stack
  
  > test_check("collections")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 279 ]
  > 
  > proc.time()
     user  system elapsed 
     1.57    0.23    1.76
Running 'spelling.R' [168s]
  Running 'testthat.R' [346s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.21    0.07    0.21 
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)
  > library(collinear)
  > 
  > test_check("collinear")
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 124 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 124 ]
  > 
  > proc.time()
     user  system elapsed 
   181.71    4.23  186.04
Running 'testthat.R' [228s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(shinytest)
  > library(colocr)
  > 
  > test_check("colocr")
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 38 ]
  
  ══ Skipped tests (3) ═══════════════════════════════════════════════════════════
  • On CRAN (3): 'test-app.R:4:3', 'test-reproduce_app.R:9:3',
    'test-reproduce_app.R:43:3'
  
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 38 ]
  > 
  > proc.time()
     user  system elapsed 
    65.85    6.43   71.34
installed size is  5.1Mb
  sub-directories of 1Mb or more:
    doc   4.8Mb
installed size is  5.3Mb
  sub-directories of 1Mb or more:
    doc       2.4Mb
    extdata   2.0Mb
Running 'testthat.R' [161s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(colourvalues)
  > 
  > test_check("colourvalues")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 530 ]
  > 
  > proc.time()
     user  system elapsed 
     3.17    0.57    3.71
Running 'testthat.R' [187s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(colourvision)
  > 
  > test_check("colourvision")
  [ FAIL 0 | WARN 49 | SKIP 0 | PASS 136 ]
  
  [ FAIL 0 | WARN 49 | SKIP 0 | PASS 136 ]
  > 
  > proc.time()
     user  system elapsed 
    10.81    0.48   11.32
Unexported object imported by a ':::' call: 'crayon:::mypaste'
  See the note in ?`:::` about the use of this operator.
Running 'testthat.R' [153s]
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)
  > library(combinatorics)
  > 
  > test_check("combinatorics")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     0.51    0.12    0.57
Running 'testthat.R' [176s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(combiter)
  > 
  > test_check("combiter")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1585 ]
  > 
  > proc.time()
     user  system elapsed 
     7.48    1.82    9.37
Running 'testthat.R' [191s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(CommonDataModel)
  Loading required package: DatabaseConnector
  Loading required package: SqlRender
  Loading required package: rJava
  
  Attaching package: 'CommonDataModel'
  
  The following object is masked from 'package:SqlRender':
  
      listSupportedDialects
  
  > 
  > test_check("CommonDataModel")
  Skipping driver setup because environmental variables not set
  Skipping driver setup because environmental variables not set
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 34 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • empty test (1): 'test-executeDdl.R:3:1'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 34 ]
  > 
  > proc.time()
     user  system elapsed 
    24.28    1.21   20.01
installed size is  7.0Mb
  sub-directories of 1Mb or more:
    java   6.7Mb
Running 'testthat.R' [166s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(commonmark)
  > 
  > test_check("commonmark")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 19 ]
  > 
  > proc.time()
     user  system elapsed 
     0.70    0.15    0.84
Running 'testthat.R' [169s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(comorosmaps)
  > 
  > test_check("comorosmaps")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     1.37    0.37    1.73
Package suggested but not available for checking: 'CAM'
Running 'testthat.R' [186s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(compareDF)
  > 
  > test_check("compareDF")
  [ FAIL 0 | WARN 4 | SKIP 0 | PASS 73 ]
  
  [ FAIL 0 | WARN 4 | SKIP 0 | PASS 73 ]
  > 
  > proc.time()
     user  system elapsed 
    14.73    0.79   15.40
Running 'testthat.R' [192s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(comparer)
  > 
  > test_check("comparer")
  Recovered 6 / 6
  Recovered 6 / 12
  Error in summary.connection(connection) : invalid connection
  In addition: Warning message:
  In .Internal(gc(verbose, reset, full)) :
    closing unused connection 4 (<-CRANwin3.fb05.statistik.uni-dortmund.de:11521)
  Recovered 1 / 4
  Completed all runs in 0.2 seconds 
  Starting to run 10 trials in batches of size 3 
  Finished running superbatches 
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 427 ]
  > 
  > proc.time()
     user  system elapsed 
    20.45    1.00   25.39
Running 'testthat.R' [165s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(comperank)
  Loading required package: comperes
  > 
  > test_check("comperank")
  [ FAIL 0 | WARN 3 | SKIP 0 | PASS 184 ]
  
  [ FAIL 0 | WARN 3 | SKIP 0 | PASS 184 ]
  > 
  > proc.time()
     user  system elapsed 
     9.87    0.29   10.15
Running 'testthat.R' [156s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(completejourney)
  Welcome to the completejourney package! Learn more about these data
  sets at http://bit.ly/completejourney.
  > 
  > test_check("completejourney")
  [ FAIL 0 | WARN 0 | SKIP 4 | PASS 0 ]
  
  ══ Skipped tests (4) ═══════════════════════════════════════════════════════════
  • On CRAN (4): 'test_dimensions.R:2:3', 'test_downloads.R:2:3',
    'test_downloads.R:11:3', 'test_downloads.R:20:3'
  
  [ FAIL 0 | WARN 0 | SKIP 4 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     0.96    0.15    1.10
Running 'testthat.R' [175s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(COMPoissonReg)
  Loading required package: Rcpp
  Loading required package: numDeriv
  > 
  > test_check("COMPoissonReg")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 9 ]
  > 
  > proc.time()
     user  system elapsed 
     0.73    0.15    0.89
Running 'testthat.R' [167s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(comradesOO)
  Loading required package: seqinr
  Loading required package: GenomicRanges
  Loading required package: stats4
  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: S4Vectors
  
  Attaching package: 'S4Vectors'
  
  The following object is masked from 'package:utils':
  
      findMatches
  
  The following objects are masked from 'package:base':
  
      I, expand.grid, unname
  
  Loading required package: IRanges
  
  Attaching package: 'IRanges'
  
  The following object is masked from 'package:grDevices':
  
      windows
  
  Loading required package: GenomeInfoDb
  > 
  > #test_check("comradesOO")
  > 
  > proc.time()
     user  system elapsed 
     5.85    0.51    6.36
Running 'testthat.R' [171s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(concatenate)
  > 
  > test_check("concatenate")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 52 ]
  > 
  > proc.time()
     user  system elapsed 
     1.03    0.21    1.23
Running 'testthat.R' [173s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(concatipede)
  > 
  > test_check("concatipede")
  [ FAIL 0 | WARN 4 | SKIP 0 | PASS 55 ]
  
  [ FAIL 0 | WARN 4 | SKIP 0 | PASS 55 ]
  > 
  > proc.time()
     user  system elapsed 
     4.93    0.71    5.09
Auto-generated content requiring editing in Rd file 'concordancer-package.Rd':
  \references: 'This optional section can contain literature or other refere...'
  \seealso: 'Optional links to other man pages'
  \examples: '\dontrun{      ## Optional simple examples of the most impor...'
Running 'spelling.R' [142s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.18    0.07    0.21
Found the following file with non-ASCII characters:
  NAMESPACE
Portable packages must use only ASCII characters in their R code and
NAMESPACE directives, except perhaps in comments.
Use \uxxxx escapes for other characters.
Function 'tools::showNonASCIIfile' can help in finding non-ASCII
characters in files.
Running 'testthat.R' [157s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(concrete)
  > library(data.table)
  > 
  > test_check("concrete")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     1.71    0.25    1.96
Running 'testthat.R' [160s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(concstats)
  > 
  > test_check("concstats")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 381 ]
  > 
  > proc.time()
     user  system elapsed 
     2.75    0.56    3.32
Running 'testthat.R' [180s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(condformat)
  > 
  > test_check("condformat")
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 72 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On CRAN (2): 'test-render-gtable.R:7:3', 'test-rule-fill-discrete.R:99:3'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 72 ]
  > 
  > proc.time()
     user  system elapsed 
     9.71    0.87   10.54
Running 'spelling.R' [154s]
  Running 'testthat.R' [164s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.15    0.07    0.21 
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(condir)
  > 
  > test_check("condir")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     0.48    0.10    0.57
run_pipeline_gbq: no visible global function definition for
  'query_exec'
Undefined global functions or variables:
  query_exec
Running 'testthat.R' [155s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > 
  > test_check("condusco")
  Loading required package: condusco
  Loading required package: jsonlite
  Loading required package: assertthat
  Loading required package: bigrquery
  Loading required package: DBI
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 3 ]
  > 
  > proc.time()
     user  system elapsed 
     1.06    0.39    1.37
Running 'testthat.R' [176s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(condvis2)
  > 
  > test_check("condvis2")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 198 ]
  > 
  > proc.time()
     user  system elapsed 
    13.68    1.03   14.70
Running 'testthat.R' [176s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(confcons)
  > library(ROCR)
  > 
  > test_check("confcons")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 180 ]
  > 
  > proc.time()
     user  system elapsed 
     2.21    0.23    2.45
Running 'test-all.R' [170s]
Running the tests in 'tests/test-all.R' failed.
Complete output:
  > library(testthat)
  > test_check("confidence")
  Loading required package: confidence
  Loading required package: tcltk
  
  For more information on the usage of the Confidence tool, type:
  vignette("confidence")
  Examples of input files can be found in:
  'D:/RCompile/CRANpkg/lib/4.4/confidence/extdata'
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 10 ]
  > 
  > proc.time()
     user  system elapsed 
     1.09    0.34    1.42
Running 'testthat.R' [172s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ConfigParser)
  Loading required package: ini
  Loading required package: R6
  > 
  > test_check("ConfigParser")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 11 ]
  > 
  > proc.time()
     user  system elapsed 
     0.70    0.23    0.87
Running 'spelling.R' [160s]
  Running 'testthat.R' [1s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.17    0.10    0.21
Running 'testthat.R' [171s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(confinterpret)
  > 
  > test_check("confinterpret")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 29 ]
  > 
  > proc.time()
     user  system elapsed 
     0.70    0.20    0.89
Running 'testthat.R' [171s]
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)
  > library(connections)
  > 
  > test_check("connections")
  Writing to pin 'my_conn'
  Writing to pin 'my_table'
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 24 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-pins.R:11:3'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 24 ]
  Warning message:
  call dbDisconnect() when finished working with a connection 
  > 
  > proc.time()
     user  system elapsed 
     2.15    0.45    2.59
Running 'testthat.R' [157s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(conogive)
  > 
  > test_check("conogive")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 35 ]
  > 
  > proc.time()
     user  system elapsed 
     1.54    0.29    1.82
Running 'testthat.R' [155s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(constellation)
  > 
  > test_check("constellation")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 109 ]
  > 
  > proc.time()
     user  system elapsed 
     3.07    0.28    3.39
Running 'spelling.R' [0s]
  Running 'testthat.R' [177s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(contactdata) # nolint
  > 
  > test_check("contactdata")
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 51 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On CRAN (2): 'test-contact_df_countries.R:29:3', 'test-contact_matrix.R:26:3'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 51 ]
  > 
  > proc.time()
     user  system elapsed 
     4.15    0.64    4.75
Running 'testthat.R' [202s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ContourFunctions)
  > 
  > test_check("ContourFunctions")
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 59 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 59 ]
  > 
  > proc.time()
     user  system elapsed 
    40.14    0.96   41.07
Running 'testthat.R' [161s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(contrast)
  > 
  > test_check("contrast")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 11 ]
  > 
  > proc.time()
     user  system elapsed 
      2.9     0.6     3.5
Running 'testthat.R' [155s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(control)
  
  Attaching package: 'control'
  
  The following object is masked from 'package:stats':
  
      step
  
  The following object is masked from 'package:base':
  
      append
  
  > 
  > test_check("control")
  [ FAIL 0 | WARN 2 | SKIP 1 | PASS 36 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • empty test (1): 'test_ss2zp.R:16:1'
  
  [ FAIL 0 | WARN 2 | SKIP 1 | PASS 36 ]
  > 
  > proc.time()
     user  system elapsed 
     1.70    0.28    1.96
Running 'spelling.R' [0s]
  Running 'testthat.R' [162s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(convdistr)
  > 
  > test_check("convdistr")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 185 ]
  > 
  > proc.time()
     user  system elapsed 
     2.59    0.45    3.03
Running 'testthat.R' [171s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(convertr)
  > 
  > test_check("convertr")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 17 ]
  > 
  > proc.time()
     user  system elapsed 
     0.71    0.15    0.84
Running 'spelling.R' [0s]
  Running 'testthat.R' [156s]
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)
  > library(cookiemonster)
  > 
  > test_check("cookiemonster")
  v Cookies for create.com put in the jar!
  v Cookies for tests.com put in the jar!
  v Cookies for tests.com put in the jar!
  # A tibble: 2 x 2
    domain    name   
    <chr>     <chr>  
  1 tests.com test   
  2 tests.com success
  v Cookies deleted.
  v Cookies for tests.com put in the jar!
  v Cookies for tests.com put in the jar!
  v Cookies for more.tests.com put in the jar!
  v Cookies for more.tests.com put in the jar!
  v Cookies for more.tests.com put in the jar!
  v Cookies for tests.com put in the jar!
  v Cookies for tests_nl.com put in the jar!
  v Cookies for tests_nl.com put in the jar!
  v Cookies for tests_nl.com put in the jar!
  v Cookies for tests_nl.com put in the jar!
  v Cookies for hb.cran.dev put in the jar!
  v Cookies for hb.cran.dev put in the jar!
  v Cookies for tests.com put in the jar!
  v Cookies for tests.com put in the jar!
  v Cookies for tests.com put in the jar!
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 28 ]
  > 
  > proc.time()
     user  system elapsed 
     1.84    0.21    2.07
Invalid package aliases in Rd file 'coopProductGame-package.Rd':
  'coopProducGame-package'
Running 'testthat.R' [206s]
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)
  > library(CooRTweet)
  > library(data.table)
  > 
  > if (testthat:::on_cran()) {
  +     data.table::setDTthreads(threads = 2)
  + }
  > 
  > test_check("CooRTweet")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 3 ]
  > 
  > proc.time()
     user  system elapsed 
    35.23    4.46   39.76
Running 'test1copent.R' [175s]
  Running 'test2ci.R' [1s]
  Running 'test3mvnt.R' [169s]
  Running 'test4tst.R' [5s]
Running the tests in 'tests/test1copent.R' failed.
Complete output:
  > library(mnormt)
  > library(copent)
  > rho <- 0.5
  > sigma <- matrix(c(1,rho,rho,1),2,2)
  > x <- rmnorm(500,c(0,0),sigma)
  > ce1 <- copent(x)
  > 
  > proc.time()
     user  system elapsed 
     0.26    0.03    0.28 
Running the tests in 'tests/test3mvnt.R' failed.
Complete output:
  > library(copent)
  > library(mnormt)
  > rho <- 0.5
  > sigma <- matrix(c(1,rho,rho,1),2,2)
  > x <- rmnorm(1000,c(0,0),sigma)
  > mvnt(x)
  [1] 0.08744863
  > 
  > 
  > proc.time()
     user  system elapsed 
     0.37    0.10    0.45
installed size is  7.5Mb
  sub-directories of 1Mb or more:
    doc             2.2Mb
    vignette_data   2.6Mb
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    data   3.5Mb
    libs   1.2Mb
Running 'testthat.R' [171s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cophescan)
  > 
  > test_check("cophescan")
  This is coloc version 5.2.3
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 17 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 17 ]
  > 
  > proc.time()
     user  system elapsed 
     2.35    0.43    2.78
Documented arguments not in \usage in Rd file 'ft.Rd':
  'theta'

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.
installed size is  7.6Mb
  sub-directories of 1Mb or more:
    R     2.1Mb
    doc   3.5Mb
Running 'test_net_align.R' [160s]
  Running 'test_net_query.R' [4s]
Running the tests in 'tests/test_net_align.R' failed.
Complete output:
  > library(Corbi)
  > library(tools)
  > 
  > setwd("net_align")
  > 
  > net_align("net1.txt", "net3.txt", "sim.txt")
  > if (Rdiff("answer1.txt", "net1.txt_result.txt") != 0) 
  +   stop("Failed in net_align.")
  > if (Rdiff("answer1_uni.txt", "list net1.txt_result.txt") != 0) 
  +   stop("Failed in net_align.")
  > 
  > proc.time()
     user  system elapsed 
     3.92    0.45    4.31
Running 'testthat.R' [164s]
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)
  > library(coreCollection)
  > 
  > test_check("coreCollection")
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 39 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On CRAN (2): 'test-basics.R:102:3', 'test-basics.R:123:4'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 39 ]
  > 
  > proc.time()
     user  system elapsed 
     1.59    0.25    1.84
Running 'testthat.R' [164s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(coreSim)
  > library(car)
  Loading required package: carData
  > library(survival)
  > 
  > test_check("coreSim", report = 'summary')
  bsim: 
  b_sim: W....
  ci_check: 
  ci_check: ....
  interaction_builder: 
  interaction_builder: .......
  linear_systematic: 
  linear_systematic: W.......
  qi_builder: 
  qi_builder: W...............
  qi_slimmer: 
  qi_slimmer: W..
  
  ══ Warnings ════════════════════════════════════════════════════════════════════
  1. b_sim output validity ('test_bsim.R:7:5') - data set 'Prestige' not found
  
  2. linear_systematic output validity ('test_linear_systematic.R:9:5') - data set 'Prestige' not found
  
  3. qi_builder output validity ('test_qi_builder.R:7:5') - data set 'Prestige' not found
  
  4. qi_slimmer output validity ('test_qi_slimmer.R:7:5') - data set 'Prestige' not found
  
  ══ DONE ════════════════════════════════════════════════════════════════════════
  > 
  > proc.time()
     user  system elapsed 
     5.07    0.31    5.34
Running 'testthat.R' [158s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(coronavirus)
  > 
  > test_check("coronavirus")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 6 ]
  > 
  > proc.time()
     user  system elapsed 
     2.06    0.31    2.37
Running 'testthat.r' [165s]
Running the tests in 'tests/testthat.r' failed.
Complete output:
  > ##test_that::test_check('corpustools', reporter = 'stop')
  > options(Matrix.warnDeprecatedCoerce = 2)
  > 
  > 
  > proc.time()
     user  system elapsed 
     0.15    0.04    0.18
Running 'testthat.R' [169s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(corr2D)
  > 
  > test_check("corr2D")
  HOMO-Correlation: 1 cores used for calculation
  12:27:20 - Fast Fourier Transformation and multiplication 
   to obtain a 2 x 2 correlation matrix 
  12:27:20 - Done
  HOMO-Correlation: 1 cores used for calculation
  12:27:20 - using mean values as reference
  12:27:20 - Fast Fourier Transformation and multiplication 
   to obtain a 2 x 2 correlation matrix 
  12:27:20 - Done
  HOMO-Correlation: 1 cores used for calculation
  12:27:20 - using mean values as reference
  12:27:20 - Fast Fourier Transformation and multiplication 
   to obtain a 2 x 2 correlation matrix 
  12:27:21 - Done
  HOMO-Correlation: 1 cores used for calculation
  12:27:21 - using mean values as reference
  12:27:21 - Fast Fourier Transformation and multiplication 
   to obtain a 2 x 2 correlation matrix 
  12:27:21 - Done
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 3 ]
  > 
  > proc.time()
     user  system elapsed 
     0.73    0.23    2.31
Running 'testthat.R' [160s]
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)
  > library(correctR)
  This is version 0.2.1 of correctR. All functions now use two-tailed hypothesis tests by default instead of one-tailed.
  One-tailed tests can be manually specified through the new 'tailed' and 'greater' arguments.
  Please consult the help files and vignette for more information.
  > 
  > test_check("correctR")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 3 ]
  > 
  > proc.time()
     user  system elapsed 
     0.64    0.12    0.71
installed size is 18.0Mb
  sub-directories of 1Mb or more:
    extdata  17.7Mb
Running 'testthat.R' [175s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(corrgram)
  > 
  > test_check("corrgram")
  [ FAIL 0 | WARN 880 | SKIP 0 | PASS 20 ]
  
  [ FAIL 0 | WARN 880 | SKIP 0 | PASS 20 ]
  > 
  > proc.time()
     user  system elapsed 
    16.57    0.60   17.18
Running 'spelling.R' [157s]
  Running 'testthat.R' [89s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.15    0.09    0.21
Running 'testthat.R' [169s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(corrplot)
  corrplot 0.92 loaded
  > 
  > test_check('corrplot')
  [ FAIL 0 | WARN 0 | SKIP 8 | PASS 101 ]
  
  ══ Skipped tests (8) ═══════════════════════════════════════════════════════════
  • empty test (8): 'test-colorlegend.R:6:1', 'test-corrRect.R:25:1',
    'test-corrplot.R:74:1', 'test-corrplot.R:81:1', 'test-corrplot.R:247:1',
    'test-corrplot.R:256:1', 'test-corrplot.R:261:1', 'test-corrplot.R:278:1'
  
  [ FAIL 0 | WARN 0 | SKIP 8 | PASS 101 ]
  > 
  > proc.time()
     user  system elapsed 
     2.51    0.28    2.79
Running 'testthat.R' [161s]
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)
  > library(corrtable)
  > 
  > test_check("corrtable")
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 3 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On CRAN (2): 'test-correlation_matrix.R:25:3',
    'test-correlation_matrix.R:35:3'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 3 ]
  > 
  > proc.time()
     user  system elapsed 
     1.78    0.45    2.21
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cosmicsig)
  > 
  > test_check("cosmicsig")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 2 ]
  > 
  > proc.time()
     user  system elapsed 
     0.73    0.17    0.89
installed size is  5.1Mb
  sub-directories of 1Mb or more:
    data   3.6Mb
Running 'testthat.R' [161s]
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)
  > library(Counternull)
  > 
  > test_check("Counternull")
  [ FAIL 0 | WARN 0 | SKIP 6 | PASS 0 ]
  
  ══ Skipped tests (6) ═══════════════════════════════════════════════════════════
  • On CRAN (6): 'test-adjust_pvalues.R:5:3', 'test-counternull_values.R:3:3',
    'test-fisher.R:4:3', 'test-rand_dist.R:3:3', 'test-rand_dist.R:16:3',
    'test-rand_dist.R:53:3'
  
  [ FAIL 0 | WARN 0 | SKIP 6 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     1.25    0.25    1.50
Running 'spelling.R' [171s]
  Running 'testthat.R' [181s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.14    0.10    0.21 
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(countfitteR)
  > 
  > test_check("countfitteR")
  [ FAIL 0 | WARN 6 | SKIP 0 | PASS 35 ]
  
  [ FAIL 0 | WARN 6 | SKIP 0 | PASS 35 ]
  > 
  > proc.time()
     user  system elapsed 
     7.95    0.34    8.34
Running 'test-all.R' [248s]
Running the tests in 'tests/test-all.R' failed.
Complete output:
  > ## Test `countrycode` using the `testthat` package
  > 
  > ## Setup
  > library(testthat)
  > 
  > ## Runs the tests in tests/testthat
  > test_check('countrycode')
  Loading required package: countrycode
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 3791 ]
  > 
  > proc.time()
     user  system elapsed 
    81.26    3.81   85.23
Running 'testthat.R' [172s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(covequal)
  > 
  > test_check("covequal")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 2 ]
  > 
  > proc.time()
     user  system elapsed 
     1.40    0.23    1.59
installed size is  5.0Mb
  sub-directories of 1Mb or more:
    doc       1.6Mb
    extdata   2.6Mb
Running 'testthat.R' [188s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(covid19br)
  > 
  > test_check("covid19br")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
    14.25    0.79   22.59
Running 'testthat.R' [178s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(covid19france)
  > 
  > test_check("covid19france")
  [ FAIL 0 | WARN 2 | SKIP 0 | PASS 2 ]
  
  [ FAIL 0 | WARN 2 | SKIP 0 | PASS 2 ]
  > 
  > proc.time()
     user  system elapsed 
    10.12    1.07   11.28
Running 'testthat.R' [334s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(covid19us)
  > 
  > test_check("covid19us")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 13 ]
  > 
  > proc.time()
     user  system elapsed 
   145.53    4.09  164.25
Running 'testthat.R' [168s]
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)
  > library(covidmx)
  Hola! si me usas no te olvides de citarme:
  
  Paquete covidmx:
  + https://rodrigozepeda.github.io/covidmx/authors.html#citation
  
  Datos abiertos (casos):
  + https://www.gob.mx/salud/documentos/datos-abiertos-152127
  
  Datos de variantes (GISAID):
  + https://www.gisaid.org/help/publish-with-data-from-gisaid/
  + https://github.com/RodrigoZepeda/VariantesCovid
  
  Datos de ocupacion hospitalaria (Red IRAG):
  + https://www.gits.igg.unam.mx/red-irag-dashboard/reviewHome#
  + https://github.com/RodrigoZepeda/CapacidadHospitalariaMX
  
  Verifica que estes usando la version mas actual del paquete disponible en:
   https://github.com/RodrigoZepeda/covidmx
  > 
  > test_check("covidmx")
  Starting 2 test processes
  [ FAIL 0 | WARN 29 | SKIP 3 | PASS 70 ]
  
  ══ Skipped tests (3) ═══════════════════════════════════════════════════════════
  • On CRAN (3): 'test-db.R:3:3', 'test-downloads.R:3:3', 'test-lectura.R:3:3'
  
  [ FAIL 0 | WARN 29 | SKIP 3 | PASS 70 ]
  > 
  > proc.time()
     user  system elapsed 
     2.96    0.48   10.65
Running 'testthat.R' [159s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(covidprobability)
  > 
  > test_check("covidprobability")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 28 ]
  > 
  > proc.time()
     user  system elapsed 
     0.79    0.21    1.00
Running 'testthat.R' [288s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > ops <- options("crayon.enabled" = FALSE, warn = 1)
  > library(testthat)
  > library("covr")
  > 
  > # Skip tests on Solaris as gcc is not in the PATH and I do not have an easy way
  > # to mimic the CRAN build environment
  > if (!tolower(Sys.info()[["sysname"]]) == "sunos") {
  +   Sys.setenv("R_TESTS" = "")
  +   test_check("covr")
  + }
  [ FAIL 0 | WARN 0 | SKIP 14 | PASS 293 ]
  
  ══ Skipped tests (14) ══════════════════════════════════════════════════════════
  • On CRAN (9): 'test-Compiled.R:3:3', 'test-Compiled.R:36:3',
    'test-Compiled.R:49:3', 'test-Compiled.R:65:3', 'test-Compiled.R:81:3',
    'test-Compiled.R:89:3', 'test-record_tests.R:167:3',
    'test-tally_coverage.R:2:3', 'test-utils.R:46:3'
  • On Windows (3): 'test-parallel.R:5:3', 'test-parallel.R:16:3',
    'test-parallel.R:37:3'
  • getRversion() >= "4.0.0" is TRUE (1): 'test-utils.R:37:3'
  • is_r_devel() is TRUE (1): 'test-R6.R:6:3'
  
  [ FAIL 0 | WARN 0 | SKIP 14 | PASS 293 ]
  > 
  > options(ops)
  > 
  > proc.time()
     user  system elapsed 
     4.40    1.18  133.11
Running 'testthat.R' [172s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cowbell)
  > 
  > test_check("cowbell")
  Working on full model.
  Working on model without breakpoint.
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 11 ]
  > 
  > proc.time()
     user  system elapsed 
     5.71    0.10    5.81
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    data   1.2Mb
    doc    2.7Mb
Running 'testthat.R' [160s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(coxphw)
  Loading required package: survival
  > 
  > test_check("coxphw")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 0 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test_coxphw.R:5:1'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     1.40    0.29    1.84
Running 'testthat.R' [163s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(coxrobust)
  > 
  > test_check("coxrobust")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 2 ]
  > 
  > proc.time()
     user  system elapsed 
     1.68    0.25    1.92
Running 'testthat.R' [180s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cpi)
  > 
  > test_check("cpi")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 14 ]
  > 
  > proc.time()
     user  system elapsed 
     7.85    0.57    8.68
Running 'testthat.R' [167s]
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)
  > library(cpmr)
  > 
  > test_check("cpmr")
  [ FAIL 0 | WARN 0 | SKIP 6 | PASS 7 ]
  
  ══ Skipped tests (6) ═══════════════════════════════════════════════════════════
  • On CRAN (6): 'test-cpm.R:7:3', 'test-cpm.R:18:3', 'test-cpm.R:29:3',
    'test-cpm.R:39:3', 'test-cpm.R:50:3', 'test-cpm.R:69:3'
  
  [ FAIL 0 | WARN 0 | SKIP 6 | PASS 7 ]
  > 
  > proc.time()
     user  system elapsed 
     1.06    0.18    1.23
Running 'testthat.R' [203s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cpp11)
  > 
  > test_check("cpp11")
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 108 ]
  
  ══ Skipped tests (3) ═══════════════════════════════════════════════════════════
  • On CRAN (2): 'test-register.R:628:5', 'test-source.R:224:3'
  • On Windows (1): 'test-source.R:70:3'
  
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 108 ]
  > 
  > proc.time()
     user  system elapsed 
     2.96    0.89   34.25
Running 'testthat.R' [166s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cprr)
  > 
  > test_check("cprr")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 2 ]
  > 
  > proc.time()
     user  system elapsed 
     0.64    0.14    0.76
Running 'testthat.R' [158s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cragg)
  > 
  > test_check("cragg")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 24 ]
  > 
  > proc.time()
     user  system elapsed 
     1.64    0.34    1.96
Running 'testthat.R' [162s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > 
  > library(crayon)
  > library(testthat)
  > test_check("crayon")
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 532 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • This is not implemented, yet. (1): 'test-styles.r:4:3'
  • empty test (1): 'test-operations.R:155:1'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 532 ]
  > 
  > proc.time()
     user  system elapsed 
     2.35    0.40    2.68
Running 'testthat.R' [177s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(crctStepdown)
  > 
  > test_check("crctStepdown")
  Extracting treatment effect estimates.
  Point estimates:  -1.04 -0.1 
  Uncorrected SE:  0.24 0.16 
  Starting permutations...
  Starting permutations
  
  Starting permutations
  
  Test statistics:  2.92 0.72 
  Calculating p-values
  P-values:  0.01 0.52 
  Searching for confidence intervals...
  Lower
  
  Step = 1 bound: -1.44892 -0.36589
  
  Step = 50 bound:  -1.64872 -0.494967
  
  Step = 100 bound:  -1.59864 -0.462614
  
  Upper
  
  Step = 1 bound: -0.622504  0.168011
  
  Step = 50 bound: -0.33958 0.382003
  
  Step = 100 bound:  -0.3914 0.346201
  
  Completed!
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 3 ]
  > 
  > proc.time()
     user  system elapsed 
     2.45    0.42    2.82
Running 'testthat.R' [179s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(CREAM)
  > 
  > test_check("CREAM")
  [1] "Identifying window size for each Order"
  [1] "Identifying COREs"
  [1] "Identifying window size for each Order"
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 3 ]
  > 
  > proc.time()
     user  system elapsed 
     0.85    0.18    1.03
Running 'testthat.R' [174s]
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)
  > library(crew.aws.batch)
  > 
  > test_check("crew.aws.batch")
  [ FAIL 0 | WARN 0 | SKIP 5 | PASS 30 ]
  
  ══ Skipped tests (5) ═══════════════════════════════════════════════════════════
  • On CRAN (5): 'test-crew_definition_aws_batch.R:22:3',
    'test-crew_definition_aws_batch.R:29:3',
    'test-crew_definition_aws_batch.R:86:3',
    'test-crew_launcher_aws_batch.R:6:3', 'test-crew_monitor_aws_batch.R:22:3'
  
  [ FAIL 0 | WARN 0 | SKIP 5 | PASS 30 ]
  > 
  > proc.time()
     user  system elapsed 
     1.59    0.39    2.01
Running 'testthat.R' [233s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(crimedata)
  > 
  > test_check("crimedata")
  [ FAIL 0 | WARN 0 | SKIP 7 | PASS 23 ]
  
  ══ Skipped tests (7) ═══════════════════════════════════════════════════════════
  • On CRAN (7): 'test_file_urls.R:4:3', 'test_file_urls.R:9:3',
    'test_file_urls.R:15:3', 'test_file_urls.R:23:3',
    'test_get_crime_data.R:4:3', 'test_get_crime_data.R:21:3',
    'test_get_crime_data.R:51:3'
  
  [ FAIL 0 | WARN 0 | SKIP 7 | PASS 23 ]
  > 
  > proc.time()
     user  system elapsed 
     3.00    0.40   59.23
Running 'testthat.R' [197s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(crossmap)
  > 
  > test_check("crossmap")
  [ FAIL 0 | WARN 2 | SKIP 0 | PASS 383 ]
  
  [ FAIL 0 | WARN 2 | SKIP 0 | PASS 383 ]
  > 
  > proc.time()
     user  system elapsed 
    22.50    1.32   28.40
Running 'testthat.R' [175s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(Crossover)
  Loading required package: ggplot2
  > 
  > test_check("Crossover")
  Skipping design tests for v=2.
  Skipping comparison of old and new general.carryover function.
  Skipping design tests for comparing approaches.
  Skipping simulation.
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 163 ]
  > 
  > proc.time()
     user  system elapsed 
     6.23    1.01    7.28
Running 'testthat.R' [187s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(crosstalkr)
  > 
  > test_check("crosstalkr")
  [ FAIL 0 | WARN 2 | SKIP 12 | PASS 87 ]
  
  ══ Skipped tests (12) ══════════════════════════════════════════════════════════
  • On CRAN (6): 'test-filter.R:33:3', 'test-ppi_ingest.R:18:3',
    'test-ppi_ingest.R:26:3', 'test-ppi_ingest.R:32:3', 'test-utils.R:11:3',
    'test-utils.R:17:3'
  • relies on installed data (2): 'test-utils.R:52:3', 'test-utils.R:59:3'
  • relies on system file (2): 'test-calc_np.R:1:1',
    'test-node_suppression.R:1:1'
  • skipping due to long download times (2): 'test-ppi_ingest.R:3:3',
    'test-ppi_ingest.R:9:3'
  
  [ FAIL 0 | WARN 2 | SKIP 12 | PASS 87 ]
  > 
  > proc.time()
     user  system elapsed 
    32.29    3.82   36.73
Running 'testCV.R' [160s]
Running the tests in 'tests/testCV.R' failed.
Complete output:
  > library(CrossValidate)
  Loading required package: Modeler
  Loading required package: ClassDiscovery
  Loading required package: cluster
  Loading required package: oompaBase
  Loading required package: ClassComparison
  > 
  > suppressWarnings( RNGversion("3.5.0") )
  > set.seed(723461)
  > dataset <- matrix(rnorm(50*100), nrow=50)
  > pseudoclass <- factor(rep(c("A", "B"), each=50))
  > model <- modelerCCP # obviously, other models can be used
  > cv <- CrossValidate(model, dataset, pseudoclass, 0.5, 10)
  [1] 1
  [1] 2
  [1] 3
  [1] 4
  [1] 5
  [1] 6
  [1] 7
  [1] 8
  [1] 9
  [1] 10
  > summary(cv)
  ---------------
  Cross-validation was performed using 50 percent of the data for
  training. The data set was randomly split into training and testing
  sets 10 times.
  
  Training Accuracy:
           sens  spec   acc       ppv       npv
  Min.    0.760 0.720 0.760 0.7407407 0.7777778
  1st Qu. 0.810 0.810 0.805 0.8122910 0.7952899
  Median  0.840 0.840 0.850 0.8330435 0.8430769
  Mean    0.852 0.832 0.842 0.8364496 0.8524173
  3rd Qu. 0.880 0.880 0.875 0.8787500 0.8800000
  Max.    0.960 0.880 0.920 0.8888889 0.9565217
  
  Validation Accuracy:
           sens  spec   acc       ppv       npv
  Min.    0.320 0.320 0.400 0.4137931 0.3809524
  1st Qu. 0.370 0.400 0.440 0.4444444 0.4381559
  Median  0.480 0.500 0.460 0.4472222 0.4654762
  Mean    0.456 0.468 0.462 0.4602576 0.4613847
  3rd Qu. 0.510 0.520 0.475 0.4765396 0.4724507
  Max.    0.600 0.600 0.540 0.5384615 0.5416667
  > 
  > proc.time()
     user  system elapsed 
     0.85    0.17    1.00
Running 'testthat.R' [175s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(crossword.r)
  > 
  > test_check("crossword.r")
  . . 1 2 3
  . # # # #
  1 # . B #
  2 # A # #
  3 # # # #
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 10 ]
  > 
  > proc.time()
     user  system elapsed 
     1.53    0.20    1.71
Running 'spelling.R' [172s]
  Running 'testthat.R' [9s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if (requireNamespace("spelling")) {
  +     spelling::spell_check_test(vignettes = TRUE, error = identical(Sys.getenv("GITHUB_ACTION"), "true"))
  + }
  Loading required namespace: spelling
  NULL
  > 
  > 
  > proc.time()
     user  system elapsed 
     0.18    0.06    0.21
Running 'testthat.R' [154s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(crsra)
  > 
  > test_check("crsra")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 2 ]
  > 
  > proc.time()
     user  system elapsed 
     2.46    0.35    2.79
Running 'spelling.R' [161s]
  Running 'testthat.R' [3s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > spelling::spell_check_test(vignettes = TRUE, error = identical(Sys.getenv("TRAVIS"), "true"))
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.15    0.04    0.18
Running 'testthat.R' [169s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(CruzPlot)
  > 
  > test_check("CruzPlot")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 13 ]
  > 
  > proc.time()
     user  system elapsed 
     1.65    0.37    2.06
Running 'spelling.R' [159s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.14    0.09    0.20
Running examples in 'cryptotrackr-Ex.R' failed
The error most likely occurred in:

> ### Name: solana_get_signature_for_address
> ### Title: solana_get_signature_for_address
> ### Aliases: solana_get_signature_for_address
> 
> ### ** Examples
> 
> url <- "https://api.devnet.solana.com"
> address <- "Vote111111111111111111111111111111111111111"
> data <- solana_get_signature_for_address(url,address)
No encoding supplied: defaulting to UTF-8.
[1] " {\"jsonrpc\":\"2.0\",\"error\":{\"code\":429,\"message\":\"Too many requests for a specific RPC call, contact your app developer or support@rpcpool.com.\"}, \"id\": null } \r\n"
Error in solana_api_call(url, request_body) : 
  Request failed with status code: 429
Calls: solana_get_signature_for_address -> solana_api_call
Execution halted
Running 'testthat.R' [14s]
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)
  > library(cryptotrackr)
  > 
  > test_check("cryptotrackr")
  No encoding supplied: defaulting to UTF-8.
  [1] " {\"jsonrpc\":\"2.0\",\"error\":{\"code\":429,\"message\":\"Too many requests for a specific RPC call, contact your app developer or support@rpcpool.com.\"}, \"id\": null } \r\n"
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 92 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-solana.R:4:3'): the "solana_get_signature_for_address" function returns a list ──
  Error in `solana_api_call(url, request_body)`: Request failed with status code: 429
  Backtrace:
      ▆
   1. └─cryptotrackr::solana_get_signature_for_address(url, address) at test-solana.R:4:3
   2.   └─cryptotrackr::solana_api_call(url, request_body)
  
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 92 ]
  Error: Test failures
  Execution halted
Running 'testthat.R' [160s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cSEM)
  
  Attaching package: 'cSEM'
  
  The following object is masked from 'package:stats':
  
      predict
  
  > 
  > ## force tests to be executed if in dev release which we define as
  > ## having a sub-release, eg 0.9.15.5 is one whereas 0.9.16 is not
  > if(length(strsplit(packageDescription("cSEM")$Version, "\\.")[[1]]) > 3) { 
  +   test_check("cSEM")
  + }
  > 
  > 
  > proc.time()
     user  system elapsed 
     0.32    0.14    0.45
Running 'testthat.R' [200s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(CSHShydRology)
  > 
  > test_check("CSHShydRology")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 27 ]
  > 
  > proc.time()
     user  system elapsed 
    37.15    0.95   38.15
installed size is  5.6Mb
  sub-directories of 1Mb or more:
    data   3.8Mb
    doc    1.5Mb
Running 'testthat.R' [177s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(csmaps)
  csmaps 2023.5.22
  https://www.csids.no/csmaps/
  > 
  > test_check("csmaps")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     0.65    0.23    0.81
installed size is  8.1Mb
  sub-directories of 1Mb or more:
    doc   7.9Mb
installed size is  7.6Mb
  sub-directories of 1Mb or more:
    data   7.5Mb
Running 'setup.R' [0s]
  Running 'spelling.R' [173s]
  Running 'testthat.R' [14s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.14    0.06    0.18
Documented arguments not in \usage in Rd file 'tool.Rd':
  'seq'

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' [171s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cstime)
  cstime 2023.5.3
  https://www.csids.no/cstime/
  > 
  > test_check("cstime")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     0.60    0.21    0.81
Running 'csvw-tests-helpers.R' [0s]
  Running 'testthat.R' [174s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(csvwr)
  > 
  > test_check("csvwr")
  [ FAIL 0 | WARN 13 | SKIP 0 | PASS 96 ]
  
  [ FAIL 0 | WARN 13 | SKIP 0 | PASS 96 ]
  > 
  > proc.time()
     user  system elapsed 
     5.64    1.73    6.57
Running 'testthat.R' [162s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ctbi)
  > 
  > test_check("ctbi")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     0.89    0.20    1.07
Running 'testthat.R' [177s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cthist)
  > 
  > test_check("cthist")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 28 ]
  > 
  > proc.time()
     user  system elapsed 
     2.53    0.64   11.23
Running 'testthat.R' [167s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(CTNote)
  > 
  > test_check("CTNote")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 8 ]
  > 
  > proc.time()
     user  system elapsed 
     0.73    0.23    0.96
installed size is 11.7Mb
  sub-directories of 1Mb or more:
    R      1.1Mb
    data   1.7Mb
    libs   7.5Mb
Running 'testthat.R' [171s]
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)
  > library(Cubist)
  Loading required package: lattice
  > 
  > test_check("Cubist")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 0 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-basic-execution.R:11:3'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     1.32    0.20    1.51
Installation failed.
See 'd:/Rcompile/CRANpkg/local/4.4/curl.Rcheck/00install.out' for details.
Running 'testthat.R' [170s]
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)
  > test_check("currencyapi")
  Loading required package: currencyapi
  [ FAIL 0 | WARN 0 | SKIP 6 | PASS 0 ]
  
  ══ Skipped tests (6) ═══════════════════════════════════════════════════════════
  • On CRAN (6): 'test-convert.R:3:3', 'test-date-range-historical.R:3:3',
    'test-historical.R:3:3', 'test-latest.R:3:3', 'test-status.R:3:3',
    'test-supported.R:3:3'
  
  [ FAIL 0 | WARN 0 | SKIP 6 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     0.81    0.29    1.06
Running 'testthat.R' [167s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cusum)
  > 
  > test_check("cusum")
  Failed with error:  'there is no package called 'vdiffr''
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 40 ]
  > 
  > proc.time()
     user  system elapsed 
    11.96    0.29   12.29
Problems with news in 'NEWS.md':
  Cannot extract version info from the following section titles:
    Misc
Running 'testthat.R' [176s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cvap)
  > 
  > test_check("cvap")
  trying URL 'https://github.com/christopherkenny/cvap_data/raw/main/DE/blockgr_2019.rds'
  Content type 'application/octet-stream' length 12504 bytes (12 KB)
  ==================================================
  downloaded 12 KB
  
  trying URL 'https://github.com/christopherkenny/cvap_data/raw/main/DE/blockgr_2019.rds'
  Content type 'application/octet-stream' length 12504 bytes (12 KB)
  ==================================================
  downloaded 12 KB
  
  trying URL 'https://github.com/christopherkenny/cvap_data/raw/main/DE/blockgr_2019.rds'
  Content type 'application/octet-stream' length 12504 bytes (12 KB)
  ==================================================
  downloaded 12 KB
  
  trying URL 'https://github.com/christopherkenny/cvap_data/raw/main/DE/blockgr_2021.rds'
  Content type 'application/octet-stream' length 15040 bytes (14 KB)
  ==================================================
  downloaded 14 KB
  
  trying URL 'https://github.com/christopherkenny/cvap_data/raw/main/DE/blockgr_2022.rds'
  Content type 'application/octet-stream' length 15076 bytes (14 KB)
  ==================================================
  downloaded 14 KB
  
  trying URL 'https://github.com/alarm-redist/census-2020/raw/main/crosswalks/WY.rds'
  Content type 'application/octet-stream' length 442336 bytes (431 KB)
  ==================================================
  downloaded 431 KB
  
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 7 ]
  > 
  > proc.time()
     user  system elapsed 
     2.15    0.40    3.64
Running 'spelling.R' [173s]
  Running 'testthat.R' [23s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if (requireNamespace("spelling", quietly = TRUE)) {
  +   spelling::spell_check_test(
  +     vignettes = TRUE, error = FALSE,
  +     skip_on_cran = TRUE
  +   )
  + }
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.15    0.06    0.20
Package which this enhances but not available for checking: 'RGtk2'
Documented arguments not in \usage in Rd file 'compute_stat.Rd':
  'K_0'

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' [165s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cvequality)
  > 
  > test_check("cvequality")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
  > 
  > proc.time()
     user  system elapsed 
     1.32    0.17    1.46
Running 'testthat.R' [174s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cvmdisc)
  Loading required package: stats4
  Loading required package: CompQuadForm
  > 
  > test_check("cvmdisc")
  [1] "Parameter 'N' must be numeric."
  [1] "Paraneter 'N' must be a positive integer."
  [ FAIL 0 | WARN 16 | SKIP 0 | PASS 36 ]
  
  [ FAIL 0 | WARN 16 | SKIP 0 | PASS 36 ]
  > 
  > proc.time()
     user  system elapsed 
     4.82    0.43    5.25
Running 'testthat.R' [166s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(CVrisk)
  > 
  > test_check("CVrisk")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 12 ]
  > 
  > proc.time()
     user  system elapsed 
     1.04    0.28    1.26
installed size is  6.4Mb
  sub-directories of 1Mb or more:
    R      2.7Mb
    doc    1.2Mb
    libs   1.2Mb
Running 'testthat.R' [172s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cyclocomp)
  > 
  > test_check("cyclocomp")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 39 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • Takes too long to run currently (1): 'test-stress.R:26:3'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 39 ]
  > 
  > proc.time()
     user  system elapsed 
     1.78    0.20    1.95
Running 'testthat.R' [180s]
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)
  > library(cyclotomic)
  > 
  > test_check("cyclotomic")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 13 ]
  > 
  > proc.time()
     user  system elapsed 
     6.09    0.31    6.34
installed size is  5.7Mb
  sub-directories of 1Mb or more:
    extdata       1.3Mb
    htmlwidgets   1.4Mb
Running 'testthat.R' [165s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(cyphr)
  > 
  > test_check("cyphr")
  [ FAIL 0 | WARN 0 | SKIP 4 | PASS 289 ]
  
  ══ Skipped tests (4) ═══════════════════════════════════════════════════════════
  • On CRAN (4): 'test-reference.R:15:3', 'test-reference.R:63:3',
    'test-ssh-keygen.R:16:3', 'test-ssh-keygen.R:51:3'
  
  [ FAIL 0 | WARN 0 | SKIP 4 | PASS 289 ]
  > 
  > proc.time()
     user  system elapsed 
     3.59    0.75    4.34
Running 'testthat.R' [168s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(czso)
  > 
  > test_check("czso")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 0 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-core.R:4:3'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     0.82    0.18    1.00
Running 'test_all.R' [230s]
Running the tests in 'tests/test_all.R' failed.
Complete output:
  > testthat::test_check("D2MCS")
  Loading required package: D2MCS
  [ FAIL 0 | WARN 6 | SKIP 15 | PASS 760 ]
  
  ══ Skipped tests (15) ══════════════════════════════════════════════════════════
  • On CRAN (2): 'test_D2MCS.R:129:3', 'test_D2MCS.R:213:3'
  • ranger cannot be loaded (13): 'test_D2MCS.R:411:3',
    'test_prediction.ClusterPredictions.R:17:3',
    'test_prediction.ClusterPredictions.R:46:3',
    'test_prediction.CombinedVoting.R:150:3', 'test_prediction.Prediction.R:2:3',
    'test_prediction.Prediction.R:29:3', 'test_prediction.Prediction.R:50:3',
    'test_prediction.Prediction.R:75:3', 'test_prediction.Prediction.R:96:3',
    'test_prediction.Prediction.R:128:3', 'test_prediction.Prediction.R:166:3',
    'test_prediction.Prediction.R:179:3', 'test_prediction.SingleVoting.R:27:3'
  
  [ FAIL 0 | WARN 6 | SKIP 15 | PASS 760 ]
  > 
  > proc.time()
     user  system elapsed 
    64.20    3.87   67.42
Running 'testthat.R' [183s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(usethis)
  > 
  > test_check("usethis")
  Starting 1 test process
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 6 ]
  > 
  > proc.time()
     user  system elapsed 
     1.07    0.23   12.39
Running 'testthat.R' [242s]
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)
  > library(dabestr)
  
  Attaching package: 'dabestr'
  
  The following object is masked from 'package:base':
  
      load
  
  > 
  > test_check("dabestr")
  [ FAIL 0 | WARN 4 | SKIP 7 | PASS 74 ]
  
  ══ Skipped tests (7) ═══════════════════════════════════════════════════════════
  • On CRAN (7): 'test-001_plotter.R:10:3', 'test-001_plotter.R:30:3',
    'test-001_plotter.R:48:3', 'test-001_plotter.R:108:3',
    'test-001_plotter.R:140:3', 'test-001_plotter.R:187:3',
    'test-001_plotter.R:201:3'
  
  [ FAIL 0 | WARN 4 | SKIP 7 | PASS 74 ]
  Deleting unused snapshots:
  • 001_plotter/multigroup-baseline-colour-mean-diff.svg
  • 001_plotter/multigroup-baseline-mean-diff.svg
  • 001_plotter/multigroup-sequential-mean-diff.svg
  • 001_plotter/multigroup-unpaired-mean-diff-colour.svg
  • 001_plotter/proportion-baseline-flow-false-mean-diff.svg
  • 001_plotter/proportion-baseline-mean-diff.svg
  • 001_plotter/proportion-paired-mean-diff-float-false.svg
  • 001_plotter/proportion-sequential-mean-diff.svg
  • 001_plotter/proportion-unpaired-mean-diff-float-false.svg
  • 001_plotter/proportion-unpaired-multigroup-mean-diff.svg
  • 001_plotter/two-groups-unpaired-mean-diff-colour-float-false.svg
  • 001_plotter/two-groups-unpaired-mean-diff-float-false.svg
  > 
  > proc.time()
     user  system elapsed 
    57.39    2.60   60.09
Running 'testthat.R' [168s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dadjokeapi)
  > library(curl)
  Using libcurl 8.3.0 with Schannel
  > 
  > test_check("dadjokeapi")
  [ FAIL 0 | WARN 0 | SKIP 4 | PASS 0 ]
  
  ══ Skipped tests (4) ═══════════════════════════════════════════════════════════
  • On CRAN (4): 'test-groan.R:2:1', 'test-groan_id.R:2:1',
    'test-groan_image.R:2:1', 'test-groan_search.R:2:1'
  
  [ FAIL 0 | WARN 0 | SKIP 4 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     1.07    0.25    1.26
Running 'testthat.R' [180s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dados)
  > 
  > test_check("dados")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 203 ]
  > 
  > proc.time()
     user  system elapsed 
     5.98    0.81    6.79
Running 'more_tests.R' [3s]
  Comparing 'more_tests.Rout' to 'more_tests.Rout.save' ... OK
  Running 'testthat.R' [157s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(daff)
  > 
  > test_check("daff")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 22 ]
  > 
  > proc.time()
     user  system elapsed 
     1.60    0.21    1.81
Running 'testthat.R' [177s]
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)
  > library(dail)
  > 
  > test_check("dail")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     0.50    0.14    0.61
Running 'testthat.R' [189s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(daiR)
  Welcome to daiR 1.0.0, your gateway to Google Document AI v1.
  Access token not available. Have you provided a valid service account key file?
  > 
  > test_check("daiR")
  Access token not available. Have you provided a valid service account key file?
  [ FAIL 0 | WARN 0 | SKIP 44 | PASS 564 ]
  
  ══ Skipped tests (44) ══════════════════════════════════════════════════════════
  • On CRAN (44): 'test_auth.R:34:3', 'test_auth.R:55:3', 'test_auth.R:65:3',
    'test_draw.R:135:3', 'test_draw.R:273:3', 'test_draw.R:410:3',
    'test_draw.R:547:3', 'test_draw.R:684:3', 'test_extract.R:37:3',
    'test_extract.R:47:3', 'test_extract.R:86:3', 'test_extract.R:103:3',
    'test_extract.R:138:3', 'test_extract.R:154:3', 'test_processors.R:16:3',
    'test_processors.R:49:3', 'test_processors.R:59:3', 'test_processors.R:93:3',
    'test_processors.R:104:3', 'test_processors.R:128:3',
    'test_processors.R:138:3', 'test_processors.R:171:3',
    'test_processors.R:181:3', 'test_processors.R:214:3',
    'test_processors.R:224:3', 'test_processors.R:261:3',
    'test_processors.R:273:3', 'test_processors.R:309:3',
    'test_processors.R:322:3', 'test_processors.R:358:3',
    'test_send_to_dai.R:16:3', 'test_send_to_dai.R:38:3',
    'test_send_to_dai.R:47:3', 'test_send_to_dai.R:60:3',
    'test_send_to_dai.R:79:3', 'test_send_to_dai.R:87:3',
    'test_send_to_dai.R:116:3', 'test_send_to_dai.R:130:3', 'test_utils.R:33:3',
    'test_utils.R:44:3', 'test_utils.R:138:3', 'test_utils.R:146:3',
    'test_utils.R:161:3', 'test_utils.R:172:3'
  
  [ FAIL 0 | WARN 0 | SKIP 44 | PASS 564 ]
  > 
  > proc.time()
     user  system elapsed 
    24.12    0.90   25.00
Package which this enhances but not available for checking: 'doMC'
Documented arguments not in \usage in Rd file 'mm_run_reg.Rd':
  'all_params'

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' [156s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dams)
  > 
  > test_check("dams")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     1.21    0.20    1.40
Running 'testthat.R' [189s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(danstat)
  > 
  > test_check("danstat")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 19 ]
  > 
  > proc.time()
     user  system elapsed 
     1.93    0.35    8.28
Invalid package aliases in Rd file 'dap-package.Rd':
  'dap-package'
Running 'testthat.R' [169s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(DatabaseConnector)
  > if (Sys.getenv("CDM5_POSTGRESQL_SERVER") != "") {
  +   test_check("DatabaseConnector")
  + } else {
  +   message("Skipping testing because environmental variables not set")
  + }
  Skipping testing because environmental variables not set
  > 
  > proc.time()
     user  system elapsed 
     1.17    0.25    1.25
Running 'testthat.R' [161s]
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)
  > library(datadictionary)
  > 
  > test_check("datadictionary")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 26 ]
  > 
  > proc.time()
     user  system elapsed 
     2.15    0.26    2.45
Running 'testthat.R' [173s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(datadogr)
  > 
  > test_check("datadogr")
  [ FAIL 0 | WARN 1 | SKIP 1 | PASS 27 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • Sys.timezone() == "Asia/Tokyo" is not TRUE (1): 'test-to_epochtime.R:22:3'
  
  [ FAIL 0 | WARN 1 | SKIP 1 | PASS 27 ]
  > 
  > proc.time()
     user  system elapsed 
     1.70    0.28    1.98
Running 'testthat.R' [154s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(mockery)
  > library(DataFakeR)
  > 
  > test_check("DataFakeR")
  [ FAIL 0 | WARN 2 | SKIP 1 | PASS 58 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-lint_check.R:12:3'
  
  [ FAIL 0 | WARN 2 | SKIP 1 | PASS 58 ]
  > 
  > proc.time()
     user  system elapsed 
     3.59    0.78    4.37
Running 'testthat.R' [173s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dataonderivatives)
  > 
  > test_check("dataonderivatives")
  Starting 2 test processes
  [ FAIL 0 | WARN 0 | SKIP 4 | PASS 0 ]
  
  ══ Skipped tests (4) ═══════════════════════════════════════════════════════════
  • On CRAN (4): 'test-bsef.R:2:3', 'test-cme.R:2:3', 'test-cme.R:16:3',
    'test-ddr.R:2:3'
  
  [ FAIL 0 | WARN 0 | SKIP 4 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     0.95    0.31    1.93
Running 'testthat.R' [174s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(datapack)
  > 
  > test_check("datapack")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 344 ]
  > 
  > proc.time()
     user  system elapsed 
     5.20    0.78    5.93
Running 'testthat.R' [268s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dataRetrieval)
  > test_check("dataRetrieval")
  [ FAIL 0 | WARN 0 | SKIP 45 | PASS 38 ]
  
  ══ Skipped tests (45) ══════════════════════════════════════════════════════════
  • On CRAN (45): 'tests_general.R:4:3', 'tests_general.R:214:3',
    'tests_general.R:261:3', 'tests_general.R:295:3', 'tests_general.R:302:3',
    'tests_general.R:310:3', 'tests_general.R:318:3', 'tests_general.R:334:3',
    'tests_general.R:346:3', 'tests_general.R:369:3', 'tests_general.R:388:3',
    'tests_general.R:407:3', 'tests_general.R:566:3', 'tests_general.R:624:3',
    'tests_imports.R:4:3', 'tests_imports.R:102:3', 'tests_imports.R:239:3',
    'tests_imports.R:252:3', 'tests_nldi.R:4:3', 'tests_nldi.R:27:3',
    'tests_nldi.R:43:3', 'tests_nldi.R:77:3', 'tests_nldi.R:95:3',
    'tests_nldi.R:102:3', 'tests_nldi.R:111:3', 'tests_nldi.R:119:3',
    'tests_nldi.R:129:3', 'tests_nldi.R:140:3', 'tests_userFriendly_fxns.R:4:3',
    'tests_userFriendly_fxns.R:70:3', 'tests_userFriendly_fxns.R:109:3',
    'tests_userFriendly_fxns.R:140:3', 'tests_userFriendly_fxns.R:153:3',
    'tests_userFriendly_fxns.R:186:3', 'tests_userFriendly_fxns.R:211:3',
    'tests_userFriendly_fxns.R:250:3', 'tests_userFriendly_fxns.R:270:3',
    'tests_userFriendly_fxns.R:295:3', 'tests_userFriendly_fxns.R:303:3',
    'tests_userFriendly_fxns.R:310:3', 'tests_userFriendly_fxns.R:318:3',
    'tests_userFriendly_fxns.R:337:3', 'tests_userFriendly_fxns.R:417:3',
    'tests_userFriendly_fxns.R:480:3', 'tests_userFriendly_fxns.R:506:3'
  
  [ FAIL 0 | WARN 0 | SKIP 45 | PASS 38 ]
  > 
  > proc.time()
     user  system elapsed 
    61.68    5.01   97.54
Running 'testthat.R' [162s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat) # nolint: undesirable_function_linter
  > 
  > test_check("datasetjson")
  Loading required package: datasetjson
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 102 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-dataset_metadata.R:46:3'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 102 ]
  > 
  > proc.time()
     user  system elapsed 
     3.62    0.50    4.00
Running 'testthat.R' [156s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(datasets.load)
  > 
  > test_check("datasets.load")
  [ FAIL 0 | WARN 70 | SKIP 0 | PASS 4 ]
  
  [ FAIL 0 | WARN 70 | SKIP 0 | PASS 4 ]
  > 
  > proc.time()
     user  system elapsed 
     1.95    1.03    2.98
Running 'testthat.R' [172s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dataspice)
  > 
  > test_check("dataspice")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 78 ]
  > 
  > proc.time()
     user  system elapsed 
     7.26    1.92    8.31
Running 'testthat.R' [180s]
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)
  > library(dataverifyr)
  > 
  > test_check("dataverifyr")
  The tzdb package is not installed. Timezones will not be available to Arrow compute functions.
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 70 ]
  > 
  > proc.time()
     user  system elapsed 
     5.50    0.60    6.04
Running 'spelling.R' [0s]
  Running 'test_zz.R' [157s]
  Running 'testthat.R' [6s]
Running the tests in 'tests/test_zz.R' failed.
Complete output:
  > library(testthat)
  > if (Sys.info()[["sysname"]] == "Darwin") {
  +   test_that("Warning if multibyte support is not detected", {
  +     withr::with_locale(new = c("LC_CTYPE" = "en_US.US-ASCII"), code = {
  +       expect_message(library(datefixR), paste0(
  +         "The current locale does not support multibyte characters. ",
  +         "You may run into difficulties if any months are given as ",
  +         "non-English language names. \n"
  +       ))
  +     })
  +   })
  + }
  > 
  > proc.time()
     user  system elapsed 
     0.39    0.10    0.46
Running 'testthat.R' [175s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(daterangepicker)
  > 
  > test_check("daterangepicker")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 60 ]
  > 
  > proc.time()
     user  system elapsed 
     1.03    0.25    1.26
Package suggested but not available for checking: 'SASxport'
Running 'tinytest.R' [164s]
Running the tests in 'tests/tinytest.R' failed.
Complete output:
  > if (requireNamespace("tinytest", quietly = TRUE)) {
  +     tinytest.results <- tinytest::test_package("datetimeutils",
  +                                                color = interactive(),
  +                                                verbose = 1)
  + }
  
  test.R........................  138 tests OK  1.4s
  > 
  > proc.time()
     user  system elapsed 
     1.51    0.10    1.61
Running 'testthat.R' [166s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dateutils)
  > 
  > test_check("dateutils")
  Note: The following floating-point exceptions are signalling: IEEE_UNDERFLOW_FLAG IEEE_DENORMAL
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 10 ]
  > 
  > proc.time()
     user  system elapsed 
     3.70    0.31    6.68
Running 'testthat.R' [149s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(datos)
  > 
  > test_check("datos")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 168 ]
  > 
  > proc.time()
     user  system elapsed 
     5.57    0.62    6.21
Running 'testthat.R' [149s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(datrProfile)
  > 
  > test_check("datrProfile")
  [1] "2024-03-23 12:48:44.264216 Started profile at table .mtcars"
  [1] "2024-03-23 12:48:44.31291 Started profile for column mpg"
  [1] "2024-03-23 12:48:44.319221 Started profile for column cyl"
  [1] "2024-03-23 12:48:44.324588 Started profile for column disp"
  [1] "2024-03-23 12:48:44.32961 Started profile for column hp"
  [1] "2024-03-23 12:48:44.338536 Started profile for column drat"
  [1] "2024-03-23 12:48:44.344753 Started profile for column wt"
  [1] "2024-03-23 12:48:44.350466 Started profile for column qsec"
  [1] "2024-03-23 12:48:44.356461 Started profile for column vs"
  [1] "2024-03-23 12:48:44.361665 Started profile for column am"
  [1] "2024-03-23 12:48:44.36697 Started profile for column gear"
  [1] "2024-03-23 12:48:44.372537 Started profile for column carb"
  [1] "2024-03-23 12:48:44.377814 Ended profile at table .mtcars"
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 4 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • empty test (2): 'test-runProfile.sqlserver.R:4:1',
    'test-runProfile.teradata.R:4:1'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 4 ]
  > 
  > proc.time()
     user  system elapsed 
     1.20    0.25    1.43
Running 'testthat.R' [172s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dbglm)
  > 
  > test_check("dbglm")
  
  Attaching package: 'purrr'
  
  The following object is masked from 'package:testthat':
  
      is_null
  
  Loading required package: DBI
  [ FAIL 0 | WARN 24 | SKIP 0 | PASS 1 ]
  
  [ FAIL 0 | WARN 24 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     3.12    0.42    3.48
Running 'testthat.R' [162s]
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)
  > library(DBHC)
  > 
  > test_check("DBHC")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     2.42    0.28    2.68
Running 'testthat.R' [172s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > 
  > test_check("dbhydroR")
  Loading required package: dbhydroR
  [ FAIL 0 | WARN 3 | SKIP 0 | PASS 18 ]
  
  [ FAIL 0 | WARN 3 | SKIP 0 | PASS 18 ]
  > 
  > proc.time()
     user  system elapsed 
     3.35    0.34    3.68
Running 'testthat.R' [174s]
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)
  > library(DBI)
  > 
  > test_check("DBI")
  Reason: On CRAN
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 144 ]
  
  ══ Skipped tests (3) ═══════════════════════════════════════════════════════════
  • On CRAN (3): 'test-00-Id.R:2:3', 'test-00-Id.R:6:3', 'test-DBItest.R:33:1'
  
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 144 ]
  > 
  > proc.time()
     user  system elapsed 
     2.37    0.62    3.03
Running 'testthat.R' [157s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dblcens)
  > 
  > test_check("dblcens")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 2 ]
  > 
  > proc.time()
     user  system elapsed 
     0.53    0.18    0.70
Running 'testthat.R' [165s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dbparser)
  > 
  > test_check("dbparser")
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 63 ]
  
  ══ Skipped tests (3) ═══════════════════════════════════════════════════════════
  • On CRAN (3): 'test-drugbank-parser.R:31:5', 'test-drugbank-parser.R:287:5',
    'test-drugbank-parser.R:300:5'
  
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 63 ]
  > 
  > proc.time()
     user  system elapsed 
     3.67    0.45    4.12
Running 'testthat.R' [171s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dbx)
  > 
  > test_check("dbx")
  [ FAIL 0 | WARN 0 | SKIP 24 | PASS 85 ]
  
  ══ Skipped tests (24) ══════════════════════════════════════════════════════════
  • !isPostgres(db) is TRUE (10): 'test-sqlite.R:7:1', 'test-sqlite.R:7:1',
    'test-sqlite.R:7:1', 'test-sqlite.R:7:1', 'test-sqlite.R:7:1',
    'test-sqlite.R:7:1', 'test-sqlite.R:7:1', 'test-sqlite.R:7:1',
    'test-sqlite.R:7:1', 'test-sqlite.R:7:1'
  • !isPostgres(db) || redshift is TRUE (3): 'test-sqlite.R:7:1',
    'test-sqlite.R:7:1', 'test-sqlite.R:7:1'
  • On CRAN (4): 'test-mariadb.R:3:1', 'test-mysql.R:3:1', 'test-postgres.R:3:1',
    'test-postgresql.R:3:1'
  • empty test (1): 'test-sqlite.R:7:1'
  • isSQLite(db) is TRUE (1): 'test-sqlite.R:7:1'
  • isSQLite(db) || isSQLServer(db) is TRUE (1): 'test-sqlite.R:7:1'
  • odbc (3): 'test-odbc-mysql.R:3:1', 'test-odbc-postgres.R:3:1',
    'test-odbc-sqlserver.R:3:1'
  • redshift (1): 'test-redshift.R:3:1'
  
  [ FAIL 0 | WARN 0 | SKIP 24 | PASS 85 ]
  > 
  > proc.time()
     user  system elapsed 
     2.78    0.26    3.03
Running 'testthat.R' [165s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(DCG)
  > 
  > test_check("DCG")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 14 ]
  > 
  > proc.time()
     user  system elapsed 
     2.50    0.39    2.87
Running 'spelling.R' [174s]
  Running 'testthat.R' [158s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if (requireNamespace("spelling", quietly = TRUE)) {
  +   spelling::spell_check_test(
  +     vignettes = TRUE, error = FALSE,
  +     skip_on_cran = TRUE
  +   )
  + }
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.14    0.04    0.18 
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)
  > library(ddc)
  > 
  > test_check("ddc")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     0.56    0.15    0.70
Running 'testthat.R' [188s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dde)
  > 
  > test_check("dde")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 522 ]
  > 
  > proc.time()
     user  system elapsed 
     4.09    0.46   27.82
Running 'testthat.R' [169s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ddi)
  > 
  > test_check("ddi")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 2 ]
  > 
  > proc.time()
     user  system elapsed 
     0.67    0.14    0.79
Running 'testthat.R' [289s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(deBInfer)
  Loading required package: deSolve
  > 
  > test_check("deBInfer")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 631 ]
  > 
  > proc.time()
     user  system elapsed 
   114.06    4.89  119.01
Running 'spelling.R' [0s]
  Running 'testthat.R' [161s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(decido)
  > 
  > test_check("decido")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 37 ]
  > 
  > proc.time()
     user  system elapsed 
     0.96    0.28    1.18
Running 'testthat.R' [157s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(deckgl)
  deckgl 0.3.0 wrapping deck.gl.js 8.1.9
    Documentation: https://crazycapivara.github.io/deckgl/
    Issues, notes and bleeding edge: https://github.com/crazycapivara/deckgl
  
  If you want to add a basemap from mapbox, it is recommended that you store your API token in an environment variable called MAPBOX_API_TOKEN.
  
  > 
  > test_check("deckgl")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 18 ]
  > 
  > proc.time()
     user  system elapsed 
     0.96    0.31    1.26
Running 'testthat.R' [160s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(decompr)
  Please consider citing R and decompr,
  using citation()
  citation('decompr')
  
  > 
  > test_check("decompr")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 25 ]
  > 
  > proc.time()
     user  system elapsed 
     0.95    0.18    1.12
Documented arguments not in \usage in Rd file 'getTriContextFraction.Rd':
  'trimer.counts.ref'

Documented arguments not in \usage in Rd file 'norm.it.Rd':
  'trimer.counts'

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' [173s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(decor)
  > 
  > test_check("decor")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 56 ]
  > 
  > proc.time()
     user  system elapsed 
     1.37    0.14    1.50
Running 'testthat.R' [153s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dedupewider)
  > 
  > test_check("dedupewider")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 25 ]
  > 
  > proc.time()
     user  system elapsed 
     1.31    0.21    1.46
Running 'spelling.R' [0s]
  Running 'testthat.R' [251s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(deepdep)
  > 
  > test_check("deepdep")
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 46 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On CRAN (2): 'test-plot.R:135:3', 'test-plot_downloads.R:8:3'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 46 ]
  > 
  > proc.time()
     user  system elapsed 
    72.85    2.39   77.34
Running 'testthat.R' [223s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(deepregression)
  Loading required package: tensorflow
  Loading required package: tfprobability
  Loading required package: keras
  > 
  > if (reticulate::py_module_available("tensorflow") &
  +     reticulate::py_module_available("keras") &
  +     reticulate::py_module_available("tensorflow_probability")) {
  +   test_check("deeptrafo")
  + }
  > 
  > proc.time()
     user  system elapsed 
     2.42    0.82   60.54
Running 'testthat.R' [168s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(DEET)
  > library(testthat)
  > testthat::test_check("DEET")
  [ FAIL 0 | WARN 4 | SKIP 0 | PASS 6 ]
  
  [ FAIL 0 | WARN 4 | SKIP 0 | PASS 6 ]
  > 
  > proc.time()
     user  system elapsed 
     3.92    0.50    4.37
Running 'testthat.R' [160s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(default)
  > 
  > test_check("default")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 18 ]
  > 
  > proc.time()
     user  system elapsed 
     1.00    0.17    1.14
Running 'testthat.R' [217s]
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)
  > library(defineR)
  Loading required package: common
  Loading required package: glue
  > 
  > test_check("defineR")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 117 ]
  > 
  > proc.time()
     user  system elapsed 
    48.01    2.28   50.36
Running 'testthat.R' [177s]
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)
  > library(deFit)
  > 
  > test_check("deFit")
  Program will fit the data with a univariate second-order differential equation.
  The differential equation is:
  x(2) = beta1 * x + beta2 * x(1)
  Optimizing...
  Finishing optimization...
  Estimating R_squared
  Estimating RMSE
  Estimating Hessian
  Program will fit the data with a bivariate first-order differential equation.
  The differential equations are:
  dx/dt = beta1 * x + beta2 * y
  dy/dt = beta3 * x + beta4 * y
  Optimizing...
  Finishing optimization...
  next...
  Estimating R_squared
  Estimating RMSE
  Estimating Hessian
  Program will fit the data with a bivariate first-order differential equation.
  The differential equations are:
  dx/dt = beta1 * x + beta2 * y
  dy/dt = beta3 * x + beta4 * y
  Optimizing...
  Finishing optimization...
  next...
  Estimating R_squared
  Estimating RMSE
  Estimating Hessian
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 3 ]
  > 
  > proc.time()
     user  system elapsed 
    14.21    0.43   14.67
Running 'testthat.R' [156s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(deflist)
  > 
  > test_check("deflist")
  Loading required namespace: digest
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 42 ]
  > 
  > proc.time()
     user  system elapsed 
     1.00    0.31    1.29
Running 'testthat.R' [289s]
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)
  > library(deforestable)
  > 
  > test_check("deforestable")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 36 ]
  > 
  > proc.time()
     user  system elapsed 
   126.87    3.64  130.67
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(degday)
  > 
  > test_check("degday")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 6 ]
  > 
  > proc.time()
     user  system elapsed 
     0.82    0.15    0.96
Problems with news in 'NEWS.md':
  Cannot extract version info from the following section titles:
    Changes from previous package DecompHoriuchi
Running 'testthat.R' [161s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(demoGraphic)
  > 
  > test_check("demoGraphic")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 3 ]
  > 
  > proc.time()
     user  system elapsed 
     0.71    0.10    0.81
installed size is  5.7Mb
  sub-directories of 1Mb or more:
    data   1.2Mb
    doc    3.1Mb
    help   1.3Mb
Running 'testthat.R' [158s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(DEM)
  > 
  > test_check("DEM")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     0.46    0.17    0.62
Running 'test-all.R' [155s]
Running the tests in 'tests/test-all.R' failed.
Complete output:
  > # Run all tests for gphys package
  > #  
  > # Author: jefferis
  > ###############################################################################
  > 
  > library(testthat)
  > library(dendroextras)
  > test_check("dendroextras")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 18 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • empty test (1): 'test-colour-clusters.R:58:1'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 18 ]
  > 
  > 
  > proc.time()
     user  system elapsed 
     0.89    0.14    1.03
Running 'testthat.R' [218s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(densitr)
  > 
  > test_check("densitr")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 29 ]
  > 
  > proc.time()
     user  system elapsed 
    53.98    0.68   54.68
Running 'testthat.R' [158s]
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)
  > library(densityarea)
  > library(sf)
  Linking to GEOS 3.11.2, GDAL 3.8.2, PROJ 9.3.1; sf_use_s2() is TRUE
  > 
  > test_check("densityarea")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 31 ]
  > 
  > proc.time()
     user  system elapsed 
     4.87    0.39    5.26
Running 'testthat.R' [166s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(densityClust)
  > 
  > proc.time()
     user  system elapsed 
     0.98    0.17    1.12
Running 'testthat.R' [173s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(denvax)
  > 
  > test_check("denvax")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 17 ]
  > 
  > proc.time()
     user  system elapsed 
     0.65    0.18    0.82
Running 'tests.R' [170s]
Running the tests in 'tests/tests.R' failed.
Complete output:
  > library(DEoptim)
  Loading required package: parallel
  
  DEoptim package
  Differential Evolution algorithm in R
  Authors: D. Ardia, K. Mullen, B. Peterson and J. Ulrich
  
  > 
  > # Tests for partial argument matching (#2)
  > # 'p' matched 'params' (prior to ae82a815751f6c1eeaef4e51430df8fcef556af9)
  > # 'M' matched MARGIN
  > # 'F' matched FUN
  > RosenbrockPartialMatch <-
  + function(x, p, M, F)
  + {
  +   x1 <- x[1]
  +   x2 <- x[2]
  +   100 * (x2 - x1 * x1)^2 + (1 - x1)^2 
  + }
  > lower <- c(-10, -10)
  > upper <- -lower
  > 
  > set.seed(21)
  > deCtrl <- DEoptim.control(trace = FALSE, parallelType = "parallel")
  > deopt <- DEoptim(RosenbrockPartialMatch, lower, upper, deCtrl,
  +                  p = NULL, M = NULL, F = NULL)
  > 
  > proc.time()
     user  system elapsed 
     0.40    0.17    0.82
Running 'testthat.R' [214s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(DepCens)
  > 
  > test_check("DepCens")
  [ FAIL 0 | WARN 2 | SKIP 0 | PASS 0 ]
  
  [ FAIL 0 | WARN 2 | SKIP 0 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
    48.03    2.87   51.09
Running 'testthat.R' [171s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(DepLogo)
  > 
  > test_check("DepLogo")
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 68 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 68 ]
  > 
  > proc.time()
     user  system elapsed 
     5.92    1.64    7.76
Package suggested but not available for checking: 'Rdonlp2'
Running 'testthat.R' [183s]
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)
  > library(DEPONS2R)
  
  Attaching package: 'DEPONS2R'
  
  The following object is masked from 'package:graphics':
  
      title
  
  > 
  > test_check("DEPONS2R")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     6.35    0.40    6.75
Running 'testthat.R' [169s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > Sys.setenv("R_TESTS" = "")
  > 
  > library(testthat)
  > library(Deriv)
  > 
  > test_check("Deriv")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 715 ]
  > 
  > proc.time()
     user  system elapsed 
     7.15    0.39    7.48
Running 'testthat.R' [166s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(describedata)
  > 
  > test_check("describedata")
  [ FAIL 0 | WARN 7 | SKIP 0 | PASS 13 ]
  
  [ FAIL 0 | WARN 7 | SKIP 0 | PASS 13 ]
  > 
  > proc.time()
     user  system elapsed 
     5.62    0.29    5.90
There are ::: calls to the package's namespace in its code. A package
  almost never needs to use ::: for its own objects:
  '.N' '.Nmiss' '.Q1' '.Q3' '.factorN' '.factorNmiss' '.factorQ1'
  '.factorQ3' '.factormax' '.factormean' '.factormedian' '.factormin'
  '.factorsd' '.max' '.mean' '.median' '.min' '.sd'
Package suggested but not available for checking: 'RDCOMClient'
installed size is  6.8Mb
  sub-directories of 1Mb or more:
    R      1.7Mb
    doc    1.8Mb
    help   1.6Mb
    libs   1.1Mb
Running 'testthat.R' [172s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(designit)
  > 
  > test_check("designit")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 304 ]
  > 
  > proc.time()
     user  system elapsed 
    15.76    0.70   16.46
Running 'testthat.R' [184s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(DesignLibrary)
  Loading required package: DeclareDesign
  Loading required package: randomizr
  Loading required package: fabricatr
  Loading required package: estimatr
  > 
  > test_check(package = "DesignLibrary")
  [1] "The implied ICC in (control) is 0.667"
  [1] "The implied ICC in (control) conditional on block is  0.5"
  [1] "The implied ICC in (control) is 0.667"
  [1] "The implied ICC in (control) conditional on block is  0.5"
  [1] "The implied ICC in (control) is 0.667"
  [1] "The implied ICC in (control) conditional on block is  0.5"
  [1] "The implied ICC in (control) is 0.667"
  [1] "The implied ICC in (control) conditional on block is  0.5"
  [ FAIL 0 | WARN 204 | SKIP 0 | PASS 326 ]
  
  [ FAIL 0 | WARN 204 | SKIP 0 | PASS 326 ]
  > 
  > 
  > proc.time()
     user  system elapsed 
    20.76    1.17   21.98
Running 'spelling.R' [0s]
  Running 'testthat.R' [162s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(desirability2)
  > 
  > test_check("desirability2")
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 14 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On CRAN (2): 'test-in-line.R:44:3', 'test-use-data.R:20:3'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 14 ]
  > 
  > proc.time()
     user  system elapsed 
     1.18    0.21    1.39
Running 'testthat.R' [155s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(desplot)
  > 
  > test_check("desplot")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 17 ]
  > 
  > proc.time()
     user  system elapsed 
     1.89    0.32    2.20
installed size is  5.5Mb
  sub-directories of 1Mb or more:
    data          1.8Mb
    htmlwidgets   3.6Mb
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(detourr)
  > 
  > test_check("detourr")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 21 ]
  > 
  > proc.time()
     user  system elapsed 
     1.40    0.25    1.64
Running 'testthat.R' [188s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > Sys.setenv("R_TESTS" = "")
  > library(testthat)
  > library(dexter)
  > test_check("dexter")
  
      item_id item_score
  1 S4DoShout          2
  2 S4DoShout          1
  
      item_id item_score
  1 S4DoShout          1
  2000 responses imported.
  2000 responses imported.
  
  rules_changed: 1
  rules_added: 0 
  
  rules_changed: 0
  rules_added: 24 
   [1] "S1DoCurse"   "S1DoScold"   "S1DoShout"   "S1WantCurse" "S1WantScold"
   [6] "S1WantShout" "S2DoCurse"   "S2DoScold"   "S2DoShout"   "S2WantCurse"
  [11] "S2WantScold" "S2WantShout" "S3DoCurse"   "S3DoScold"   "S3DoShout"  
  [16] "S3WantCurse" "S3WantScold" "S3WantShout" "S4DoCurse"   "S4DoScold"  
  [21] "S4DoShout"   "S4WantCurse" "S4WantScold" "S4WantShout"
   [1] "S1DoCurse"   "S1DoScold"   "S1DoShout"   "S1WantCurse" "S1WantScold"
   [6] "S1WantShout" "S2DoCurse"   "S2DoScold"   "S2DoShout"   "S2WantCurse"
  [11] "S2WantScold" "S2WantShout" "S3DoCurse"   "S3DoScold"   "S3DoShout"  
  [16] "S3WantCurse" "S3WantScold" "S3WantShout" "S4DoCurse"   "S4DoScold"  
  [21] "S4DoShout"   "S4WantCurse" "S4WantScold" "S4WantShout"
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 212 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On CRAN (2): 'test_latent_cor.R:26:3', 'test_plausible_scores.R:9:3'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 212 ]
  Warning message:
  call dbDisconnect() when finished working with a connection 
  > 
  > 
  > proc.time()
     user  system elapsed 
    27.90    0.71   23.07
Running 'spelling.R' [156s]
  Running 'testthat.R' [1s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if (requireNamespace("spelling", quietly = TRUE))
  +     spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                                skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.20    0.04    0.21
Running 'testthat.R' [156s]
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)
  > library(dfexpand)
  > 
  > test_check("dfexpand")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 18 ]
  > 
  > 
  > proc.time()
     user  system elapsed 
     0.78    0.25    1.01
Running 'testthat.R' [174s]
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)
  > library(dfmirroR)
  > 
  > test_check("dfmirroR")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     1.68    0.31    1.98
Running 'testthat.R' [151s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dfoliatR)
  > 
  > test_check("dfoliatR")
  [ FAIL 0 | WARN 9 | SKIP 3 | PASS 12 ]
  
  ══ Skipped tests (3) ═══════════════════════════════════════════════════════════
  • On CRAN (3): 'test-plots.R:14:3', 'test-plots.R:18:3', 'test-plots.R:23:3'
  
  [ FAIL 0 | WARN 9 | SKIP 3 | PASS 12 ]
  > 
  > proc.time()
     user  system elapsed 
     6.70    0.48    7.18
Running 'testthat.R' [168s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dfvad)
  > 
  > test_check("dfvad")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 39 ]
  > 
  > proc.time()
     user  system elapsed 
     9.82    0.23   10.01
Running 'testthat.R' [175s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dga)
  > 
  > test_check("dga")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 7 ]
  > 
  > proc.time()
     user  system elapsed 
     2.18    0.15    2.54
Running 'testthat.R' [174s]
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)
  > library(DGEAR)
  > 
  > test_check("DGEAR")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 8 ]
  > 
  > proc.time()
     user  system elapsed 
     2.06    0.35    2.40
Running 'testthat.R' [160s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dggridR)
  Loading required package: dplyr
  
  Attaching package: 'dplyr'
  
  The following object is masked from 'package:testthat':
  
      matches
  
  The following objects are masked from 'package:stats':
  
      filter, lag
  
  The following objects are masked from 'package:base':
  
      intersect, setdiff, setequal, union
  
  Loading required package: rlang
  
  Attaching package: 'rlang'
  
  The following objects are masked from 'package:testthat':
  
      is_false, is_null, is_true
  
  Loading required package: sf
  Linking to GEOS 3.11.2, GDAL 3.8.2, PROJ 9.3.1; sf_use_s2() is TRUE
  Loading required package: sp
  > 
  > #test_check("dggridR")
  > 
  > proc.time()
     user  system elapsed 
     1.34    0.26    1.59
Running 'spelling.R' [165s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.20    0.01    0.21
Running 'testthat.R' [158s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dhis2r)
  > 
  > test_check("dhis2r")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 6 ]
  > 
  > proc.time()
     user  system elapsed 
     1.15    0.26    2.57
Running 'testthat.R' [192s]
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)
  > library(dhlabR)
  > 
  > test_check("dhlabR")
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 22 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 22 ]
  > 
  > proc.time()
     user  system elapsed 
     2.09    0.32   18.07
Running 'testthat.R' [152s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(diagonals)
  
  D I
  A G
      O N
      A L
  > 
  > test_check("diagonals")
  [ FAIL 0 | WARN 3 | SKIP 1 | PASS 39 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • empty test (1): 'test_fatdiag.R:86:1'
  
  [ FAIL 0 | WARN 3 | SKIP 1 | PASS 39 ]
  > 
  > proc.time()
     user  system elapsed 
     0.79    0.32    1.11
Running 'testthat.R' [214s]
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)
  > library(DiagrammeR)
  > 
  > test_check("DiagrammeR")
  [ FAIL 0 | WARN 0 | SKIP 24 | PASS 1701 ]
  
  ══ Skipped tests (24) ══════════════════════════════════════════════════════════
  • On CRAN (24): 'test-add_forward_reverse_edges.R:94:3',
    'test-add_graphs.R:41:3', 'test-add_graphs.R:262:3',
    'test-add_graphs.R:1787:3', 'test-add_nodes_edges_from_table.R:684:3',
    'test-cache_attrs.R:38:3', 'test-colorize_nodes_edges.R:415:3',
    'test-create_combine_nodes.R:88:3', 'test-create_subgraph.R:73:3',
    'test-delete_node_edge.R:286:3',
    'test-get_select_last_nodes_edges_created.R:135:3',
    'test-graph_series.R:361:3', 'test-graph_validation.R:17:3',
    'test-graph_validation.R:241:3', 'test-graph_validation.R:301:3',
    'test-render_graph.R:3:3', 'test-selections.R:163:3',
    'test-set_get_node_edge_attrs.R:332:3', 'test-similarity_measures.R:106:3',
    'test-similarity_measures.R:126:3', 'test-transform_graph.R:138:3',
    'test-transform_graph.R:308:3', 'test-trav_out_until.R:73:3',
    'test-traversals.R:148:3'
  
  [ FAIL 0 | WARN 0 | SKIP 24 | PASS 1701 ]
  > 
  > proc.time()
     user  system elapsed 
    41.95    3.28   45.54
Running 'testthat.R' [152s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > 
  > proc.time()
     user  system elapsed 
     0.20    0.06    0.21
Running 'testthat.R' [159s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dialrjars)
  > 
  > test_check("dialrjars")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
  > 
  > proc.time()
     user  system elapsed 
     1.48    0.20    1.42
Running 'testthat.R' [176s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dialr)
  > 
  > test_check("dialr")
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 162 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On CRAN (2): 'test-phone.R:148:3', 'test-tibble.R:24:3'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 162 ]
  > 
  > proc.time()
     user  system elapsed 
    10.35    0.79    7.34
Running 'testthat.R' [323s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(diceR)
  > 
  > test_check("diceR")
  Selecting k and imputing non-clustered cases
  Computing consensus functions
  Evaluating output with consensus function results
  Diverse Cluster Ensemble Completed
  Selecting k and imputing non-clustered cases
  Computing consensus functions
  Evaluating output with consensus function results
  Diverse Cluster Ensemble Completed
  Selecting k and imputing non-clustered cases
  Computing consensus functions
  Evaluating output with consensus function results
  Diverse Cluster Ensemble Completed
  Selecting k and imputing non-clustered cases
  Computing consensus functions
  Diverse Cluster Ensemble Completed
  Selecting k and imputing non-clustered cases
  Computing consensus functions
  Diverse Cluster Ensemble Completed
  Selecting k and imputing non-clustered cases
  Computing consensus functions
  Diverse Cluster Ensemble Completed
  Selecting k and imputing non-clustered cases
  Computing consensus functions
  Diverse Cluster Ensemble Completed
  [ FAIL 0 | WARN 5 | SKIP 0 | PASS 114 ]
  
  [ FAIL 0 | WARN 5 | SKIP 0 | PASS 114 ]
  > 
  > proc.time()
     user  system elapsed 
   156.48    4.01  160.57
Running 'testthat.R' [157s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > test_check("dictionar6")
  Loading required package: dictionar6
  [ FAIL 0 | WARN 2 | SKIP 0 | PASS 166 ]
  
  [ FAIL 0 | WARN 2 | SKIP 0 | PASS 166 ]
  > 
  > proc.time()
     user  system elapsed 
     1.95    0.25    2.20
Running 'testthat.R' [161s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(Dict)
  > 
  > test_check("Dict")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 42 ]
  > 
  > proc.time()
     user  system elapsed 
     1.29    0.18    1.48
installed size is 10.8Mb
  sub-directories of 1Mb or more:
    doc  10.8Mb
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > test_check("diffeqr")
  Loading required package: diffeqr
  [ FAIL 0 | WARN 0 | SKIP 9 | PASS 0 ]
  
  ══ Skipped tests (9) ═══════════════════════════════════════════════════════════
  • On CRAN (9): 'test_dae.R:5:3', 'test_dde.R:5:3', 'test_ode.R:4:3',
    'test_ode.R:19:3', 'test_ode.R:45:3', 'test_sde.R:5:3', 'test_sde.R:25:3',
    'test_sde.R:47:3', 'test_sde.R:70:3'
  
  [ FAIL 0 | WARN 0 | SKIP 9 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     0.98    0.17    1.15
Running 'testthat.R' [167s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > test_check("diffeRenTES")
  Loading required package: diffeRenTES
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 37 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 37 ]
  > 
  > proc.time()
     user  system elapsed 
     1.18    0.29    1.40
Running 'testthat.R' [161s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(diffpriv)
  > 
  > test_check("diffpriv")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 168 ]
  > 
  > proc.time()
     user  system elapsed 
     1.93    0.18    2.11
Documented arguments not in \usage in Rd file 'Nortonbass_startvalgen.Rd':
  'param' 'startvalgen'

Documented arguments not in \usage in Rd file 'seqdiffusion.Rd':
  'w'

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: 'gurobi'
Running 'testthat.R' [253s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(digitalDLSorteR)
  
  Attaching package: 'digitalDLSorteR'
  
  The following object is masked from 'package:base':
  
      saveRDS
  
  > 
  > test_check("digitalDLSorteR")
     user  system elapsed 
     0.18    0.03    0.22 
     user  system elapsed 
     0.17    0.03    0.20 
     user  system elapsed 
      0.2     0.0     0.2 
     user  system elapsed 
     0.16    0.00    0.16 
     user  system elapsed 
      0.2     0.0     0.2 
     user  system elapsed 
     0.13    0.00    0.13 
  [1] "is here"
  [ FAIL 0 | WARN 0 | SKIP 7 | PASS 125 ]
  
  ══ Skipped tests (7) ═══════════════════════════════════════════════════════════
  • .checkPythonDependencies(alert = "none") is not TRUE (7):
    'test_dnnModel.R:3:1', 'test_evalMetrics.R:3:1', 'test_utils.R:121:5',
    'test_utils.R:149:5', 'test_utils.R:214:5', 'test_utils.R:277:5',
    'test_utils.R:304:5'
  
  [ FAIL 0 | WARN 0 | SKIP 7 | PASS 125 ]
  > 
  > proc.time()
     user  system elapsed 
    43.45    2.95   80.15
Running 'testthat.R' [156s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(digitize)
  > 
  > test_check("digitize")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
  > 
  > proc.time()
     user  system elapsed 
     0.65    0.29    0.90
Running 'testthat.R' [175s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(digitTests)
  > 
  > test_check("digitTests")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 40 ]
  > 
  > proc.time()
     user  system elapsed 
    13.48    0.70   14.15
Running 'spelling.R' [160s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.15    0.06    0.20
Running 'testthat.R' [171s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dint)
  > 
  > test_check("dint")
  [ FAIL 0 | WARN 2 | SKIP 2 | PASS 1271 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • empty test (1): 'test_date_xx.R:46:1'
  • not yet (1): 'test_scale_date_xx.R:95:3'
  
  [ FAIL 0 | WARN 2 | SKIP 2 | PASS 1271 ]
  > 
  > proc.time()
     user  system elapsed 
     6.18    0.68    6.89
Running 'testthat.R' [171s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dipsaus)
  > 
  > test_check("dipsaus")
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 45 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test.async_apply.R:5:3'
  • empty test (1): 'test.zzz.R:2:1'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 45 ]
  > 
  > 
  > proc.time()
     user  system elapsed 
     2.09    0.18    2.71
Running 'ggplot.R' [23s]
  Running 'methods.R' [165s]
  Running 'testthat.R' [151s]
  Running 'unattached.R' [2s]
Running the tests in 'tests/methods.R' failed.
Complete output:
  > library(directlabels)
  > if(require(lattice) && require(nlme)){
  +   data(BodyWeight, package="nlme")
  +   oldopt <- lattice.options(panel.error=NULL)
  +   p <- xyplot(weight~Time|Diet,BodyWeight,groups=Rat,type='l',
  +               layout=c(3,1),xlim=c(-10,75))
  +   stop.if.same.colour <- function(d, ...){
  +     col.tab <- table(d$colour)
  +     if(1 == length(col.tab)){
  +       print(d)
  +       stop("only one colour")
  +     }
  +     d
  +   }
  +   dl <- direct.label(p, list("angled.boxes", "stop.if.same.colour"))
  +   print(dl)
  +   lattice.options(oldopt)
  + }
  Loading required package: lattice
  Loading required package: nlme
  
  Attaching package: 'nlme'
  
  The following object is masked from 'package:directlabels':
  
      gapply
  
  > 
  > proc.time()
     user  system elapsed 
     0.90    0.07    0.96 
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > if(require(testthat))test_check("directlabels")
  Loading required package: testthat
  Loading required package: directlabels
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 2 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 2 ]
  > 
  > proc.time()
     user  system elapsed 
     1.50    0.31    1.79
Running 'testthat.R' [206s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dirichletprocess)
  > 
  > test_check("dirichletprocess")
  Accept Ratio:  0.022 
  Accept Ratio:  0.025 
  Accept Ratio:  0.022 
  Accept Ratio:  0.008 
  Accept Ratio:  2 
  Accept Ratio:  2 
  Accept Ratio:  2 
  Accept Ratio:  2 
  Accept Ratio:  0.017 
  [ FAIL 0 | WARN 2 | SKIP 7 | PASS 528 ]
  
  ══ Skipped tests (7) ═══════════════════════════════════════════════════════════
  • Skip Table Update (1): 'test_table_update.R:9:3'
  • Table Update (1): 'test_table_update.R:40:3'
  • empty test (5): 'test_beta_uniform_gamma.R:314:1',
    'test_dirichlet_process_hierarchical_beta.R:4:1',
    'test_global_parameter_update.R:100:1',
    'test_mvnormal_normal_wishart.R:154:1', 'test_weibull_uniform_gamma.R:82:1'
  
  [ FAIL 0 | WARN 2 | SKIP 7 | PASS 528 ]
  > 
  > proc.time()
     user  system elapsed 
    34.68    1.45   36.14
Running 'testthat.R' [176s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library("testthat")
  > 
  > test_check("DirichletReg")
  Loading required package: DirichletReg
  Loading required package: Formula
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 152 ]
  > 
  > proc.time()
     user  system elapsed 
     2.09    0.21    2.29
installed size is 13.3Mb
  sub-directories of 1Mb or more:
    libs  12.8Mb
installed size is  5.1Mb
  sub-directories of 1Mb or more:
    libs   4.3Mb
Running 'testthat.R' [158s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(disclapmix2)
  > 
  > test_check("disclapmix2")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 5 ]
  > 
  > proc.time()
     user  system elapsed 
     2.45    0.31    2.75
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(disclapmix)
  > 
  > test_check("disclapmix")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 53 ]
  > 
  > proc.time()
     user  system elapsed 
     6.53    3.20    9.71
Running 'testthat.R' [198s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(discord)
  > 
  > test_check("discord")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 28 ]
  > 
  > proc.time()
     user  system elapsed 
    26.35    0.25   26.59
Running 'testthat.R' [170s]
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)
  > library(discourseGT)
  > 
  > test_check("discourseGT")
  [ FAIL 0 | WARN 14 | SKIP 0 | PASS 35 ]
  
  [ FAIL 0 | WARN 14 | SKIP 0 | PASS 35 ]
  > 
  > proc.time()
     user  system elapsed 
     3.68    0.59    4.28
Running 'testthat.R' [174s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(discretefit)
  > library(dgof)
  
  Attaching package: 'dgof'
  
  The following object is masked from 'package:stats':
  
      ks.test
  
  > 
  > test_check("discretefit")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 9 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-results.R:48:1'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 9 ]
  > 
  > proc.time()
     user  system elapsed 
     3.53    0.35    3.86
Invalid package aliases in Rd file 'RV.Rd':
  'RV-package'
Running 'spelling.R' [0s]
  Running 'testthat.R' [172s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(discrim)
  Loading required package: parsnip
  > 
  > test_check("discrim")
  [ FAIL 0 | WARN 0 | SKIP 6 | PASS 716 ]
  
  ══ Skipped tests (6) ═══════════════════════════════════════════════════════════
  • On CRAN (6): 'test-linear-lda.R:112:3', 'test-linear-sparsediscrim.R:199:3',
    'test-naive-Bayes.R:185:3', 'test-naive-Bayes_naivebayes.R:194:3',
    'test-quad-qda.R:123:3', 'test-rda.R:96:3'
  
  [ FAIL 0 | WARN 0 | SKIP 6 | PASS 716 ]
  > 
  > proc.time()
     user  system elapsed 
    10.90    1.21   12.14
installed size is  6.1Mb
  sub-directories of 1Mb or more:
    doc       1.5Mb
    extdata   4.2Mb
Running 'spelling.R' [0s]
  Running 'testthat.R' [419s]
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)
  > 
  > test_check("diseasystore")
  Loading required package: diseasystore
  #####
  Following backends will be tested:
     SQLite
  ####
  This message is displayed once per session.
  [ FAIL 0 | WARN 1 | SKIP 1 | PASS 565 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • remote_data_available is not TRUE (1):
    'test-DiseasystoreEcdcRespitoryViruses.R:7:1'
  
  [ FAIL 0 | WARN 1 | SKIP 1 | PASS 565 ]
  Warning message:
  call dbDisconnect() when finished working with a connection 
  > 
  > proc.time()
     user  system elapsed 
   254.09   50.70  264.45
Running 'testthat.R' [168s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library("testthat")
  > 
  > test_check("disordR")
  Loading required package: disordR
  Loading required package: Matrix
  v + w
  v - w
  v + 1:2
  v - 1:2
  jj + jj[1:10]
  jj == rev(jj)
  disord(1:9) + 1:9
  NULL
  NULL
  NULL
  a[a < 3] + a[a > 7]
  .local(x = x, i = i, j = j, value = value)
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 144 ]
  > 
  > proc.time()
     user  system elapsed 
     2.85    0.37    3.21
Running 'testthat.R' [168s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dispositionEffect)
  --------------------------------------------
  The dispositionEffect is the first R package to perform behavioural analysis on financial data.
  Use citation('dispositionEffect') to cite the package.
  Learn more at: https://marcozanotti.github.io/dispositionEffect/index.html
  --------------------------------------------
  > 
  > test_check("dispositionEffect")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 367 ]
  > 
  > proc.time()
     user  system elapsed 
     7.43    0.43    7.85
Running 'testthat.R' [227s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(Distance)
  Loading required package: mrds
  This is mrds 2.3.0
  Built: R 4.4.0; ; 2024-03-23 04:45:43 UTC; windows
  
  **Change to default variance estimator for point transects. The default encounter rate variance estimator for point transects is now 'P2' (changed from 'P3'). See 'Uncertainty' section of ?dht for more information.**
  
  MCDS.exe not detected, single observer analyses will only be run using optimiser in mrds R library. See ?MCDS for details.
  
  Attaching package: 'Distance'
  
  The following object is masked from 'package:mrds':
  
      create.bins
  
  > 
  > test_check("Distance")
  [ FAIL 0 | WARN 0 | SKIP 29 | PASS 162 ]
  
  ══ Skipped tests (29) ══════════════════════════════════════════════════════════
  • On CRAN (26): 'test_adjustments.R:16:3', 'test_adjustments.R:54:3',
    'test_adjustments.R:93:3', 'test_bootdht.R:5:3', 'test_bootdht.R:114:3',
    'test_bootdht.R:169:3', 'test_cuecounts.R:25:3', 'test_cuecounts.R:86:3',
    'test_dht.R:14:3', 'test_dht.R:40:3', 'test_ds.R:75:3', 'test_ds.R:141:3',
    'test_ds.R:158:3', 'test_ds.R:188:3', 'test_ds.R:211:3', 'test_ds.R:246:3',
    'test_minke.R:56:3', 'test_minke.R:95:3', 'test_minke.R:130:3',
    'test_minke.R:173:3', 'test_minke.R:246:3', 'test_minke.R:266:3',
    'test_minke.R:306:3', 'test_replicate.R:6:3', 'test_summarize.R:14:3',
    'test_summarize.R:43:3'
  • empty test (3): 'test_ptexercise.R:10:1', 'test_ptexercise.R:51:1',
    'test_ptexercise.R:58:1'
  
  [ FAIL 0 | WARN 0 | SKIP 29 | PASS 162 ]
  > 
  > proc.time()
     user  system elapsed 
    66.46    1.59   68.15
Running 'testthat.R' [253s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(distillML)
  > packageVersion("distillML")
  [1] '0.1.0.13'
  > 
  > test_check("distillML")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 86 ]
  > 
  > proc.time()
     user  system elapsed 
   307.31   95.67   75.37
Running 'spelling.R' [0s]
  Running 'testthat.R' [165s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(Distributacalcul)
  > 
  > test_check("Distributacalcul")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
  > 
  > proc.time()
     user  system elapsed 
     0.70    0.10    0.81
Running 'testthat.R' [155s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(distributionsrd)
  > 
  > test_check("distributionsrd")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 90 ]
  > 
  > proc.time()
     user  system elapsed 
     4.40    0.54    4.92
Running 'spelling.R' [163s]
  Running 'testthat.R' [31s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if (requireNamespace("spelling", quietly = TRUE)) {
  +   spelling::spell_check_test(
  +     vignettes = TRUE, error = FALSE,
  +     skip_on_cran = TRUE
  +   )
  + }
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.15    0.04    0.17
Running 'testthat.R' [204s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dittoViz)
  Loading required package: ggplot2
  > test_check("dittoViz")
  [ FAIL 0 | WARN 12 | SKIP 0 | PASS 332 ]
  
  [ FAIL 0 | WARN 12 | SKIP 0 | PASS 332 ]
  > 
  > proc.time()
     user  system elapsed 
    40.50    1.28   41.89
Package suggested but not available for checking: 'BOLTSSIRR'
Running 'testthat.R' [173s]
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)
  > library(divraster)
  Welcome to divraster!
  To acknowledge our work use: citation('divraster')
  > 
  > test_check("divraster")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 59 ]
  > 
  > proc.time()
     user  system elapsed 
    14.68    0.96   15.70
Running 'testthat.R' [280s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(divvy)
  > 
  > test_check("divvy")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 37 ]
  > 
  > proc.time()
     user  system elapsed 
   103.04    2.04  105.18
Running 'testthat.R' [162s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(DIZutils)
  > 
  > test_check("DIZutils")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 39 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-lints.R:30:5'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 39 ]
  > 
  > proc.time()
     user  system elapsed 
     0.76    0.12    0.85
Running 'testthat.R' [194s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > # Workaround https://github.com/hadley/testthat/issues/144
  > Sys.setenv(R_TESTS="")
  > 
  > library(testthat)
  > library(httptest)
  > library(dkanr)
  > 
  > 
  > test_check("dkanr")
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 92 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 92 ]
  > 
  > proc.time()
     user  system elapsed 
    31.32    3.17   34.48
installed size is 16.9Mb
  sub-directories of 1Mb or more:
    include  15.8Mb
installed size is 14.2Mb
  sub-directories of 1Mb or more:
    libs  13.5Mb
Problems with news in 'NEWS.md':
  Cannot extract version info from the following section titles:
    Changes to previous versions
    Minor changes
    Fixes
    Previous Versions
Argument items with no description in Rd file 'dml_bagging.Rd':
  'y,x,d,data,sed'
Argument items with no description in Rd file 'dml_boosting.Rd':
  'y,x,d,data,sed'
Argument items with no description in Rd file 'dml_ensemble_lm.Rd':
  'y,x,d,data,sed'
Argument items with no description in Rd file 'dml_ensemble_rf.Rd':
  'y,x,d,data,sed'
Argument items with no description in Rd file 'dml_neural_network.Rd':
  'y,x,d,data,sed'
Argument items with no description in Rd file 'dml_random_forest.Rd':
  'y,x,d,data,sed'
Running 'testthat.R' [169s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dmtools)
  
  Attaching package: 'dmtools'
  
  The following object is masked from 'package:base':
  
      date
  
  > 
  > test_check("dmtools")
  [ FAIL 0 | WARN 16 | SKIP 0 | PASS 24 ]
  
  [ FAIL 0 | WARN 16 | SKIP 0 | PASS 24 ]
  > 
  > proc.time()
     user  system elapsed 
     4.00    0.37    4.35
Invalid package aliases in Rd file 'dnapath2-package.Rd':
  'dnapath2-package'
Auto-generated content requiring editing in Rd file 'dnapath2-package.Rd':
  \references: 'This optional section can contain literature or other refere...'
  \seealso: 'Optional links to other man pages'
  \examples: '\dontrun{      ## Optional simple examples of the most impor...'
Running 'testthat.R' [163s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dnapath)
  > 
  > test_check("dnapath")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 86 ]
  > 
  > proc.time()
     user  system elapsed 
     7.23    0.32    7.56
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(DNH4)
  > 
  > test_check("DNH4")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
  > 
  > proc.time()
     user  system elapsed 
     2.98    0.35    3.32
S3 methods shown with full name in Rd file 'add.joint.mean.many.Rd':
  'all.cond.mean.PO' 'all.cond.mean2.PO'

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.
Argument items with no description in Rd file 'derivType.Rd':
  'L' 'mu' 'eps'
Argument items with no description in Rd file 'getNewParams.SC.Rd':
  'n.fft'
Argument items with no description in Rd file 'graph.CTMC.Rd':
  '\dots'
Argument items with no description in Rd file 'num.deriv.Rd':
  '\dots'
Argument items with no description in Rd file 'power.coef.one.Rd':
  '\dots'
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(doc2concrete)
  doc2concrete v0.6.0 successfully loaded. See ?doc2concrete for help.
  > 
  > test_check("doc2concrete")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 21 ]
  > 
  > proc.time()
     user  system elapsed 
    12.67    0.75   13.46
installed size is  6.0Mb
  sub-directories of 1Mb or more:
    data   4.8Mb
    libs   1.1Mb
Running 'testthat.R' [178s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(docopulae)
  > 
  > test_check("docopulae")
  d/d x
  d/d mu
  d/d sigma
  d/d 2
  d/d 1
  d/d 3
  d/d x
  d/d mu
  d/d sigma
  d^2/d x d x
  d^2/d mu d mu
  d^2/d sigma d sigma
  d^2/d x d mu
  d^2/d x d sigma
  d^2/d mu d sigma
  d/d 2
  d/d 1
  d/d 3
  d^2/d 2 d 2
  d^2/d 1 d 1
  d^2/d 3 d 3
  d^2/d 2 d 1
  d^2/d 2 d 3
  d^2/d 1 d 3
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 155 ]
  > 
  > proc.time()
     user  system elapsed 
    10.68    0.35   11.01
Running 'testthat.R' [158s]
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)
  > library(doctest)
  > 
  > test_check("doctest")
  Deleting 'test-doctest-add.R'
  Deleting 'test-doctest-palindrome.R'
  Deleting 'test-doctest-palindrome_letters.R'
  Deleting 'test-doctest-safe_mean.R'
  Deleting 'test-doctest-safe_var.R'
  x <text>:2: @doctest has mismatched braces or quotes.
  [ FAIL 0 | WARN 0 | SKIP 14 | PASS 16 ]
  
  ══ Skipped tests (14) ══════════════════════════════════════════════════════════
  • On CRAN (14): 'test-rd-roclet.R:17:3', 'test-rd-roclet.R:57:3',
    'test-rd-roclet.R:82:3', 'test-tag-doctest.R:14:3',
    'test-tag-doctest.R:56:3', 'test-tag-doctestExample.R:14:3',
    'test-tag-expect.R:11:3', 'test-tag-expectRaw.R:10:3',
    'test-tag-snap.R:11:3', 'test-tag-testRaw.R:12:3', 'test-variations.R:91:3',
    'test-variations.R:107:3', 'test-variations.R:123:3',
    'test-variations.R:143:3'
  
  [ FAIL 0 | WARN 0 | SKIP 14 | PASS 16 ]
  Deleting unused snapshots:
  • rd-roclet/palindrome.Rd
  • rd-roclet/safe_mean.Rd
  > 
  > proc.time()
     user  system elapsed 
     4.09    0.51    4.61
Running 'testthat.R' [168s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(docuSignr)
  > 
  > test_check("docuSignr")
  [ FAIL 0 | WARN 0 | SKIP 16 | PASS 0 ]
  
  ══ Skipped tests (16) ══════════════════════════════════════════════════════════
  • On CRAN (16): 'test-1-login.R:4:3', 'test-1-login.R:11:3',
    'test-1-login.R:17:3', 'test-2-signing.R:4:3', 'test-2-signing.R:24:3',
    'test-2-signing.R:30:3', 'test-2-signing.R:43:3', 'test-3-sending.R:4:3',
    'test-3-sending.R:24:3', 'test-3-sending.R:30:3', 'test-3-sending.R:43:3',
    'test-4-envelope.R:5:3', 'test-4-envelope.R:12:3', 'test-4-envelope.R:19:3',
    'test-5-download.R:4:3', 'test-5-download.R:16:3'
  
  [ FAIL 0 | WARN 0 | SKIP 16 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     1.12    0.15    1.26
installed size is  8.7Mb
  sub-directories of 1Mb or more:
    doc    6.5Mb
    libs   1.6Mb
Package which this enhances but not available for checking: 'gurobi'
Running 'testthat.R' [176s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(DOEM)
  > 
  > test_check("DOEM")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     0.53    0.10    0.62
Running 'testthat.R' [159s]
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)
  > library(dogesr)
  > 
  > test_check("dogesr")
  
  Attaching package: 'igraph'
  
  The following object is masked from 'package:testthat':
  
      compare
  
  The following objects are masked from 'package:stats':
  
      decompose, spectrum
  
  The following object is masked from 'package:base':
  
      union
  
  This graph was created by an old(er) igraph version.
    Call upgrade_graph() on it to use with the current igraph version
    For now we convert it on the fly...
  [ FAIL 0 | WARN 3 | SKIP 0 | PASS 244 ]
  
  [ FAIL 0 | WARN 3 | SKIP 0 | PASS 244 ]
  > 
  > proc.time()
     user  system elapsed 
     2.71    0.53    3.23
Running 'testthat.R' [191s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dominanceanalysis)
  > 
  > test_check("dominanceanalysis")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 209 ]
  > 
  > proc.time()
     user  system elapsed 
    21.81    0.84   22.65
Running 'testthat.R' [149s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(donut)
  > 
  > test_check("donut")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 29 ]
  > 
  > proc.time()
     user  system elapsed 
     1.42    0.20    1.60
installed size is  6.3Mb
  sub-directories of 1Mb or more:
    R         2.0Mb
    data      1.9Mb
    extdata   2.3Mb
Running 'testthat.R' [167s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(DOPE)
  
  Attaching package: 'DOPE'
  
  The following object is masked from 'package:base':
  
      parse
  
  > 
  > test_check("DOPE")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 21 ]
  > 
  > proc.time()
     user  system elapsed 
     2.46    0.54    2.98
Problems with news in 'NEWS.md':
  Cannot extract version info from the following section titles:
    New features
Running 'run-all.R' [173s]
Running the tests in 'tests/run-all.R' failed.
Complete output:
  > require("RhpcBLASctl"); omp_set_num_threads(1)
  Loading required package: RhpcBLASctl
  > # to address:
  > # * checking tests ... [10s/1s] NOTE
  > #   Running ‘run-all.R’ [10s/1s]
  > #   Running R code in ‘run-all.R’ had CPU time 10.5 times elapsed time
  > 
  > library(testthat)
  > test_check('dotCall64')
  Loading required package: dotCall64
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 145 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-long_int64.R:5:5'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 145 ]
  > 
  > proc.time()
     user  system elapsed 
     1.09    0.26    1.35
Running 'testthat.R' [167s]
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)
  > library(dots)
  > 
  > test_check("dots")
  Linking to GEOS 3.11.2, GDAL 3.8.2, PROJ 9.3.1; sf_use_s2() is TRUE
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     6.78    0.37    7.15
Running 'testthat_regression_tests.R' [354s]
Running the tests in 'tests/testthat_regression_tests.R' failed.
Complete output:
  > 
  > library("testthat")
  > library("patrick")
  > library("DoubleML")
  > 
  > testthat::test_check("DoubleML")
  [ FAIL 0 | WARN 0 | SKIP 11 | PASS 452 ]
  
  ══ Skipped tests (11) ══════════════════════════════════════════════════════════
  • On CRAN (11): 'test-double_ml_datasets.R:15:1',
    'test-double_ml_pliv_multi_z_parameter_passing.R:7:1',
    'test-double_ml_pliv_partial_x.R:5:1',
    'test-double_ml_pliv_partial_xz.R:7:1',
    'test-double_ml_pliv_partial_xz_parameter_passing.R:5:1',
    'test-double_ml_pliv_partial_z.R:5:1',
    'test-double_ml_pliv_partial_z_parameter_passing.R:5:1',
    'test-double_ml_print.R:16:3', 'test-double_ml_print.R:22:3',
    'test-double_ml_print.R:28:3', 'test-double_ml_print.R:34:3'
  
  [ FAIL 0 | WARN 0 | SKIP 11 | PASS 452 ]
  > 
  > proc.time()
     user  system elapsed 
   180.20    4.73  185.85
Running 'testthat.R' [150s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(doubt)
  
  Attaching package: 'doubt'
  
  The following object is masked from 'package:utils':
  
      ?
  
  > 
  > test_check("doubt")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 81 ]
  > 
  > proc.time()
     user  system elapsed 
     1.12    0.18    1.31
Running 'testthat.R' [161s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(Dowd)
  Loading required package: bootstrap
  Loading required package: MASS
  Loading required package: forecast
  > 
  > test_check("Dowd")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 41 ]
  > 
  > proc.time()
     user  system elapsed 
     2.00    0.35    2.34
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    assets   2.9Mb
    doc      2.1Mb
Running 'spelling.R' [158s]
  Running 'testthat.R' [4s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if (requireNamespace("spelling", quietly = TRUE)) {
  +   spelling::spell_check_test(
  +     vignettes = TRUE, error = FALSE,
  +     skip_on_cran = TRUE
  +   )
  + }
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.20    0.01    0.20
Running 'testthat.R' [163s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dPCP)
  > 
  > test_check("dPCP")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     1.10    0.32    1.43
Installation failed.
See 'd:/Rcompile/CRANpkg/local/4.4/dplyr.Rcheck/00install.out' for details.
Running 'testthat.R' [272s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dpm)
  Loading required package: lavaan
  This is lavaan 0.6-17
  lavaan is FREE software! Please report any bugs.
  > library(methods)
  > 
  > test_check("dpm")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 91 ]
  > 
  > proc.time()
     user  system elapsed 
   106.82    9.67  116.50
Running 'testthat.R' [173s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(DQAgui)
  > 
  > local_edition(3)
  > 
  > test_check("DQAgui")
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 0 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On CRAN (2): 'test-lints.R:30:5', 'test-shinyapp.R:22:3'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     1.01    0.25    1.25
Running 'spelling.R' [0s]
  Running 'testthat.R' [163s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dracor)
  > 
  > test_check("dracor")
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 6 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-decode.R:22:3'
  • empty test (1): 'test-decode.R:48:1'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 6 ]
  > 
  > proc.time()
     user  system elapsed 
     0.84    0.18    1.01
Running 'simpleTests.R' [0s]
  Running 'skeleton_git2r.R' [43s]
  Running 'testArmBinary.R' [0s]
  Running 'testBig-sur-x86_64Binary.R' [172s]
  Running 'version.R' [0s]
Running the tests in 'tests/testBig-sur-x86_64Binary.R' failed.
Complete output:
  > 
  > isIntelMac <- .Platform$pkgType == "mac.binary.big-sur-x86_64"
  > isRVersion4.3 <- getRversion() >= "4.3.0" && getRversion() < "4.4.0"
  > options("dratBranch" = "docs")
  > 
  > repodir <- tempdir()
  > docsdir <- file.path(repodir, "docs")
  > if (!dir.exists(docsdir)) dir.create(docsdir)
  > cat("<!doctype html><title>empty</title>", file=file.path(docsdir, "index.html"))
  > 
  > isWindows <- Sys.info()[["sysname"]] == "Windows"
  > 
  > if (!isWindows) {                             # this is the default case of a source package
  +     pkg <- system.file("extdata", "src", "bar_1.1.tar.gz", package="drat")
  +     drat::insertPackage(file = pkg, repodir = repodir)
  +     
  +     avpkg <- available.packages(repos=file.path("file:", docsdir))
  +     
  +     good <- avpkg[1,1] == "bar" && avpkg[1,2] == "1.1"
  +     if (!good) stop("Package round-turn failed for big-sur-x86_64 source package")
  + }
  > 
  > 
  > 
  > if (isIntelMac && isRVersion4.3) {
  +     pkg <- system.file("extdata", "big-sur-x86_64", "bin", "4.3", "bar_1.1.tgz", package="drat")
  +     drat::insertPackage(file = pkg, repodir = repodir, action = "prune")
  +     avpkg <- available.packages(repos=file.path("file:", docsdir))
  +     
  +     good <- avpkg[1,1] == "bar" && avpkg[1,2] == "1.1"
  +     if (!good) stop("Package round-turn failed for big-sur-x86_64 binary package")
  + }
  > 
  > proc.time()
     user  system elapsed 
     0.18    0.06    0.18
Running 'test1.R' [2s]
  Running 'test2.R' [158s]
  Running 'test3.R' [2s]
Running the tests in 'tests/test2.R' failed.
Complete output:
  > ## Test provided by Pamela Hutchinson 2007-02-05
  > 
  > #pam <- read.csv("c://stat//projects//R//drcurves//r-part//pkgfolder//drc//tests//test2.redroot_dose.csv")
  > pam <- read.csv("test2.redroot_dose.csv")
  > 
  > library(drc)
  Loading required package: MASS
  
  'drc' has been loaded.
  
  Please cite R and 'drc' if used for a publication,
  for references type 'citation()' and 'citation('drc')'.
  
  
  Attaching package: 'drc'
  
  The following objects are masked from 'package:stats':
  
      gaussian, getInitial
  
  > 
  > ## Initial model: different parameters for the resistant curve
  > ##  and for the susceptible curve
  > 
  > ## Temporarily taken out (May 23 2009)
  > 
  > #m1 <- drm(biomass~dose, population, data=pam, fct=LL.4(method = "3"))
  > #summary(m1)
  > #plot(m1)
  > 
  > 
  > ## Reduced model: common slope, lower and upper parameter for both curves,
  > ##  but e/ED50 parameters differ
  > 
  > #m2 <- drm(biomass~dose, population, data=pam, fct=LL.4(method = "3"), pmodels=data.frame(1,1,1,population))
  > #summary(m2)
  > #plot(m2)
  > #anova(m2,m1)
  > 
  > ## Further reduced model: all parameters in common
  > ##  This model is too simple: it is rejected
  > 
  > #m3 <- drm(biomass~dose, population, data=pam, fct=LL.4(method = "3"), pmodels=data.frame(1,1,1,1))
  > #summary(m3)
  > #plot(m3)
  > #anova(m3,m2)
  > 
  > 
  > ## Final model is 'm2' with different ED50 values for resistant and susceptible,
  > ##  but the remaining parameters in common
  > 
  > 
  > proc.time()
     user  system elapsed 
     1.73    0.25    1.90
Running 'spelling.R' [169s]
  Running 'testthat.R' [218s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.17    0.09    0.21 
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(DRDID)
  > 
  > test_check("DRDID")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 117 ]
  > 
  > proc.time()
     user  system elapsed 
    40.06    7.73   47.84
Running 'testthat.R' [377s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dreamer)
  > 
  > test_check("dreamer")
  [ FAIL 0 | WARN 1452 | SKIP 26 | PASS 5341 ]
  
  ══ Skipped tests (26) ══════════════════════════════════════════════════════════
  • On CRAN (26): 'test-plots.R:85:3', 'test-plots.R:93:3', 'test-plots.R:107:3',
    'test-plots.R:116:3', 'test-plots.R:132:3', 'test-plots.R:141:3',
    'test-plots.R:149:3', 'test-plots.R:157:3', 'test-plots.R:165:3',
    'test-plots.R:173:3', 'test-plots.R:181:3', 'test-plots.R:195:3',
    'test-plots.R:206:3', 'test-plots.R:223:3', 'test-plots.R:231:3',
    'test-plots.R:243:3', 'test-plots.R:264:3', 'test-plots.R:285:3',
    'test-plots.R:298:3', 'test-plots.R:320:3', 'test-plots.R:342:3',
    'test-plots.R:383:3', 'test-posterior.R:124:3', 'test-posterior.R:156:3',
    'test-print.R:29:3', 'test-print.R:76:3'
  
  [ FAIL 0 | WARN 1452 | SKIP 26 | PASS 5341 ]
  > 
  > proc.time()
     user  system elapsed 
   199.25    8.98  208.78
installed size is  5.3Mb
  sub-directories of 1Mb or more:
    data      1.6Mb
    extdata   3.2Mb
installed size is  6.0Mb
  sub-directories of 1Mb or more:
    doc   2.9Mb
Running 'testthat.R' [160s]
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)
  > library(dropout)
  > 
  > test_check("dropout")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 13 ]
  > 
  > proc.time()
     user  system elapsed 
     1.23    0.18    1.40
Running 'testthat.R' [188s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(drord)
  drord: Doubly robust estimators for ordinal outcomes
  Version: 1.0.1
  > 
  > test_check("drord")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 30 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • empty test (1): 'testthat-adaptive_iptw.R:6:1'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 30 ]
  > 
  > proc.time()
     user  system elapsed 
    34.85    2.43   37.23
Installation failed.
See 'd:/Rcompile/CRANpkg/local/4.4/DRviaSPCN.Rcheck/00install.out' for details.
Running 'spelling.R' [149s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.14    0.10    0.23
installed size is  5.2Mb
  sub-directories of 1Mb or more:
    appinformation   4.1Mb
Running 'testthat.R' [220s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(DSAIRM)
  Loading required package: shiny
  Welcome to the DSAIRM package. Type dsairmmenu() to get started.
  > 
  > test_check("DSAIRM")
  [ FAIL 0 | WARN 2 | SKIP 1 | PASS 73 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-generate_shinyinput.R:8:13'
  
  [ FAIL 0 | WARN 2 | SKIP 1 | PASS 73 ]
  > 
  > proc.time()
     user  system elapsed 
    58.28    2.56   60.84
Running 'testthat.R' [153s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library("testthat")
  > library("dplyr")
  
  Attaching package: 'dplyr'
  
  The following object is masked from 'package:testthat':
  
      matches
  
  The following objects are masked from 'package:stats':
  
      filter, lag
  
  The following objects are masked from 'package:base':
  
      intersect, setdiff, setequal, union
  
  > library("dscore")
  > 
  > test_check("dscore")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 14 ]
  > 
  > proc.time()
     user  system elapsed 
     1.95    0.28    2.21
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(DSjobtracker)
  > 
  > test_check("DSjobtracker")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     0.43    0.10    0.53
Running 'spelling.R' [155s]
  Running 'testthat.R' [159s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.10    0.09    0.18 
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dsmisc)
  > 
  > test_check("dsmisc")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 3 ]
  > 
  > proc.time()
     user  system elapsed 
     0.56    0.17    0.71
Package suggested but not available for checking: 'dsBaseClient'
Running 'testthat.R' [162s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dsm)
  Loading required package: mgcv
  Loading required package: nlme
  This is mgcv 1.9-1. For overview type 'help("mgcv-package")'.
  Loading required package: mrds
  This is mrds 2.3.0
  Built: R 4.4.0; ; 2024-03-23 04:45:43 UTC; windows
  
  **Change to default variance estimator for point transects. The default encounter rate variance estimator for point transects is now 'P2' (changed from 'P3'). See 'Uncertainty' section of ?dht for more information.**
  
  MCDS.exe not detected, single observer analyses will only be run using optimiser in mrds R library. See ?MCDS for details.
  Loading required package: numDeriv
  This is dsm 2.3.3
  Built: R 4.4.0; ; 2024-03-23 04:47:36 UTC; windows
  > 
  > # uncomment for tests
  > test_package("dsm")
  No installed testthat tests found for dsm
  > 
  > proc.time()
     user  system elapsed 
     2.06    0.29    2.34
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > if(require(testthat, quietly = TRUE)){
  +   library(dsrTest)
  +   test_check("dsrTest")
  + }
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 5 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • empty test (1): 'test-alternatives.R:61:1'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 5 ]
  > 
  > proc.time()
     user  system elapsed 
     2.43    0.37    2.76
Running 'test-that.R' [225s]
Running the tests in 'tests/test-that.R' failed.
Complete output:
  > library(testthat)
  > library(dssd)
  > 
  > test_check("dssd", filter = "check_.*")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 167 ]
  > 
  > 
  > proc.time()
     user  system elapsed 
    35.79   17.76   53.56
Running 'testthat.R' [178s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(DSSP)
  > 
  > test_check("DSSP")
  `geom_smooth()` using formula = 'y ~ x'
  `geom_smooth()` using formula = 'y ~ x'
  [ FAIL 0 | WARN 2 | SKIP 0 | PASS 13 ]
  
  [ FAIL 0 | WARN 2 | SKIP 0 | PASS 13 ]
  > 
  > proc.time()
     user  system elapsed 
    14.75    0.79   15.48
Running 'testthat.R' [168s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dst)
  > 
  > test_check("dst")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 93 ]
  > 
  > proc.time()
     user  system elapsed 
     1.43    0.20    1.62
Running 'testthat.R' [150s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dtangle)
  > 
  > test_check("dtangle")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     0.57    0.18    0.73
Running 'testthat.R' [155s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dtpcrm)
  > 
  > test_check("dtpcrm")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 26 ]
  > 
  > proc.time()
     user  system elapsed 
     2.35    0.17    2.53
Running 'testthat.R' [165s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dtplyr)
  > 
  > test_check("dtplyr")
  [ FAIL 0 | WARN 1 | SKIP 35 | PASS 752 ]
  
  ══ Skipped tests (35) ══════════════════════════════════════════════════════════
  • On CRAN (33): 'test-count.R:22:3', 'test-step-call-pivot_longer.R:57:3',
    'test-step-call-pivot_longer.R:92:3', 'test-step-call-pivot_longer.R:145:3',
    'test-step-call-pivot_wider.R:108:3', 'test-step-call-pivot_wider.R:139:3',
    'test-step-call-pivot_wider.R:152:3', 'test-step-call-pivot_wider.R:158:3',
    'test-step-call.R:65:3', 'test-step-call.R:72:3', 'test-step-call.R:183:3',
    'test-step-colorder-relocate.R:65:3', 'test-step-colorder.R:28:3',
    'test-step-colorder.R:44:3', 'test-step-group.R:29:3',
    'test-step-join.R:354:3', 'test-step-mutate.R:156:3',
    'test-step-subset-filter.R:114:3', 'test-step-subset-select.R:45:3',
    'test-step-subset-select.R:132:3', 'test-step-subset-separate.R:49:3',
    'test-step-subset-slice.R:145:3', 'test-step-subset-slice.R:176:3',
    'test-step-subset-summarise.R:106:3', 'test-step.R:24:3',
    'test-tidyeval-across.R:89:3', 'test-tidyeval-across.R:97:3',
    'test-tidyeval-across.R:289:3', 'test-tidyeval-across.R:299:3',
    'test-tidyeval.R:148:3', 'test-tidyeval.R:245:3', 'test-tidyeval.R:344:3',
    'test-unite.R:71:3'
  • tidyselect issue #221 (1): 'test-tidyeval-across.R:305:3'
  • transmuting grouping vars with nesting is not supported (1):
    'test-step-subset-transmute.R:64:3'
  
  [ FAIL 0 | WARN 1 | SKIP 35 | PASS 752 ]
  > 
  > proc.time()
     user  system elapsed 
    13.65    1.42   15.04
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dplyr)
  
  Attaching package: 'dplyr'
  
  The following object is masked from 'package:testthat':
  
      matches
  
  The following objects are masked from 'package:stats':
  
      filter, lag
  
  The following objects are masked from 'package:base':
  
      intersect, setdiff, setequal, union
  
  > library(dtrackr)
  
  Attaching package: 'dtrackr'
  
  The following objects are masked from 'package:dplyr':
  
      add_tally, bind_cols, bind_rows
  
  The following object is masked from 'package:stats':
  
      filter
  
  The following object is masked from 'package:utils':
  
      history
  
  The following object is masked from 'package:base':
  
      comment
  
  > 
  > test_check("dtrackr")
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 52 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 52 ]
  > 
  > 
  > proc.time()
     user  system elapsed 
     9.89    0.73   10.51
installed size is  6.1Mb
  sub-directories of 1Mb or more:
    htmlwidgets   5.4Mb
Running 'spelling.R' [168s]
  Running 'testthat.R' [177s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.18    0.04    0.21 
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dttr2)
  > 
  > test_check("dttr2")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1172 ]
  > 
  > proc.time()
     user  system elapsed 
    11.85    3.62   15.54
Objects in \usage without \alias in Rd file 'd.spls.norm1.Rd':
  'd.spls.norm2'

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' [174s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(duawranglr)
  > 
  > test_check("duawranglr")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 50 ]
  > 
  > proc.time()
     user  system elapsed 
     1.31    0.29    1.59
installed size is 26.4Mb
  sub-directories of 1Mb or more:
    libs  25.7Mb
Running 'testthat.R' [156s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(duckduckr)
  > 
  > test_check("duckduckr")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 0 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-duckduck-answer.R:2:3'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     0.59    0.17    0.73
Running 'testthat.R' [157s]
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)
  > library(duke)
  > 
  > test_check("duke")
  New names:
  * `colour` -> `colour...1`
  * `colour` -> `colour...4`
  [ FAIL 0 | WARN 9 | SKIP 0 | PASS 28 ]
  
  [ FAIL 0 | WARN 9 | SKIP 0 | PASS 28 ]
  > 
  > proc.time()
     user  system elapsed 
     2.62    0.31    2.92
Running 'testthat.R' [158s]
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)
  > library(dupNodes)
  > 
  > test_check("dupNodes")
  
  Attaching package: 'igraph'
  
  The following object is masked from 'package:testthat':
  
      compare
  
  The following objects are masked from 'package:stats':
  
      decompose, spectrum
  
  The following object is masked from 'package:base':
  
      union
  
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 24 ]
  > 
  > proc.time()
     user  system elapsed 
     0.82    0.20    1.01
Running 'testthat.R' [158s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dwdradar)
  > 
  > test_check("dwdradar")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 40 ]
  > 
  > proc.time()
     user  system elapsed 
     1.48    0.62    2.06
Running 'testthat.R' [168s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dygraphs)
  > library(datasets)
  > 
  > test_check("dygraphs")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 23 ]
  > 
  > proc.time()
     user  system elapsed 
     0.96    0.23    1.18
installed size is 13.3Mb
  sub-directories of 1Mb or more:
    R      3.5Mb
    data   9.0Mb
Running 'testthat.R' [210s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > #' @srrstats {G3.0} Floating point numbers are not compared for equality
  > #' @srrstats {G5.2, G5.2a, G5.2b, G5.3, RE7.2, RE7.3}
  > #'   Demonstrated by package tests.
  > #' @srrstats {G5.12} Instructions on how to run extended tests is provided in
  > #'   tests/README.md.
  > #' @srrstats {G5.5, G5.6b} Fixed and random seeds are used appropriately in
  > #'   tests.
  > library(testthat)
  > library(dynamite)
  > 
  > test_check("dynamite")
  [ FAIL 0 | WARN 0 | SKIP 40 | PASS 407 ]
  
  ══ Skipped tests (40) ══════════════════════════════════════════════════════════
  • Shrinkage feature removed at least for now. (2): 'test-edgecases.R:215:3',
    'test-extended.R:195:3'
  • run_extended_tests is not TRUE (34): 'test-cmdstanr.R:9:3',
    'test-cmdstanr.R:34:3', 'test-cmdstanr.R:52:3', 'test-cmdstanr.R:88:3',
    'test-cmdstanr.R:117:3', 'test-cmdstanr.R:164:3', 'test-extended.R:6:3',
    'test-extended.R:53:3', 'test-extended.R:115:3', 'test-extended.R:138:3',
    'test-extended.R:157:3', 'test-extended.R:224:3', 'test-grunfeld.R:8:3',
    'test-lfactor.R:167:3', 'test-lfactor.R:175:3', 'test-lfactor.R:183:3',
    'test-lfactor.R:191:3', 'test-random.R:9:3', 'test-random.R:97:3',
    'test-random.R:178:3', 'test-random.R:206:3', 'test-random.R:239:3',
    'test-recovery.R:16:3', 'test-recovery.R:39:3', 'test-recovery.R:57:3',
    'test-recovery.R:76:3', 'test-recovery.R:94:3', 'test-recovery.R:136:3',
    'test-recovery.R:159:3', 'test-recovery.R:186:3', 'test-recovery.R:251:3',
    'test-recovery.R:278:3', 'test-recovery.R:361:3', 'test-recovery.R:406:3'
  • run_scaling_tests is not TRUE (4): 'test-scaling.R:17:3',
    'test-scaling.R:57:3', 'test-scaling.R:98:3', 'test-scaling.R:138:3'
  
  [ FAIL 0 | WARN 0 | SKIP 40 | PASS 407 ]
  > 
  > proc.time()
     user  system elapsed 
    37.23    2.00   40.00
Running 'testthat.R' [160s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(DynaRankR)
  > 
  > test_check("DynaRankR")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 8 ]
  > 
  > proc.time()
     user  system elapsed 
     1.06    0.15    1.20
Running 'testthat.R' [166s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dynConfiR)
  > 
  > test_check("dynConfiR")
  error: invalid parameter combination t0 = -1, d = 0, st0 =0
  error: invalid parameter combination t0 = -1, d = 0, st0 =0
  error: invalid parameter sv = -0.2
  error: invalid parameter sv = -0.2
  error: invalid parameter combination zr = -0.5, szr = 0
  error: invalid parameter combination zr = 1.5, szr = 0
  error: invalid parameter combination t0 = -1, d = 0, st0 =0
  error: invalid parameter combination t0 = -1, d = 0, st0 =0
  error: invalid parameter svis = 0
  error: invalid parameter svis = -1
  error: invalid parameter w = 1.2, allowed: w in [0,1]
  error: invalid parameter w = -0.8, allowed: w in [0,1]
  error: invalid parameter zr = 1.1
  error: invalid parameter combination zr = 1.1, szr = 0
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 82 ]
  > 
  > proc.time()
     user  system elapsed 
     3.60    0.46    4.04
Package suggested but not available for checking: 'lle'
Running 'testthat.R' [164s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dynetNLAResistance)
  > 
  > test_check("dynetNLAResistance")
   [1] "V81626"  "V4750"   "V86764"  "V41495"  "V4853"   "V44000"  "V106876"
   [8] "V58629"  "V71461"  "V1631"  
  [ FAIL 0 | WARN 2 | SKIP 1 | PASS 0 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • empty test (1): 'testmain.R:4:1'
  
  [ FAIL 0 | WARN 2 | SKIP 1 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     0.93    0.14    1.06
Running 'testthat.R' [214s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > 
  > test_check("dyngen")
  Loading required package: dyngen
  
  [ FAIL 0 | WARN 36 | SKIP 1 | PASS 69 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-generate_dataset.R:48:1'
  
  [ FAIL 0 | WARN 36 | SKIP 1 | PASS 69 ]
  > 
  > 
  > proc.time()
     user  system elapsed 
    28.53    1.39   48.92
Running 'testthat.R' [166s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dyn.log)
  > 
  > test_check("dyn.log")
  Test passed 
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 282 ]
  > 
  > proc.time()
     user  system elapsed 
     3.51    0.50    4.01
Running 'testthat.R' [175s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dynparam)
  > 
  > test_check("dynparam")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 403 ]
  > 
  > proc.time()
     user  system elapsed 
     6.06    0.51    6.54
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dynprog)
  > 
  > test_check("dynprog")
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 28 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 28 ]
  > 
  > proc.time()
     user  system elapsed 
     6.75    0.15    6.89
installed size is  5.6Mb
  sub-directories of 1Mb or more:
    data   2.5Mb
    doc    1.4Mb
Running 'testthat.R' [224s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(dynwrap)
  > 
  > test_check("dynwrap")
  [ FAIL 0 | WARN 23 | SKIP 3 | PASS 522 ]
  
  ══ Skipped tests (3) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-method_create_ti_method_container.R:5:1'
  • dyndimre2d cannot be loaded (1): 'test-wrap_add_dimred.R:110:3'
  • empty test (1): 'test-adapt_orient_topology.R:50:1'
  
  [ FAIL 0 | WARN 23 | SKIP 3 | PASS 522 ]
  > 
  > 
  > proc.time()
     user  system elapsed 
    54.96    2.42   57.01
installed size is  5.3Mb
  sub-directories of 1Mb or more:
    data   3.0Mb
    libs   1.7Mb
installed size is  6.0Mb
  sub-directories of 1Mb or more:
    bin       3.0Mb
    extdata   1.7Mb
Running 'spelling.R' [160s]
  Running 'testthat.R' [1s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.17    0.04    0.20
Running 'testthat.R' [207s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(earthtide)
  > 
  > test_check("earthtide")
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 77 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On CRAN (2): 'test-earthtide.R:291:3', 'test-get_iers.R:4:3'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 77 ]
  > 
  > proc.time()
     user  system elapsed 
    40.84    1.82   42.70
Running 'testthat.R' [173s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(earthtones)
  > 
  > test_check("earthtones")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 2 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • empty test (1): 'test-earth.R:4:1'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 2 ]
  > 
  > proc.time()
     user  system elapsed 
     0.68    0.15    0.84
Running 'testthat.R' [181s]
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)
  > library(easybgm)
  > library(vdiffr)
  > 
  > test_check("easybgm")
  0%   10   20   30   40   50   60   70   80   90   100%
  [----|----|----|----|----|----|----|----|----|----|
  **************************************************|
  From		To	Weight
  1 	 --- 	 2 	 0.64 
  1 	 --- 	 3 	 0.71 
  2 	 --- 	 3 	 0.41 
  3 	 --- 	 4 	 0.35 
  1 	 --- 	 5 	 0.34 
  4 	 --- 	 5 	 0.98 
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 0 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On CRAN (2): 'test-easybgm.R:11:3', 'test-easybgm.R:20:1'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 0 ]
  Deleting unused snapshots:
  • easybgm/centrality-plot-bdgraph.svg
  • easybgm/centrality-plot-bgms.svg
  • easybgm/evidence-plot-bdgraph.svg
  • easybgm/evidence-plot-bgms.svg
  • easybgm/hdi-plot-bdgraph.svg
  • easybgm/hdi-plot-bgms.svg
  • easybgm/network-plot-bdgraph.svg
  • easybgm/network-plot-using-bgm-to-fit.svg
  • easybgm/posterior-complexity-plot-bdgraph.svg
  • easybgm/posterior-complexity-plot-bgms.svg
  • easybgm/posterior-structure-plot-bdgraph.svg
  • easybgm/posterior-structure-plot-bgms.svg
  • easybgm/structure-plot-bdgraph.svg
  • easybgm/structure-plot-bgms.svg
  > 
  > proc.time()
     user  system elapsed 
     9.84    0.76   10.57
Running 'testthat.R' [186s]
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)
  > library(easyr)
  > 
  > test_check("easyr")
  Loading required package: magrittr
  
  Attaching package: 'magrittr'
  
  The following objects are masked from 'package:testthat':
  
      equals, is_less_than, not
  
  Loading required package: dplyr
  
  Attaching package: 'dplyr'
  
  The following object is masked from 'package:testthat':
  
      matches
  
  The following objects are masked from 'package:stats':
  
      filter, lag
  
  The following objects are masked from 'package:base':
  
      intersect, setdiff, setequal, union
  
  Reading as XML/HTML 
  Reading as XML/HTML 
  Reading as XML/HTML 
  Reading as XML/HTML 
  Reading as XML/HTML 
  Reading as XML/HTML 
  No matches found.
  No matches found.
  No matches found.
  No matches found.
  easyr::tonum: NAs were created. Returning the vector unchanged. 
  Problematic values include: [ 5'10 ] 
   [ FAIL 0 | WARN 0 | SKIP 1 | PASS 314 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • empty test (1): 'test_ecopy.R:1:1'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 314 ]
  > 
  > proc.time()
     user  system elapsed 
    10.10    1.03   11.18
Running 'testthat.R' [181s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(easySdcTable)
  Loading required package: SSBtools
  Loading required package: Matrix
  > 
  > test_check("easySdcTable")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 26 ]
  > 
  > proc.time()
     user  system elapsed 
    12.15    0.71   12.85
Running 'testthat.R' [171s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(easyVerification)
  Loading required package: SpecsVerification
  
  Attaching package: 'easyVerification'
  
  The following object is masked from 'package:SpecsVerification':
  
      EnsCorr
  
  > 
  > test_check("easyVerification")
  [ FAIL 0 | WARN 9 | SKIP 0 | PASS 136 ]
  
  [ FAIL 0 | WARN 9 | SKIP 0 | PASS 136 ]
  > 
  > proc.time()
     user  system elapsed 
     2.65    0.35    2.98
Running 'testthat.R' [162s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(eatDB)
  > 
  > test_check("eatDB")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 58 ]
  > 
  > proc.time()
     user  system elapsed 
     1.84    0.32    2.14
Running 'testthat.R' [179s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(eatGADS)
  > 
  > test_check("eatGADS")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1515 ]
  > 
  > proc.time()
     user  system elapsed 
    25.59    2.53   27.90
Running 'testthat.R' [258s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(eatRep)
  Loading required package: survey
  Loading required package: grid
  Loading required package: Matrix
  Loading required package: survival
  
  Attaching package: 'survey'
  
  The following object is masked from 'package:graphics':
  
      dotchart
  
  Loading required package: BIFIEsurvey
  |-----------------------------------------------------------------
  | BIFIEsurvey 3.5-19 (2024-02-18 19:15:32)
  | http://www.bifie.at                                             
  |-----------------------------------------------------------------
  
  Loading required package: progress
  Loading required package: lavaan
  This is lavaan 0.6-17
  lavaan is FREE software! Please report any bugs.
  > 
  > test_check("eatRep")
  +++ Generate replicate weights
  |**********|
  |----------|
  +++ Generate BIFIE.data object
  |*****|
  |-----|
  1 analyse(s) overall according to: 'group.splits = 0'.
  Assume unnested structure with 3 imputations.
  
  Trend group: '2010'
  1 analyse(s) overall according to: 'group.splits = 0'.
  Assume unnested structure with 3 imputations.
  Create 32 replicate weights according to JK2 procedure.
  
  
  Trend group: '2015'
  1 analyse(s) overall according to: 'group.splits = 0'.
  Assume unnested structure with 3 imputations.
  Create 41 replicate weights according to JK2 procedure.
  
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 76 ]
  
  ══ Skipped tests (3) ═══════════════════════════════════════════════════════════
  • On CRAN (3): 'test_WEC.R:6:5', 'test_jk2_lmer.r:10:5',
    'test_jk2_quantile.r:4:5'
  
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 76 ]
  > 
  > proc.time()
     user  system elapsed 
    90.50    7.84   98.37
Running 'testthat.R' [191s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(EBASE)
  > 
  > test_check("EBASE")
  
  Attaching package: 'dplyr'
  
  The following object is masked from 'package:testthat':
  
      matches
  
  The following objects are masked from 'package:stats':
  
      filter, lag
  
  The following objects are masked from 'package:base':
  
      intersect, setdiff, setequal, union
  
  
  Attaching package: 'tidyr'
  
  The following object is masked from 'package:testthat':
  
      matches
  
  Loading required package: rjags
  Loading required package: coda
  Linked to JAGS 4.3.1
  Loaded modules: basemod,bugs
  
  Attaching package: 'R2jags'
  
  The following object is masked from 'package:coda':
  
      traceplot
  
  Compiling model graph
     Resolving undeclared variables
     Allocating nodes
  Graph information:
     Observed stochastic nodes: 95
     Unobserved stochastic nodes: 5
     Total graph size: 1349
  
  Initializing model
  
  Compiling model graph
     Resolving undeclared variables
     Allocating nodes
  Graph information:
     Observed stochastic nodes: 95
     Unobserved stochastic nodes: 5
     Total graph size: 1349
  
  Initializing model
  
  Compiling model graph
     Resolving undeclared variables
     Allocating nodes
  Graph information:
     Observed stochastic nodes: 95
     Unobserved stochastic nodes: 5
     Total graph size: 1353
  
  Initializing model
  
  Compiling model graph
     Resolving undeclared variables
     Allocating nodes
  Graph information:
     Observed stochastic nodes: 95
     Unobserved stochastic nodes: 5
     Total graph size: 1353
  
  Initializing model
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 27 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 27 ]
  > 
  > proc.time()
     user  system elapsed 
     9.64    0.65   18.79
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(EbayesThresh)
  > test_check("EbayesThresh")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 12 ]
  > 
  > proc.time()
     user  system elapsed 
     0.70    0.17    0.86
Running 'testthat.R' [173s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(EBCHS)
  > 
  > test_check("EBCHS")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
  > 
  > 
  > proc.time()
     user  system elapsed 
     0.70    0.18    0.81
Running 'testthat.R' [160s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ebirdst)
  Please cite the eBird Status and Trends data using: 
    Fink, D., T. Auer, A. Johnston, M. Strimas-Mackey, S. Ligocki, O. Robinson, 
    W. Hochachka, L. Jaromczyk, C. Crowley, K. Dunham, A. Stillman, I. Davies, 
    A. Rodewald, V. Ruiz-Gutierrez, C. Wood. 2023.
    eBird Status and Trends, Data Version: 2022; Released: 2023. Cornell Lab of
    Ornithology, Ithaca, New York. https://doi.org/10.2173/ebirdst.2022
  
  This version of the package provides access to the 2022 version of the eBird
  Status and Trends Data Products. Access to the 2022 data will be provided 
  until November 2024 when it will be replaced by the 2023 data. At that 
  point, you will be required to update this R package and transition to using 
  the new data.
  > 
  > test_check("ebirdst")
  [ FAIL 0 | WARN 0 | SKIP 6 | PASS 7 ]
  
  ══ Skipped tests (6) ═══════════════════════════════════════════════════════════
  • On CRAN (6): 'test_download.R:3:1', 'test_loading.R:3:1',
    'test_ranges.R:3:1', 'test_rasters.R:3:1', 'test_trends.R:3:1',
    'test_utils.R:3:1'
  
  [ FAIL 0 | WARN 0 | SKIP 6 | PASS 7 ]
  > 
  > proc.time()
     user  system elapsed 
     1.25    0.37    9.85
Running 'testthat.R' [159s]
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)
  > library(ebvcube)
  > 
  > test_check("ebvcube")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 87 ]
  > 
  > proc.time()
     user  system elapsed 
     6.87    0.54    7.39
Running 'testthat.R' [165s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ecb)
  > 
  > test_check("ecb")
  [ FAIL 0 | WARN 0 | SKIP 6 | PASS 0 ]
  
  ══ Skipped tests (6) ═══════════════════════════════════════════════════════════
  • On CRAN (6): 'tests.R:2:3', 'tests.R:13:3', 'tests.R:18:3', 'tests.R:28:3',
    'tests.R:37:3', 'tests.R:48:3'
  
  [ FAIL 0 | WARN 0 | SKIP 6 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     0.78    0.18    0.95
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ecce)
  > 
  > test_check("ecce")
  [1] "good"
  [1] "good"
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 0 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • empty test (2): 'test-pinyin.R:3:1', 'test-translate.R:3:1'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     0.70    0.17    0.85
Running 'testthat.R' [161s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(echarty)
  > 
  > test_check("echarty")
  
   series: 1 coords: 3 
  
   series: 108 coords: 2529 
  
   series: 1 coords: 3 
  
   series: 1 coords: 2 
  trying URL 'https://mapcruzin.com/sierra-leone-shapefiles/points.zip'
  Content type 'application/zip' length 32564 bytes (31 KB)
  ==================================================
  downloaded 31 KB
  
  
  geoJSON has 5 features[ FAIL 0 | WARN 0 | SKIP 0 | PASS 258 ]
  > 
  > proc.time()
     user  system elapsed 
     4.03    0.71    5.79
Running 'testthat.R' [185s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ecoCopula)
  Loading required package: mvabund
  > 
  > test_check("ecoCopula")
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 78 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 78 ]
  > 
  > proc.time()
     user  system elapsed 
     8.34    0.75    9.07
Error(s) in re-building vignettes:
--- re-building 'convergence_problems.Rmd' using rmarkdown
--- finished re-building 'convergence_problems.Rmd'

--- re-building 'introduction_EcoDiet.Rmd' using rmarkdown

Quitting from lines 373-374 [unnamed-chunk-35] (introduction_EcoDiet.Rmd)
Error: processing vignette 'introduction_EcoDiet.Rmd' failed with diagnostics:
The `legend.byrow` theme element must be a <logical> object.
--- failed re-building 'introduction_EcoDiet.Rmd'

--- re-building 'realistic_example.Rmd' using rmarkdown
--- finished re-building 'realistic_example.Rmd'

SUMMARY: processing the following file failed:
  'introduction_EcoDiet.Rmd'

Error: Vignette re-building failed.
Execution halted
installed size is  7.0Mb
  sub-directories of 1Mb or more:
    libs   6.0Mb
Running 'testthat.R' [165s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ecolottery)
  > 
  > test_check("ecolottery")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 92 ]
  > 
  > proc.time()
     user  system elapsed 
     3.67    0.40    4.06
Running 'testthat.R' [165s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ECoL)
  > 
  > test_check("ECoL")
  [ FAIL 0 | WARN 3 | SKIP 0 | PASS 99 ]
  
  [ FAIL 0 | WARN 3 | SKIP 0 | PASS 99 ]
  > 
  > proc.time()
     user  system elapsed 
     8.51    0.50    9.00
Running 'testthat.R' [178s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > Sys.setenv("R_TESTS" = "")
  > 
  > library(testthat)
  > library(econullnetr)
  > 
  > test_check("econullnetr")
  [ FAIL 0 | WARN 0 | SKIP 10 | PASS 37 ]
  
  ══ Skipped tests (10) ══════════════════════════════════════════════════════════
  • On CRAN (10): 'test_bipartite_stats.R:118:3', 'test_null_model.R:29:3',
    'test_null_model.R:80:3', 'test_null_model.R:113:3',
    'test_plot_bipartite.R:29:3', 'test_plot_bipartite.R:52:3',
    'test_plot_preferences.R:29:3', 'test_test_interactions.R:30:3',
    'test_test_interactions.R:40:3', 'test_test_interactions.R:50:3'
  
  [ FAIL 0 | WARN 0 | SKIP 10 | PASS 37 ]
  > 
  > proc.time()
     user  system elapsed 
     4.54    0.48    5.00
Running 'testthat.R' [178s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ecopower)
  > 
  > test_check("ecopower")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 223 ]
  > 
  > proc.time()
     user  system elapsed 
     4.96    0.57    5.48
Running 'testthat.R' [164s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ecotox)
  > 
  > test_check("ecotox")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 142 ]
  > 
  > proc.time()
     user  system elapsed 
     1.53    0.21    1.75
Running 'testthat.R' [160s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ECOTOXr)
  Loading required package: RSQLite
  ECOTOX database file not present! Invoke download and
  database build using 'download_ecotox_data()'
  
  > 
  > test_check("ECOTOXr")
  [ FAIL 0 | WARN 0 | SKIP 13 | PASS 16 ]
  
  ══ Skipped tests (13) ══════════════════════════════════════════════════════════
  • ECOTOX database not available (13): 'test_that.r:44:3', 'test_that.r:62:3',
    'test_that.r:86:3', 'test_that.r:107:3', 'test_that.r:140:3',
    'test_that.r:153:3', 'test_that.r:175:3', 'test_that.r:191:3',
    'test_that.r:206:3', 'test_that.r:242:3', 'test_that.r:257:3',
    'test_that.r:272:3', 'test_that.r:287:3'
  
  [ FAIL 0 | WARN 0 | SKIP 13 | PASS 16 ]
  > 
  > proc.time()
     user  system elapsed 
     1.51    0.35    1.86
Running 'testthat.R' [209s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(Ecume)
  > library(testthat)
  > test_check("Ecume")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 181 ]
  > 
  > proc.time()
     user  system elapsed 
    44.51    2.70   47.23
Running 'testthat.R' [177s]
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)
  > library(EDCimport)
  > 
  > test_check("EDCimport")
  ✔ Initializer 'helper-init_dataset.R' loaded: is_testing=TRUE,
    is_parallel=FALSE
  [ FAIL 0 | WARN 0 | SKIP 5 | PASS 15 ]
  
  ══ Skipped tests (5) ═══════════════════════════════════════════════════════════
  • On CRAN (5): 'test-plot.R:27:3', 'test-real.R:2:1', 'test-split_mixed.R:2:1',
    'test-trialmaster.R:5:1', 'test-utils.R:3:1'
  
  [ FAIL 0 | WARN 0 | SKIP 5 | PASS 15 ]
  Deleting unused snapshots:
  • plot/swimmerplot-with-aes-color.svg
  • plot/swimmerplot-with-group.svg
  • plot/swimmerplot-with-origin-and-group.svg
  • plot/swimmerplot-with-origin.svg
  • plot/swimmerplot.svg
  > 
  > proc.time()
     user  system elapsed 
     2.84    0.28    3.10
Running 'testthat.R' [150s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(eddington)
  > 
  > test_check("eddington")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 50 ]
  > 
  > proc.time()
     user  system elapsed 
     1.31    0.21    1.51
Running 'testthat.R' [166s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(edfReader)
  > 
  > test_check("edfReader")
  edfPlusC.edf : Testing header
  edfPlusC.edf : Testing signals
  bdfPlusC.bdf : Testing header
  bdfPlusC.bdf : Testing signals
  edfAnnonC.edf : Testing header
  edfAnnonC.edf : Testing signals
  edfPlusD.edf : Testing header
  edfPlusD.edf : Testing signals
  testASignalsFile edfPlusC.edf 
  testASignalsFile bdfPlusC.bdf 
  testASignalsFile edfPlusD.edf 
  testASignalsFile edfAnnonC.edf 
  edfPlusC.edf : testOSignalsFile: isContinuous= TRUE 
  bdfPlusC.bdf : testOSignalsFile: isContinuous= TRUE 
  edfPlusD.edf : testOSignalsFile: isContinuous= FALSE 
  edfAnnonC.edf : testOSignalsFile: isContinuous= TRUE 
  edfPlusC.edf : min/max tests
  bdfPlusC.bdf : min/max tests
  edfPlusD.edf : min/max tests
  edfAnnonC.edf : min/max tests
  edfPlusC.edf : signal selection tests
  bdfPlusC.bdf : signal selection tests
  edfPlusD.edf : signal selection tests
  edfAnnonC.edf : signal selection tests
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 792 ]
  > 
  > proc.time()
     user  system elapsed 
     6.23    0.64    6.89
Problems with news in 'NEWS.md':
  Cannot extract version info from the following section titles:
    TODO:
Running 'testthat.R' [182s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(httptest)
  Loading required package: testthat
  > test_check("edgarWebR")
  Loading required package: edgarWebR
  [ FAIL 0 | WARN 0 | SKIP 18 | PASS 249 ]
  
  ══ Skipped tests (18) ══════════════════════════════════════════════════════════
  • On CRAN (18): 'test_parse_filing.R:51:5', 'test_parse_filing.R:73:5',
    'test_parse_filing.R:78:5', 'test_parse_filing.R:83:5',
    'test_parse_filing.R:90:5', 'test_parse_filing.R:97:5',
    'test_parse_filing.R:104:5', 'test_parse_filing.R:111:5',
    'test_parse_filing.R:118:5', 'test_parse_filing.R:125:5',
    'test_parse_filing.R:138:5', 'test_parse_filing.R:145:5',
    'test_parse_filing.R:152:5', 'test_parse_filing.R:159:5',
    'test_parse_filing.R:166:5', 'test_parse_filing.R:174:5',
    'test_parse_filing.R:181:5', 'test_parse_text_filing.R:31:5'
  
  [ FAIL 0 | WARN 0 | SKIP 18 | PASS 249 ]
  > 
  > proc.time()
     user  system elapsed 
    11.79    0.96   12.79
Running 'testthat.R' [160s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(edgebundle)
  > 
  > test_check("edgebundle")
  [ FAIL 0 | WARN 2 | SKIP 0 | PASS 4 ]
  
  [ FAIL 0 | WARN 2 | SKIP 0 | PASS 4 ]
  > 
  > proc.time()
     user  system elapsed 
     1.85    0.35    2.20
Running 'test-all.R' [158s]
Running the tests in 'tests/test-all.R' failed.
Complete output:
  > library(testthat)
  > test_check("EDISON")
  Loading required package: EDISON
  Loading required package: corpcor
  Loading required package: MASS
  [1] "Initialisation successful."
  [1] "Starting tvDBN iterations..."
  5 % 10 % 15 % 20 % 25 % 30 % 35 % 40 % 45 % 50 % 55 % 60 % 65 % 70 % 75 % 80 % 85 % 90 % 95 % 100 % [1] ""
  [1] "End of iterations"
  [1] "Initialisation successful."
  [1] "Starting tvDBN iterations..."
  5 % 10 % 15 % 20 % 25 % 30 % 35 % 40 % 45 % 50 % 55 % 60 % 65 % 70 % 75 % 80 % 85 % 90 % 95 % 100 % [1] ""
  [1] "End of iterations"
  [1] "Initialisation successful."
  [1] "Starting tvDBN iterations..."
  5 % 10 % 15 % 20 % 25 % 30 % 35 % 40 % 45 % 50 % 55 % 60 % 65 % 70 % 75 % 80 % 85 % 90 % 95 % 100 % [1] ""
  [1] "End of iterations"
  [ FAIL 0 | WARN 3 | SKIP 0 | PASS 20 ]
  
  [ FAIL 0 | WARN 3 | SKIP 0 | PASS 20 ]
  > 
  > proc.time()
     user  system elapsed 
     5.50    0.31    5.79
Running 'testthat.R' [169s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(editbl)
  > 
  > test_check("editbl")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 58 ]
  Warning message:
  call dbDisconnect() when finished working with a connection 
  > 
  > proc.time()
     user  system elapsed 
     4.29    0.70    4.89
Documented arguments not in \usage in Rd file 'fcf.env.Rd':
  'vars'

Documented arguments not in \usage in Rd file 'getlevels.Rd':
  'editarray'

Documented arguments not in \usage in Rd file 'parseCatEdit.Rd':
  'e'

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' [160s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(EDMeasure)
  > 
  > test_check("EDMeasure")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 36 ]
  > 
  > proc.time()
     user  system elapsed 
     1.01    0.28    1.28
Running 'testthat.R' [174s]
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)
  > library(edwards97)
  > 
  > test_check("edwards97")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 83 ]
  > 
  > proc.time()
     user  system elapsed 
     2.07    0.37    2.42
Running 'test-all.R' [171s]
Running the tests in 'tests/test-all.R' failed.
Complete output:
  > library(testthat)
  > library(eeptools)
  Loading required package: ggplot2
  > 
  > test_check("eeptools")
  [ FAIL 0 | WARN 10 | SKIP 0 | PASS 509 ]
  
  [ FAIL 0 | WARN 10 | SKIP 0 | PASS 509 ]
  > 
  > proc.time()
     user  system elapsed 
     9.17    1.20   10.48
Running 'testthat.R' [164s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(eff2)
  > 
  > test_check("eff2")
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 11 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 11 ]
  > 
  > proc.time()
     user  system elapsed 
     1.82    0.28    2.11
Running 'testthat.R' [136s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(effectR)
  > 
  > test_check("effectR")
  [ FAIL 0 | WARN 3 | SKIP 0 | PASS 9 ]
  
  [ FAIL 0 | WARN 3 | SKIP 0 | PASS 9 ]
  > 
  > proc.time()
     user  system elapsed 
     1.01    0.32    1.31
installed size is 12.6Mb
  sub-directories of 1Mb or more:
    libs  12.5Mb
Running 'testthat.R' [162s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ef)
  Loading required package: TMB
  > 
  > test_check("ef")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 8 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • empty test (1): 'test-basic_likelihood.R:97:1'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 8 ]
  > 
  > proc.time()
     user  system elapsed 
     2.32    0.31    2.64
Package suggested but not available for checking: 'eggCountsExtra'
installed size is  7.2Mb
  sub-directories of 1Mb or more:
    libs   6.6Mb
installed size is 10.4Mb
  sub-directories of 1Mb or more:
    doc       5.1Mb
    extdata   5.1Mb
Running 'testthat.R' [271s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(einsum)
  > 
  > test_check("einsum")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 36 ]
  > 
  > proc.time()
     user  system elapsed 
     0.93    0.43   95.07
Running 'testthat.R' [160s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(eiopaR)
  > 
  > test_check("eiopaR")
  [ FAIL 0 | WARN 0 | SKIP 4 | PASS 0 ]
  
  ══ Skipped tests (4) ═══════════════════════════════════════════════════════════
  • On CRAN (4): 'test-api.R:3:3', 'test-eiopaR.R:3:3', 'test-eiopaR.R:18:3',
    'test-eiopaR.R:38:3'
  
  [ FAIL 0 | WARN 0 | SKIP 4 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     0.81    0.10    0.92
Documented arguments not in \usage in Rd file 'colBoxplot4.Rd':
  'id'

Documented arguments not in \usage in Rd file 'elaborator_server.Rd':
  'id'

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' [168s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(elastes)
  > 
  > test_check("elastes")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 38 ]
  > 
  > proc.time()
     user  system elapsed 
    15.40    1.23   16.67
Running 'testthat.R' [150s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(elec)
  > 
  > test_check("elec")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 5 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • empty test (1): 'test-trinomial.R:1:1'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 5 ]
  > 
  > proc.time()
     user  system elapsed 
     3.54    0.29    3.82
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(elfDistr)
  > 
  > test_check("elfDistr")
  [1] 10 10
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 11 ]
  > 
  > proc.time()
     user  system elapsed 
     0.78    0.14    0.89
Running 'spelling.R' [176s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.20    0.01    0.20
Running 'testthat.R' [172s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(elisr)
  Welcome to elisr!
  > 
  > test_check("elisr")
  
  disjoint() reversed the following item(s):
  - polpati
  
  
  disjoint() didn't reverse an item.
  
  
  overlap() didn't reverse an item.
  
  
  overlap() reversed the following item(s):
  - fedgovt
  
  
  overlap() reversed the following item(s):
  - eupalmnt
  - fedgovt
  - eucomisn
  - polpati
  - bundtag
  - judsyst
  - fccourt
  - police
  - newsppr
  - tv
  - uni
  - munadmin
  - healserv
  
  $scl_1
                     mrit rbar alpha
  eupalmnt, eucomisn 0.92 0.92  0.96
  polpati            0.64 0.72  0.89
  fedgovt            0.68 0.67  0.89
  bundtag            0.70 0.64  0.90
  judsyst            0.58 0.59  0.90
  fccourt            0.58 0.55  0.90
  police             0.52 0.52  0.90
  newsppr            0.52 0.49  0.90
  tv                 0.52 0.47  0.90
  uni                0.49 0.45  0.90
  munadmin           0.47 0.43  0.90
  healserv           0.42 0.40  0.90
  
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 51 ]
  > 
  > proc.time()
     user  system elapsed 
     1.70    0.28    1.98
installed size is  5.5Mb
  sub-directories of 1Mb or more:
    libs   4.2Mb
Running 'testthat.R' [172s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(eltr)
  > 
  > test_check("eltr")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 5 ]
  > 
  > proc.time()
     user  system elapsed 
     0.78    0.21    0.98
Running 'testthat.R' [174s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(EMgaussian)
  > 
  > test_check("EMgaussian")
  
  Attaching package: 'psych'
  
  The following object is masked from 'package:testthat':
  
      describe
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 0 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On CRAN (2): 'test-em.R:9:3', 'test-glasso.R:9:3'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     3.54    0.54    4.04
Running 'spelling.R' [172s]
  Running 'testthat.R' [186s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly=TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE, skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.14    0.09    0.21 
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(emld)
  > 
  > options("emld_db" = "eml-2.2.0")
  > test_check("emld")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 265 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • internal class template deprecated (1): 'test-template.R:11:3'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 265 ]
  > 
  > proc.time()
     user  system elapsed 
    23.71    2.25   27.31
Running 'spelling.R' [180s]
  Running 'testthat.R' [176s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.18    0.04    0.20 
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(EML)
  > 
  > test_check("EML")
  [ FAIL 0 | WARN 3 | SKIP 8 | PASS 88 ]
  
  ══ Skipped tests (8) ═══════════════════════════════════════════════════════════
  • Interactive test (2): 'test-set_taxonomicCoverage.R:55:3',
    'test-set_taxonomicCoverage.R:67:3'
  • On CRAN (3): 'test-additional-tests.R:29:3', 'test-eml2.R:8:3',
    'test-set_taxonomicCoverage.R:40:3'
  • auto-simplifying units does not yet work (2): 'test_get_unit_id.R:81:1',
    'test_get_unit_id.R:100:3'
  • file.exists("hf205-01-TPexp1.csv") is not TRUE (1):
    'test-additional-tests.R:18:3'
  
  [ FAIL 0 | WARN 3 | SKIP 8 | PASS 88 ]
  > 
  > proc.time()
     user  system elapsed 
    11.42    0.82   12.20
Running 'test-all.R' [159s]
Running the tests in 'tests/test-all.R' failed.
Complete output:
  > Sys.setenv("R_TESTS" = "")
  > library(testthat)
  > test_check("EMMLi")
  Loading required package: EMMLi
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 38 ]
  > 
  > proc.time()
     user  system elapsed 
     0.96    0.29    1.26
Running 'testthat.R' [169s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library("testthat")
  > test_check("emoa")
  Loading required package: emoa
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 247 ]
  > 
  > proc.time()
     user  system elapsed 
     1.37    0.34    1.71
installed size is  7.0Mb
  sub-directories of 1Mb or more:
    emoji_fonts   6.4Mb
Running 'spelling.R' [0s]
  Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(empichar)
  > 
  > test_check("empichar")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 32 ]
  > 
  > proc.time()
     user  system elapsed 
     1.07    0.25    1.29
Running 'testthat.R' [176s]
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)
  > library(emplik)
  > 
  > test_check("emplik")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 3 ]
  > 
  > proc.time()
     user  system elapsed 
     3.84    0.31    4.17
Running 'testthat.R' [161s]
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)
  > library(terra)
  terra 1.7.71
  
  Attaching package: 'terra'
  
  The following objects are masked from 'package:testthat':
  
      compare, describe
  
  > library(enerscape)
  > 
  > test_check("enerscape")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 6 ]
  > 
  > proc.time()
     user  system elapsed 
     4.93    0.25    5.18
Running 'test-all.R' [165s]
Running the tests in 'tests/test-all.R' failed.
Complete output:
  > library(testthat)
  > test_check("ensurer")
  Loading required package: ensurer
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 13 ]
  > 
  > proc.time()
     user  system elapsed 
     0.68    0.10    0.76
Package vignette with \VignetteEngine{} not specifying an engine package:
  'ensurer.Rmd'
Engines should be specified as \VignetteEngine{PKG::ENG}.
Running 'testthat.R' [171s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(entropart)
  > 
  > testthat::test_check("entropart")
  [ FAIL 0 | WARN 0 | SKIP 24 | PASS 0 ]
  
  ══ Skipped tests (24) ══════════════════════════════════════════════════════════
  • On CRAN (24): 'testCProfile.R:5:3', 'testCoverage.R:5:3',
    'testCoverage.R:18:3', 'testDivProfile.R:5:3', 'testDqZ.R:5:3',
    'testHurlbert.R:7:3', 'testLevel.R:9:3', 'testLevel.R:25:3',
    'testLevel.R:36:3', 'testMissingNorP.R:5:3', 'testNoSp.R:6:3',
    'testNoSp.R:23:3', 'testNoSp.R:45:3', 'testOrder2.R:12:3',
    'testOrder2.R:20:3', 'testPhyloEntropy.R:17:3', 'testPhyloEntropy.R:26:3',
    'testPhyloEntropy.R:41:3', 'testPhyloEntropy.R:61:3', 'testTsallis.R:12:3',
    'testTsallis.R:27:3', 'testTsallis.R:37:3', 'testTsallis.R:48:3',
    'testlnqexpq.R:11:3'
  
  [ FAIL 0 | WARN 0 | SKIP 24 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
    12.64    1.68   14.35
Running 'testthat.R' [157s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(enviGCMS)
  > 
  > test_check("enviGCMS")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     0.67    0.17    0.79
Running 'spelling.R' [0s]
  Running 'testthat.R' [364s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(envi)
  
  Welcome to {envi} version 0.1.19
  > help("envi") # for documentation
  > citation("envi") # for how to cite
  
  > 
  > ## WORKAROUND: Avoid R bug 18119 [1] that is trigger when for instance the
  > ## 'tcltk' package is loaded on macOS, or when running in the RStudio Console
  > ## [1] https://bugs.r-project.org/bugzilla/show_bug.cgi?id=18119
  > options(parallelly.makeNodePSOCK.setup_strategy = "sequential")
  > 
  > test_check("envi")
  
  
  [ FAIL 0 | WARN 3 | SKIP 4 | PASS 40 ]
  
  ══ Skipped tests (4) ═══════════════════════════════════════════════════════════
  • On CRAN (4): 'test-plot_cv.R:124:3', 'test-plot_obs.R:100:3',
    'test-plot_perturb.R:82:3', 'test-plot_predict.R:128:3'
  
  [ FAIL 0 | WARN 3 | SKIP 4 | PASS 40 ]
  > future::plan(future::sequential)
  > 
  > proc.time()
     user  system elapsed 
   167.48    3.42  203.18
installed size is  6.6Mb
  sub-directories of 1Mb or more:
    R      2.2Mb
    help   3.6Mb
Running 'testthat.R' [164s]
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)
  > library(epca)
  > 
  > test_check("epca")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     0.60    0.06    0.65
Running 'testthat.R' [211s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(epe4md)
  > 
  > test_check("epe4md")
  Starting 2 test processes
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 8 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On CRAN (2): 'test-epe4md_casos_payback.R:27:3', 'test-epe4md_calcula.R:5:3'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 8 ]
  > 
  > proc.time()
     user  system elapsed 
     1.93    0.65   52.51
installed size is  5.6Mb
  sub-directories of 1Mb or more:
    doc    2.9Mb
    help   2.5Mb
Running 'testthat.R' [161s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(epicontacts)
  > 
  > test_check("epicontacts")
  [ FAIL 0 | WARN 0 | SKIP 36 | PASS 43 ]
  
  ══ Skipped tests (36) ══════════════════════════════════════════════════════════
  • On CRAN (36): 'test_as.igraph.epicontacts.R:5:3',
    'test_as.igraph.epicontacts.R:25:3', 'test_colors.R:4:5',
    'test_colors.R:22:5', 'test_colors.R:35:5', 'test_get_clusters.R:5:3',
    'test_get_clusters.R:27:3', 'test_get_clusters.R:60:3',
    'test_get_clusters.R:81:3', 'test_get_clusters.R:99:3',
    'test_get_clusters.R:124:3', 'test_get_clusters.R:148:3',
    'test_get_degree.R:5:3', 'test_get_degree.R:25:3', 'test_get_degree.R:40:3',
    'test_get_id.R:4:5', 'test_get_id.R:40:5', 'test_get_pairwise.R:4:5',
    'test_get_pairwise.R:24:5', 'test_get_pairwise.R:41:5',
    'test_get_pairwise.R:51:5', 'test_graph3D.R:5:3', 'test_graph3D.R:20:3',
    'test_graph3D.R:54:3', 'test_make_epicontacts.R:4:3',
    'test_make_epicontacts.R:20:3', 'test_make_epicontacts.R:106:3',
    'test_plot.epicontacts.R:40:3', 'test_subset.epicontacts.R:5:5',
    'test_subset.epicontacts.R:88:5', 'test_subset_clusters_by_id.R:5:5',
    'test_subset_clusters_by_size.R:5:3', 'test_subset_clusters_by_size.R:25:5',
    'test_summary.epicontacts.R:4:5', 'test_vis_epicontacts.R:5:3',
    'test_vis_epicontacts.R:48:3'
  
  [ FAIL 0 | WARN 0 | SKIP 36 | PASS 43 ]
  > 
  > proc.time()
     user  system elapsed 
     1.89    0.29    2.14
Running 'testthat.R' [153s]
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)
  > library(EpiForsk)
  > 
  > test_check("EpiForsk")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
  > 
  > proc.time()
     user  system elapsed 
     2.31    0.42    2.67
Package suggested but not available for checking: 'epidict'
Running 'testthat.R' [172s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(epinetr)
  > 
  > test_check("epinetr")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 117 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-runSim.R:48:3'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 117 ]
  > 
  > proc.time()
     user  system elapsed 
     8.51    0.46    8.96
installed size is  9.6Mb
  sub-directories of 1Mb or more:
    help   2.1Mb
    libs   6.5Mb
S3 methods shown with full name in Rd file 'addDrug.Lexis.Rd':
  'addDrug.Lexis'

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.
Running 'testthat.R' [167s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(episcan)
  > test_check("episcan")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 2 ]
  > 
  > proc.time()
     user  system elapsed 
     0.81    0.07    0.85
Running 'testthat.R' [155s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(epitrix)
  > library(distcrete)
  > 
  > test_check("epitrix")
  [ FAIL 0 | WARN 0 | SKIP 13 | PASS 48 ]
  
  ══ Skipped tests (13) ══════════════════════════════════════════════════════════
  • On CRAN (13): 'test_fit_discrete.R:3:5', 'test_fit_discrete.R:14:5',
    'test_fit_discrete.R:25:3', 'test_fit_discrete.R:33:3',
    'test_fit_discrete.R:41:3', 'test_gamma.R:3:5', 'test_gamma.R:16:3',
    'test_hash_names.R:3:5', 'test_hash_names.R:28:5', 'test_hash_names.R:47:5',
    'test_hash_names.R:59:3', 'test_r_to_R0.R:3:3', 'test_rename.R:6:3'
  
  [ FAIL 0 | WARN 0 | SKIP 13 | PASS 48 ]
  > 
  > proc.time()
     user  system elapsed 
     2.12    0.32    2.43
Running 'testthat.R' [193s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(EPLSIM)
  > 
  > test_check('EPLSIM')
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 11 ]
  > 
  > proc.time()
     user  system elapsed 
    16.56    4.12   20.73
Running 'testthat.R' [193s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(epocakir)
  > 
  > test_check("epocakir")
  [ FAIL 0 | WARN 9 | SKIP 0 | PASS 603 ]
  
  [ FAIL 0 | WARN 9 | SKIP 0 | PASS 603 ]
  > 
  > proc.time()
     user  system elapsed 
    18.35    0.43   18.73
Running 'testthat.R' [154s]
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)
  > library(epo)
  > 
  > test_check("epo")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 29 ]
  > 
  > proc.time()
     user  system elapsed 
     1.12    0.26    1.42
Running 'testthat.R' [162s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > # Copyright 2019-2019 Steven E. Pav. All Rights Reserved.
  > # Author: Steven E. Pav
  > 
  > # This file is part of epsiwal.
  > #
  > # epsiwal 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.
  > #
  > # epsiwal 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 epsiwal.  If not, see <http://www.gnu.org/licenses/>.
  > 
  > # env var:
  > # nb: 
  > # see also:
  > # todo:
  > # changelog: 
  > #
  > # Created: 2019-06-10
  > # Copyright: Steven E. Pav, 2019-2019
  > # Author: Steven E. Pav
  > # Comments: Steven E. Pav
  > 
  > # because Hadley says it should be like this.
  > # see https://github.com/hadley/devtools/wiki/Testing
  > 
  > library(testthat)
  > library(epsiwal)
  > 
  > test_check("epsiwal")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 21 ]
  > 
  > #for vim modeline: (do not edit)
  > # vim:fdm=marker:fmr=FOLDUP,UNFOLD:cms=#%s:syn=r:ft=r
  > 
  > proc.time()
     user  system elapsed 
     0.70    0.12    0.82
Running 'testthat.R' [187s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(epubr)
  > 
  > test_check("epubr")
  [ FAIL 0 | WARN 2 | SKIP 0 | PASS 52 ]
  
  [ FAIL 0 | WARN 2 | SKIP 0 | PASS 52 ]
  > 
  > proc.time()
     user  system elapsed 
    24.90    1.28   26.23
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(eq5d)
  > 
  > test_check("eq5d")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 858 ]
  > 
  > proc.time()
     user  system elapsed 
     6.26    0.56    6.84
Running 'testthat.R' [207s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(erah)
  
  
        _____        _
       |  __ \      | |        eRah R package:
    ___| |__) | __ _| |__   	 ----------------
   / _ \  _   // _` |  _ \     Untargeted GC-MS metabolomics profiling
  |  __/ |  \ \ (_| | | | |
   \___|_|   \_\__,_|_| |_|    Version 2.0.1
  
   - Type 'citation('erah')' for citing this R package in publications.
   - Type 'vignette('eRahManual', package='erah')' for a tutorial on eRah's usage.
   - For bugs, problems and issues, please do not hesitate in contacting xavier.domingoa@eurecat.org or opening an issue on the Github repository (https://github.com/xdomingoal/erah-devel/issues).
  > 
  > test_check("erah")
  
   Updating alignment table... 
  Model fitted! 
  Constructing matrix database... 
  Comparing spectra... 
  Done! 
  [ FAIL 0 | WARN 2 | SKIP 0 | PASS 15 ]
  
  [ FAIL 0 | WARN 2 | SKIP 0 | PASS 15 ]
  > 
  > proc.time()
     user  system elapsed 
    41.79    5.87   47.67
Running 'spelling.R' [155s]
  Running 'testthat.R' [181s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.14    0.04    0.18 
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(era)
  > 
  > test_check("era")
  [ FAIL 0 | WARN 0 | SKIP 6 | PASS 118 ]
  
  ══ Skipped tests (6) ═══════════════════════════════════════════════════════════
  • On CRAN (6): 'test-era.R:100:3', 'test-era.R:104:3',
    'test-s3-era_year.R:18:3', 'test-s3-era_year.R:22:3', 'test-yr.R:89:3',
    'test-yr.R:93:3'
  
  [ FAIL 0 | WARN 0 | SKIP 6 | PASS 118 ]
  > 
  > proc.time()
     user  system elapsed 
    10.21    0.54   10.75
Running 'testthat.R' [170s]
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)
  > library(erfe)
  > 
  > test_check("erfe")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 13 ]
  > 
  > proc.time()
     user  system elapsed 
     1.81    0.34    2.14
Running 'testthat.R' [191s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > #  File tests/testthat.R in package ergm.count, part of the
  > #  Statnet suite of packages for network analysis, https://statnet.org .
  > #
  > #  This software is distributed under the GPL-3 license.  It is free,
  > #  open source, and has the attribution requirements (GPL Section 7) at
  > #  https://statnet.org/attribution .
  > #
  > #  Copyright 2008-2022 Statnet Commons
  > ################################################################################
  > library(testthat)
  > library(ergm.count)
  Loading required package: ergm
  Loading required package: network
  
  'network' 1.18.2 (2023-12-04), part of the Statnet Project
  * 'news(package="network")' for changes since last version
  * 'citation("network")' for citation information
  * 'https://statnet.org' for help, support, and other information
  
  
  'ergm' 4.6.0 (2023-12-17), part of the Statnet Project
  * 'news(package="ergm")' for changes since last version
  * 'citation("ergm")' for citation information
  * 'https://statnet.org' for help, support, and other information
  
  'ergm' 4 is a major update that introduces some backwards-incompatible
  changes. Please type 'news(package="ergm")' for a list of major
  changes.
  
  
  'ergm.count' 4.1.1 (2022-05-24), part of the Statnet Project
  * 'news(package="ergm.count")' for changes since last version
  * 'citation("ergm.count")' for citation information
  * 'https://statnet.org' for help, support, and other information
  
  > 
  > test_check("ergm.count")
  Starting 2 test processes
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 23 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 23 ]
  > 
  > proc.time()
     user  system elapsed 
     2.45    0.59   19.00
Running 'testthat.R' [194s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > #  File tests/testthat.R in package ergm.multi, part of the
  > #  Statnet suite of packages for network analysis, https://statnet.org .
  > #
  > #  This software is distributed under the GPL-3 license.  It is free,
  > #  open source, and has the attribution requirements (GPL Section 7) at
  > #  https://statnet.org/attribution .
  > #
  > #  Copyright 2003-2024 Statnet Commons
  > ################################################################################
  > library(testthat)
  > library(ergm.multi)
  Loading required package: ergm
  Loading required package: network
  
  'network' 1.18.2 (2023-12-04), part of the Statnet Project
  * 'news(package="network")' for changes since last version
  * 'citation("network")' for citation information
  * 'https://statnet.org' for help, support, and other information
  
  
  'ergm' 4.6.0 (2023-12-17), part of the Statnet Project
  * 'news(package="ergm")' for changes since last version
  * 'citation("ergm")' for citation information
  * 'https://statnet.org' for help, support, and other information
  
  'ergm' 4 is a major update that introduces some backwards-incompatible
  changes. Please type 'news(package="ergm")' for a list of major
  changes.
  
  
  'ergm.multi' 0.2.1 (2024-02-20), part of the Statnet Project
  * 'news(package="ergm.multi")' for changes since last version
  * 'citation("ergm.multi")' for citation information
  * 'https://statnet.org' for help, support, and other information
  
  
  Attaching package: 'ergm.multi'
  
  The following object is masked from 'package:ergm':
  
      snctrl
  
  > 
  > test_check("ergm.multi")
  Starting 2 test processes
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 42 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 42 ]
  > 
  > proc.time()
     user  system elapsed 
     2.68    0.64   34.03
S3 methods shown with full name in Rd file 'summary.error_interval.Rd':
  'summary.error_interval'

S3 methods shown with full name in Rd file 'summary.measure.Rd':
  'summary.measure'

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.
Running 'testthat.R' [165s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(err)
  > 
  > test_check("err")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 78 ]
  > 
  > proc.time()
     user  system elapsed 
     0.96    0.15    1.10
Running 'testthat.R' [282s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(eRTG3D)
  > 
  > test_check("eRTG3D")
  [ FAIL 0 | WARN 3 | SKIP 0 | PASS 106 ]
  
  [ FAIL 0 | WARN 3 | SKIP 0 | PASS 106 ]
  > 
  > proc.time()
     user  system elapsed 
    96.65   11.31  126.34
Invalid package aliases in Rd file 'esaBcv_package.Rd':
  'esaBcv_package-package'
Running 'test-all.R' [169s]
Running the tests in 'tests/test-all.R' failed.
Complete output:
  > library(testthat)
  > library(esaddle)
  > 
  > test_package("esaddle")
  No installed testthat tests found for esaddle
  > 
  > proc.time()
     user  system elapsed 
     0.51    0.10    0.61
installed size is 14.0Mb
  sub-directories of 1Mb or more:
    doc  13.3Mb
Running 'testthat.R' [167s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(eSDM)
  > 
  > test_check("eSDM")
  [ FAIL 0 | WARN 4 | SKIP 0 | PASS 42 ]
  
  [ FAIL 0 | WARN 4 | SKIP 0 | PASS 42 ]
  > 
  > proc.time()
     user  system elapsed 
     2.71    0.32    3.03
Running 'testthat.R' [314s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > test_check("essHist")
  Loading required package: essHist
  [ FAIL 0 | WARN 3 | SKIP 0 | PASS 70 ]
  
  [ FAIL 0 | WARN 3 | SKIP 0 | PASS 70 ]
  > 
  > proc.time()
     user  system elapsed 
   152.07    0.75  152.90
Running 'spelling.R' [158s]
  Running 'testthat.R' [118s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.15    0.04    0.18
Running 'testthat.R' [389s]
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)
  > library(estimators)
  > 
  > test_check("estimators")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 140 ]
  > 
  > proc.time()
     user  system elapsed 
   224.57    4.75  229.51
Running 'sleep.R' [163s]
  Running 'testthat.R' [26s]
Running the tests in 'tests/sleep.R' failed.
Complete output:
  > library(estimatr)
  > lm_robust(extra~group, sleep)
              Estimate Std. Error  t value   Pr(>|t|)   CI Lower CI Upper DF
  (Intercept)     0.75  0.5657345 1.325710 0.20151554 -0.4385641 1.938564 18
  group2          1.58  0.8490910 1.860813 0.07918671 -0.2038740 3.363874 18
  > 
  > proc.time()
     user  system elapsed 
     0.46    0.14    0.53
Running 'testthat.R' [265s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(esvis)
  > 
  > test_check("esvis")
  [ FAIL 0 | WARN 19 | SKIP 0 | PASS 88 ]
  
  [ FAIL 0 | WARN 19 | SKIP 0 | PASS 88 ]
  > 
  > proc.time()
     user  system elapsed 
   106.25    1.32  107.65
installed size is  5.1Mb
  sub-directories of 1Mb or more:
    extdata   4.0Mb
Running 'testthat.R' [182s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(etl)
  Loading required package: dplyr
  
  Attaching package: 'dplyr'
  
  The following object is masked from 'package:testthat':
  
      matches
  
  The following objects are masked from 'package:stats':
  
      filter, lag
  
  The following objects are masked from 'package:base':
  
      intersect, setdiff, setequal, union
  
  > 
  > test_check("etl")
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 31 ]
  
  ══ Skipped tests (3) ═══════════════════════════════════════════════════════════
  • On CRAN (2): 'test-etl.R:99:3', 'test-etl.R:115:3'
  • empty test (1): 'test-etl.R:49:1'
  
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 31 ]
  Warning message:
  call dbDisconnect() when finished working with a connection 
  > 
  > proc.time()
     user  system elapsed 
     3.79    2.15   13.04
Running 'testthat.R' [175s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(eudract)
  > 
  > test_check("eudract")
  [ FAIL 0 | WARN 4 | SKIP 8 | PASS 78 ]
  
  ══ Skipped tests (8) ═══════════════════════════════════════════════════════════
  • Need to have the userid/password as environment variables (4):
    'test_basic.R:305:61', 'test_basic.R:324:61', 'test_basic.R:343:61',
    'test_errors.R:191:71'
  • On CRAN (4): 'test_dotplot.R:35:3', 'test_dotplot.R:65:3',
    'test_dotplot.R:102:1', 'test_dotplot.R:112:1'
  
  [ FAIL 0 | WARN 4 | SKIP 8 | PASS 78 ]
  > 
  > 
  > proc.time()
     user  system elapsed 
     8.56    0.51    9.07
Running 'testthat.R' [162s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(EUfootball)
  > 
  > test_check("EUfootball")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 2 ]
  > 
  > proc.time()
     user  system elapsed 
     0.73    0.14    0.87
Running 'spelling.R' [165s]
  Running 'testthat.R' [13s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly=TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE, skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.15    0.07    0.21
Running 'testthat.R' [162s]
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)
  > library(eummd)
  Loading required package: Rcpp
  > 
  > test_check("eummd")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 29 ]
  > 
  > proc.time()
     user  system elapsed 
     1.09    0.25    1.28
Running 'testthat.R' [163s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(eurlex)
  > 
  > test_check("eurlex")
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 0 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On CRAN (2): 'test-fetch.R:3:3', 'test-query.R:3:3'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     0.73    0.15    0.89
Running 'testthat.R' [155s]
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)
  > library(eurocordexr)
  > 
  > test_check("eurocordexr")
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 34 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On CRAN (2): 'test-check_inventory.R:8:3',
    'test-check_inventory_cmip5.R:15:3'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 34 ]
  > 
  > proc.time()
     user  system elapsed 
     2.46    0.45    2.90
Running 'testthat.R' [144s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(europeanaR)
  > 
  > test_check("europeanaR")
  [ FAIL 0 | WARN 0 | SKIP 8 | PASS 0 ]
  
  ══ Skipped tests (8) ═══════════════════════════════════════════════════════════
  • On CRAN (8): 'test-download_media.R:2:3', 'test-download_media.R:17:3',
    'test-query_record_api.R:2:3', 'test-query_search_api.R:2:3',
    'test-query_search_api.R:11:3', 'test-query_search_api.R:20:3',
    'test-tidy_cursored_search.R:2:3', 'test-tidy_search_items.R:2:3'
  
  [ FAIL 0 | WARN 0 | SKIP 8 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     1.04    0.15    1.18
Running 'testthat.R' [179s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(eventglm)
  > 
  > test_check("eventglm")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 34 ]
  > 
  > proc.time()
     user  system elapsed 
     6.90    1.07    8.00
installed size is  6.9Mb
  sub-directories of 1Mb or more:
    doc   6.0Mb
Documented arguments not in \usage in Rd file 'doHttrRequest.Rd':
  'params' 'customConfig'

Documented arguments not in \usage in Rd file 'errorMessage.Rd':
  'test_me'

Documented arguments not in \usage in Rd file 'isError.Rd':
  'test_me'

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 'spelling.R' [160s]
  Running 'testthat.R' [1s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.17    0.03    0.17
Running 'testthat.R' [168s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(evoper)
  Loading required package: rrepast
  > 
  > test_check("evoper")
  [ FAIL 0 | WARN 0 | SKIP 5 | PASS 0 ]
  
  ══ Skipped tests (5) ═══════════════════════════════════════════════════════════
  • On CRAN (5): 'test-metaheuristics.R:6:3', 'test-metaheuristics.R:30:3',
    'test-metaheuristics.R:54:3', 'test-metaheuristics.R:78:3',
    'test-metaheuristics.R:102:3'
  
  [ FAIL 0 | WARN 0 | SKIP 5 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     3.29    0.62    3.92
installed size is  6.7Mb
  sub-directories of 1Mb or more:
    data      2.5Mb
    doc       1.6Mb
    extdata   2.4Mb
Running 'testthat.R' [226s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(exactextractr)
  > 
  > test_check("exactextractr")
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 469 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 469 ]
  > 
  > proc.time()
     user  system elapsed 
    61.29    3.51   64.85
Package suggested but not available for checking: 'ExactData'
Running 'encodings.R' [164s]
Running the tests in 'tests/encodings.R' failed.
Complete output:
  > if(!identical(Sys.getlocale(), "C")) {
  + library("exams")
  + exams2pdf("currency8.Rnw", dir = tempfile())
  + }
  > 
  > proc.time()
     user  system elapsed 
     0.50    0.12    6.17
Running 'ex1.R' [167s]
Running the tests in 'tests/ex1.R' failed.
Complete output:
  > library(ExcessMass)
  > 
  > #very simple example to test the work of localmax & excessm. 
  > #Excess mass should be 0.4 (taking end point correction into account)
  > x=c(0,3,4,5,8)
  > excessm(x,0.1)
  $intervals
    Start Index End Index Start Point End Point
  1           2         4           3         5
  
  $excess_mass
  [1] 0.4
  
  > 
  > #Another easy to calculate example
  > #excess mass increases from 0.45 under allowing for one mode to 0.75 under two modes
  > x=c(1,2,2,3,3,9,9,10,11,11)
  > excessm(x,0.05, M=2)
  $intervals
    Start Index End Index Start Point End Point
  1           1         5           1         3
  2           6        10           9        11
  
  $excess_mass
  [1] 0.5 0.8
  
  > 
  > #Testing exmplot using the same data as above.
  > #Getting the corresponding values by hand or by using the excessm function
  > 
  > Lambda=c(0.025,0.05,0.075,0.01)
  > exmplot(x, M=2, Lambda=Lambda)
  $max_dist
  [1] 0.35
  
  $max_dist_Lambda
  [1] 0.075
  
  > 
  > ##Note that there is no need in testing exmsilhouette & mexmsilhouette,
  > #as they use the data of excessm and visualize it
  > #The validity of search max Lambda can be seen in the plot representation
  > 
  > proc.time()
     user  system elapsed 
     0.25    0.07    0.31
Running 'testthat.R' [174s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(exdex)
  > 
  > test_check("exdex")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 309 ]
  > 
  > proc.time()
     user  system elapsed 
    13.07    3.68   16.81
installed size is 14.2Mb
  sub-directories of 1Mb or more:
    exiftool  14.1Mb
Running 'testthat.R' [188s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(exifr)
  Using ExifTool version 12.22
  > 
  > test_check("exifr")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 44 ]
  > 
  > proc.time()
     user  system elapsed 
     1.26    0.81   29.51
Package suggested but not available for checking: 'cec2013'
Running 'spelling.R' [161s]
  Running 'testthat.R' [195s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if (requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE, skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.18    0.04    0.20 
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)
  > library(experDesign)
  > 
  > test_check("experDesign")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 127 ]
  > 
  > proc.time()
     user  system elapsed 
    32.42    0.87   33.32
installed size is  9.0Mb
  sub-directories of 1Mb or more:
    doc    1.7Mb
    libs   5.7Mb
Running 'expint-tests.R' [0s]
  Running 'gammainc-tests.R' [164s]
Running the tests in 'tests/gammainc-tests.R' failed.
Complete output:
  > ### == expint: Exponential Integral and Incomplete Gamma Function ==
  > ###
  > ### Tests for the incomplete gamma function
  > ###
  > ###    G(a,x) = int_x^infty t^{a-1} exp(-t) dt
  > ###
  > ### for a *real* and x >= 0.
  > ###
  > ### AUTHOR: Vincent Goulet <vincent.goulet@act.ulaval.ca>
  > 
  > ## Load the package
  > library(expint)
  > 
  > ## a > 0; direct link to the standard incomplete gamma function
  > x <- c(0.2, 2.5, 5, 8, 10)
  > a <- 1.2
  > stopifnot(exprs = {
  +     identical(gammainc(a, x),
  +               gamma(a) * pgamma(x, a, 1, lower = FALSE))
  + })
  > 
  > ## a = 0; direct link to the exponential integral
  > x <- c(0.2, 2.5, 5, 8, 10)
  > a <- 0
  > stopifnot(exprs = {
  +     identical(gammainc(a, x), expint(x))
  +     identical(gammainc(a, x), expint_E1(x))
  + })
  > 
  > ## a < 0; compare to the recursive formula
  > x <- c(0.2, 2.5, 5, 8, 10)
  > a <- c(-0.25, -1.2, -2)
  > stopifnot(exprs = {
  +     all.equal(gammainc(a[1], x),
  +               -(x^a[1] * exp(-x))/a[1] +
  +               gamma(a[1] + 1) * pgamma(x, a[1] + 1, 1, lower = FALSE)/a[1])
  +     all.equal(gammainc(a[2], x),
  +               -(x^a[2] * exp(-x))/a[2] +
  +               (-(x^(a[2] + 1) * exp(-x))/(a[2] + 1) +
  +                gamma(a[2] + 2) * pgamma(x, a[2] + 2, 1, lower = FALSE)/(a[2] + 1))/a[2])
  +     all.equal(
  +         gammainc(a[3], x),
  +         -(x^a[3] * exp(-x))/a[3] +
  +         (-(x^(a[3] + 1) * exp(-x))/(a[3] + 1) + expint_E1(x)/(a[3] + 1))/a[3])
  + })
  > 
  > proc.time()
     user  system elapsed 
     0.20    0.01    0.20
Running 'testthat.R' [180s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(expirest)
  > 
  > test_check("expirest")
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 777 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 777 ]
  > 
  > proc.time()
     user  system elapsed 
    20.39    0.70   21.09
Running 'testthat.R' [158s]
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)
  > library(explore)
  
  Attaching package: 'explore'
  
  The following object is masked from 'package:testthat':
  
      describe
  
  > 
  > test_check("explore")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 155 ]
  > 
  > proc.time()
     user  system elapsed 
     5.96    0.98    7.76
Running 'testthat.R' [165s]
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)
  > library(ExposR)
  > 
  > test_check("ExposR")
  Path set to D:/RCompile/CRANpkg/lib/4.4/ExposR
  ... Summarizing raster ...
  Rows: 111  Columns: 128
  Northing: 42.470047 to 42.50485 degrees
  Easting: -71.910123 to -71.869989 degrees
  Cell height: 35 meters
  Cell width: 26 meters
  Values: 271 to 610 meters
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 0 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test_ExposR.R:7:1'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     5.12    0.21    5.34
Running 'testthat.R' [184s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(expstudy)
  
  Attaching package: 'expstudy'
  
  The following object is masked from 'package:stats':
  
      aggregate
  
  > 
  > test_check("expstudy")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 20 ]
  > 
  > proc.time()
     user  system elapsed 
    20.78    2.65   23.40
Running 'testthat.R' [182s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(extraDistr)
  > 
  > # use fixed random seed for all tests for reproducibility
  > set.seed(42)
  > 
  > test_check("extraDistr")
  [ FAIL 0 | WARN 0 | SKIP 12 | PASS 3055 ]
  
  ══ Skipped tests (12) ══════════════════════════════════════════════════════════
  • On CRAN (12): 'test-multivariate-distributions.R:7:3',
    'test-multivariate-distributions.R:57:3', 'test-p-r-random-tests.R:45:3',
    'test-pure-r-benchmarks.R:53:3', 'test-pure-r-benchmarks.R:71:3',
    'test-pure-r-benchmarks.R:86:3', 'test-pure-r-benchmarks.R:104:3',
    'test-pure-r-benchmarks.R:132:3', 'test-pure-r-benchmarks.R:204:3',
    'test-pure-r-benchmarks.R:224:3', 'test-pure-r-benchmarks.R:298:3',
    'test-rng-coverge.R:12:3'
  
  [ FAIL 0 | WARN 0 | SKIP 12 | PASS 3055 ]
  > 
  > proc.time()
     user  system elapsed 
    13.39    3.15   16.68
Running 'testthat.R' [158s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > 
  > library(testthat)
  > library(extraoperators)
  > 
  > test_check("extraoperators")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 176 ]
  > 
  > proc.time()
     user  system elapsed 
     1.57    0.50    2.00
Package suggested but not available for checking: 'exuberdata'
Running 'spelling.R' [0s]
  Running 'testthat.R' [196s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(exuber)
  > 
  > test_check("exuber")
  [ FAIL 0 | WARN 0 | SKIP 4 | PASS 236 ]
  
  ══ Skipped tests (4) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-cv.R:4:3'
  • Removed fortify (1): 'test-fortify.R:3:1'
  • TRUE (2): 'test-deprecated.R:3:1', 'test-seed.R:2:1'
  
  [ FAIL 0 | WARN 0 | SKIP 4 | PASS 236 ]
  > 
  > proc.time()
     user  system elapsed 
    26.39    0.67   27.06
Running 'testthat.R' [177s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(eyelinker)
  > 
  > test_check("eyelinker")
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 92 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 92 ]
  > 
  > proc.time()
     user  system elapsed 
     5.06    2.42    5.95
Running 'testthat.R' [168s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > Sys.setenv("R_TESTS" = "")
  > 
  > library(testthat)
  > library(eyelinkReader)
  Loading required package: RcppProgress
  Loading required package: rlang
  
  Attaching package: 'rlang'
  
  The following objects are masked from 'package:testthat':
  
      is_false, is_null, is_true
  
  Failed to compile EDF API interface, please read installation instructions.
  > 
  > test_check("eyelinkReader")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 30 ]
  > 
  > proc.time()
     user  system elapsed 
     1.62    0.23    1.84
Problems with news in 'NEWS.md':
  Cannot extract version info from the following section titles:
    Functions and objects (details)
Running 'testthat.R' [172s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(eye)
  > 
  > test_check("eye")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 164 ]
  > 
  > proc.time()
     user  system elapsed 
    10.18    0.48   10.62
Running 'testthat.R' [222s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(eyetrackingR)
  Loading required package: dplyr
  
  Attaching package: 'dplyr'
  
  The following object is masked from 'package:testthat':
  
      matches
  
  The following objects are masked from 'package:stats':
  
      filter, lag
  
  The following objects are masked from 'package:base':
  
      intersect, setdiff, setequal, union
  
  > 
  > test_check("eyetrackingR")
  Test Type:	 lmer 
  Predictor:	 (Intercept) 
  Formula:	 Prop ~ AOI + (1 | Trial) 
  Runs of Significant Time Bins: 
  Positive Run 1  ===== 
  	Time:		 15500 - 21000 Test Type:	 boot_splines 
  Predictor:	 Target 
  Formula:	 Prop ~ Target 
  Runs of Significant Time Bins: 
  Positive Run 1  ===== 
  	Time:		 15900 - 21000 [ FAIL 0 | WARN 1 | SKIP 0 | PASS 42 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 42 ]
  > 
  > proc.time()
     user  system elapsed 
    57.06    1.71   58.89
Running 'testthat.R' [165s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ezEDA)
  > 
  > test_check("ezEDA")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 87 ]
  > 
  > proc.time()
     user  system elapsed 
     2.01    0.35    2.34
Running 'testthat.R' [161s]
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)
  > library(FaaSr)
  > 
  > test_check("FaaSr")
  NULL
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 35 ]
  > 
  > proc.time()
     user  system elapsed 
     1.84    0.31    2.25
Running 'testthat.R' [190s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fable.prophet)
  Loading required package: Rcpp
  Loading required package: fabletools
  > 
  > test_check("fable.prophet")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 13 ]
  > 
  > proc.time()
     user  system elapsed 
    22.46    2.84   25.32
Running 'testthat.R' [154s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(FactorAssumptions)
  Loading required package: MASS
  Loading required package: psych
  
  Attaching package: 'psych'
  
  The following object is masked from 'package:testthat':
  
      describe
  
  > 
  > test_check("FactorAssumptions")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     0.68    0.18    0.86
Problems with news in 'NEWS.md':
  Cannot extract version info from the following section titles:
    minor changes
Running 'spelling.R' [0s]
  Running 'testthat.R' [164s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(FACT)
  > 
  > test_check("FACT")
  Loading required package: ggplot2
  Welcome! Want to learn more? See two factoextra-related books at https://goo.gl/ve3WBa
  Loading required package: mlr3
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
  > 
  > proc.time()
     user  system elapsed 
     8.39    0.76    9.17
Running 'testthat.R' [167s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)	
  > library(R6)	
  > library(factset.protobuf.stach.v2)	
  Loading required package: RProtoBuf
  > 
  > test_check("factset.protobuf.stach.v2") 
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 18 ]
  > 
  > proc.time()
     user  system elapsed 
     1.01    0.17    1.17
Running 'testthat.R' [178s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fairadapt)
  > 
  > test_check("fairadapt")
  [ FAIL 0 | WARN 0 | SKIP 5 | PASS 51 ]
  
  ══ Skipped tests (5) ═══════════════════════════════════════════════════════════
  • On CRAN (3): 'test-generics.R:38:3', 'test-generics.R:71:3',
    'test-generics.R:109:3'
  • On Windows (2): 'test-boot.R:59:3', 'test-fairadapt.R:46:3'
  
  [ FAIL 0 | WARN 0 | SKIP 5 | PASS 51 ]
  > 
  > proc.time()
     user  system elapsed 
     6.70    1.95    7.14
Running 'testthat.R' [187s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fakir)
  > 
  > test_check("fakir")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 143 ]
  > 
  > proc.time()
     user  system elapsed 
    18.62   18.90   37.56
Documented arguments not in \usage in Rd file 'cache.Rd':
  'data' 'reset'

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 'spelling.R' [0s]
  Running 'testthat.R' [157s]
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)
  > library(farr)
  
  Attaching package: 'farr'
  
  The following object is masked from 'package:base':
  
      truncate
  
  > 
  > test_check("farr")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 11 ]
  > 
  > proc.time()
     user  system elapsed 
     3.03    0.60    4.45
Running 'testthat.R' [161s]
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)
  > library(farver)
  > 
  > test_check("farver")
  [ FAIL 0 | WARN 2 | SKIP 0 | PASS 81 ]
  
  [ FAIL 0 | WARN 2 | SKIP 0 | PASS 81 ]
  > 
  > proc.time()
     user  system elapsed 
     1.43    0.34    1.79
installed size is  5.1Mb
  sub-directories of 1Mb or more:
    doc    3.0Mb
    help   1.3Mb
Running 'testthat.R' [189s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > 
  > 
  > library(testthat)
  > library(fastai)
  
  Attaching package: 'fastai'
  
  The following object is masked from 'package:stats':
  
      reshape
  
  The following object is masked from 'package:graphics':
  
      plot
  
  The following objects are masked from 'package:grDevices':
  
      cm, colors, rgb2hsv
  
  The following object is masked from 'package:methods':
  
      show
  
  The following objects are masked from 'package:base':
  
      Recall, plot
  
  > library(reticulate)
  > library(magrittr)
  
  Attaching package: 'magrittr'
  
  The following objects are masked from 'package:testthat':
  
      equals, is_less_than, not
  
  > library(data.table)
  > library(ggplot2)
  > library(ggpubr)
  > 
  > test_check("fastai")
  [ FAIL 0 | WARN 0 | SKIP 4 | PASS 0 ]
  
  ══ Skipped tests (4) ═══════════════════════════════════════════════════════════
  • fastai not available for testing (4): 'test-text.R:5:1', 'test-text.R:10:1',
    'test-text.R:19:1', 'test-text.R:23:1'
  
  [ FAIL 0 | WARN 0 | SKIP 4 | PASS 0 ]
  > 
  > 
  > proc.time()
     user  system elapsed 
     2.89    0.70   30.29
Running 'fastbeta.R' [175s]
  Running 'ptpi.R' [0s]
  Running 'sir.R' [0s]
Running the tests in 'tests/fastbeta.R' failed.
Complete output:
  > library(grDevices, pos = "package:base", verbose = FALSE)
  > library(    stats, pos = "package:base", verbose = FALSE)
  > library(    utils, pos = "package:base", verbose = FALSE)
  > 
  > library(fastbeta)
  > options(warn = 2L, error = if (interactive()) recover)
  > 
  > data(sir.e02, package = "fastbeta")
  > a <- attributes(sir.e02)
  > 
  > series <- cbind(sir.e02[, c("Z.obs", "B")], mu = a[["mu"]](0))
  > colnames(series) <- c("Z.obs", "B", "mu")
  > constants <- c(S0 = sir.e02[1L, "S"],
  +                I0 = sir.e02[1L, "I"],
  +                R0 = sir.e02[1L, "R"],
  +                gamma = a[["gamma"]],
  +                delta = a[["delta"]])
  > 
  > X <- fastbeta(series, constants,
  +               prob = a[["prob"]], delay = a[["delay"]])
  > str(X)
   Time-Series [1:261, 1:4] from 0 to 260: 58566 58157 57690 56631 55732 ...
   - attr(*, "dimnames")=List of 2
    ..$ : NULL
    ..$ : chr [1:4] "S" "I" "R" "beta"
  > 
  > stopifnot(exprs = {
  + 	is.double(X)
  + 	is.mts(X)
  + 	identical(dim(X), c(nrow(sir.e02), 4L))
  + 	identical(dimnames(X), list(NULL, c("S", "I", "R", "beta")))
  + 	identical(tsp(X), tsp(sir.e02))
  + 	!anyNA(X[-nrow(X), ])
  + 	min(X, 0, na.rm = TRUE) >= 0
  + })
  > 
  > if (dev.interactive(TRUE))
  + 	plot(X)
  > 
  > proc.time()
     user  system elapsed 
     5.34    0.14    5.53 
  > 
  > proc.time()
     user  system elapsed 
     5.34    0.14    5.53
installed size is  9.0Mb
  sub-directories of 1Mb or more:
    doc    4.2Mb
    help   1.7Mb
    libs   1.9Mb
Running 'testthat.R' [341s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fastcpd)
  > 
  > test_check("fastcpd")
  Starting 2 test processes
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 98 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • Skip due to time limit on CRAN. (1): 'test-vignettes-comparison-pelt.R:4:1'
  • These tests are intended to be run manually. (1): 'test-experiments.R:1:1'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 98 ]
  > 
  > proc.time()
     user  system elapsed 
     3.39    0.65  163.71
Running 'spelling.R' [161s]
  Running 'testthat.R' [183s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.23    0.06    0.25 
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fastDummies)
  Thank you for using fastDummies!
  To acknowledge our work, please cite the package:
  Kaplan, J. & Schlegel, B. (2023). fastDummies: Fast Creation of Dummy (Binary) Columns and Rows from Categorical Variables. Version 1.7.1. URL: https://github.com/jacobkap/fastDummies, https://jacobkap.github.io/fastDummies/.
  > 
  > test_check("fastDummies")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 474 ]
  > 
  > proc.time()
     user  system elapsed 
     3.35    0.40    3.78
Documented arguments not in \usage in Rd file 'Get_C_R_K_Q.Rd':
  'have_noise'

Documented arguments not in \usage in Rd file 'Sample_KF_post.Rd':
  'C0'

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.
installed size is  5.6Mb
  sub-directories of 1Mb or more:
    images   3.1Mb
    libs     1.3Mb
installed size is  5.7Mb
  sub-directories of 1Mb or more:
    data   3.5Mb
    doc    1.1Mb
    libs   1.0Mb
Running 'testthat.R' [176s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fastglmpca)
  > test_check("fastglmpca")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 54 ]
  > 
  > proc.time()
     user  system elapsed 
    79.65    2.51   47.92
Found the following significant warnings:
  ica.c:100:25: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'size_t' {aka 'long long unsigned int'} [-Wformat=]
  ica.c:100:31: warning: format '%lu' expects argument of type 'long unsigned int', but argument 3 has type 'size_t' {aka 'long long unsigned int'} [-Wformat=]
See 'd:/Rcompile/CRANpkg/local/4.4/fastICA.Rcheck/00install.out' for details.
* used C compiler: 'gcc.exe (GCC) 13.2.0'
Running 'one-component.R' [164s]
Running the tests in 'tests/one-component.R' failed.
Complete output:
  > ## failed in 1.1-9
  > library(fastICA)
  > set.seed(49394)
  > S <- matrix(runif(10000), 5000, 2)
  > A <- matrix(c(1, 1, -1, 3), 2, 2, byrow = TRUE)
  > X <- S%*%A
  > a <- fastICA(X, 1, alg.typ = "parallel", fun = "logcosh", alpha = 1,
  +              method = "C", row.norm = FALSE, maxit = 200,
  +              tol = 0.0001, verbose = TRUE) # good
  Centering
  Whitening
  Symmetric FastICA using logcosh approx. to neg-entropy function
  Iteration 1 tol=0.000000
  > a <- fastICA(X, 1, alg.typ = "parallel", fun = "logcosh", alpha = 1,
  +              method = "R", row.norm = FALSE, maxit = 200,
  +              tol = 0.0001, verbose = TRUE) # fails
  Centering
  Whitening
  Symmetric FastICA using logcosh approx. to neg-entropy function
  Iteration 1 tol = 0
  > 
  > proc.time()
     user  system elapsed 
     0.20    0.04    0.23
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library("testthat")
  > library("FastImputation")
  > 
  > test_check("FastImputation")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 76 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • empty test (1): 'test_FastImputation.R:58:1'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 76 ]
  > 
  > proc.time()
     user  system elapsed 
     2.12    0.32    2.43
Package suggested but not available for checking: 'coxKM'
Running 'testthat.R' [211s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fastLaplace)
  > 
  > test_check("fastLaplace")
  Loading required package: nlme
  This is mgcv 1.9-1. For overview type 'help("mgcv-package")'.
  Loading required package: spam
  Spam version 2.10-0 (2023-10-23) is loaded.
  Type 'help( Spam)' or 'demo( spam)' for a short introduction 
  and overview of this package.
  Help for individual functions is also obtained by adding the
  suffix '.spam' to the function name, e.g. 'help( chol.spam)'.
  
  Attaching package: 'spam'
  
  The following objects are masked from 'package:base':
  
      backsolve, forwardsolve
  
  Loading required package: viridisLite
  
  Try help(fields) to get started.
  
  Attaching package: 'fields'
  
  The following object is masked from 'package:testthat':
  
      describe
  
  Loading required package: Rcpp
  Loading required package: batchmeans
  batchmeans: Consistent Batch Means Estimation of Monte Carlo Standard Errors
  Version 1.0-4 created on 2020-05-07.
  copyright (c) 2012-2020, Murali Haran, Penn State University
                           John Hughes
  For citation information, type citation("batchmeans").
  Type help(package = batchmeans) to get started.
  
  ngspatial: Fitting the Centered Autologistic and Sparse Spatial Generalized
  Linear Mixed Models for Areal Data
  Version 1.2-2 created on 2020-05-08.
  copyright (c) 2013-2020, John Hughes
  For citation information, type citation("ngspatial").
  Type help(package = ngspatial) to get started.
  
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 2 ]
  > 
  > proc.time()
     user  system elapsed 
    59.70    3.45   63.25
installed size is  6.3Mb
  sub-directories of 1Mb or more:
    data   4.8Mb
    libs   1.2Mb
Running 'testthat.R' [163s]
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)
  > library(fastMatMR)
  > 
  > test_check("fastMatMR")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 23 ]
  > 
  > proc.time()
     user  system elapsed 
     2.25    0.40    2.48
Running 'testthat.R' [176s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fastpos)
  > 
  > test_check("fastpos")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 13 ]
  > 
  > proc.time()
     user  system elapsed 
    20.07    3.81   23.89
Running 'testthat.R' [199s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fastRG)
  Loading required package: Matrix
  
  Attaching package: 'fastRG'
  
  The following object is masked from 'package:testthat':
  
      expectation
  
  > 
  > test_check("fastRG")
  
  Attaching package: 'igraph'
  
  The following object is masked from 'package:fastRG':
  
      sbm
  
  The following object is masked from 'package:testthat':
  
      compare
  
  The following objects are masked from 'package:stats':
  
      decompose, spectrum
  
  The following object is masked from 'package:base':
  
      union
  
  
  Attaching package: 'magrittr'
  
  The following objects are masked from 'package:testthat':
  
      equals, is_less_than, not
  
  
  Attaching package: 'tidygraph'
  
  The following object is masked from 'package:igraph':
  
      groups
  
  The following object is masked from 'package:testthat':
  
      matches
  
  The following object is masked from 'package:stats':
  
      filter
  
  
  Attaching package: 'dplyr'
  
  The following objects are masked from 'package:igraph':
  
      as_data_frame, groups, union
  
  The following object is masked from 'package:testthat':
  
      matches
  
  The following objects are masked from 'package:stats':
  
      filter, lag
  
  The following objects are masked from 'package:base':
  
      intersect, setdiff, setequal, union
  
  [ FAIL 0 | WARN 26 | SKIP 0 | PASS 98 ]
  
  [ FAIL 0 | WARN 26 | SKIP 0 | PASS 98 ]
  > 
  > proc.time()
     user  system elapsed 
    21.98    0.98   22.96
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fastRhockey)
  > 
  > test_check("fastRhockey")
  [ FAIL 0 | WARN 0 | SKIP 22 | PASS 0 ]
  
  ══ Skipped tests (22) ══════════════════════════════════════════════════════════
  • On CRAN (22): 'test-espn_nhl_teams.R:2:3', 'test-nhl_conferences.R:2:3',
    'test-nhl_conferences_info.R:2:3', 'test-nhl_divisions.R:2:3',
    'test-nhl_divisions_info.R:2:3', 'test-nhl_draft_prospects.R:2:3',
    'test-nhl_draft_prospects_info.R:2:3', 'test-nhl_draft_year.R:2:3',
    'test-nhl_game_boxscore.R:2:3', 'test-nhl_game_content.R:2:3',
    'test-nhl_game_feed.R:2:3', 'test-nhl_game_shifts.R:2:3',
    'test-nhl_player_info.R:2:3', 'test-nhl_player_stats.R:2:3',
    'test-nhl_schedule.R:2:3', 'test-nhl_teams.R:2:3',
    'test-nhl_teams_info.R:2:3', 'test-nhl_teams_roster.R:2:3',
    'test-nhl_teams_stats.R:2:3', 'test-phf_pbp.R:2:3',
    'test-phf_schedule.R:2:3', 'test-phf_team_box.R:3:3'
  
  [ FAIL 0 | WARN 0 | SKIP 22 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     2.07    0.46    2.50
installed size is  5.3Mb
  sub-directories of 1Mb or more:
    Rcgi      2.6Mb
    cgi-bin   2.5Mb
.run: no visible binding for global variable 'init'
.run: no visible global function definition for 'init'
.run: no visible binding for global variable 'run'
Undefined global functions or variables:
  init run
Package suggested but not available for checking: 'NNLM'
installed size is  6.2Mb
  sub-directories of 1Mb or more:
    data   4.2Mb
    libs   1.2Mb
Running 'testthat.R' [210s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fastTopics)
  > test_check("fastTopics")
  [ FAIL 0 | WARN 2 | SKIP 7 | PASS 243 ]
  
  ══ Skipped tests (7) ═══════════════════════════════════════════════════════════
  • NNLM cannot be loaded (1): 'test_fit_poisson_nmf.R:301:3'
  • on_cran is TRUE (6): 'test_de_analysis.R:109:3', 'test_de_analysis.R:156:3',
    'test_de_analysis.R:211:3', 'test_de_analysis.R:259:3',
    'test_de_analysis.R:315:3', 'test_de_analysis.R:370:3'
  
  [ FAIL 0 | WARN 2 | SKIP 7 | PASS 243 ]
  > 
  > proc.time()
     user  system elapsed 
    41.75    2.31   44.09
Running 'testthat.R' [246s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(faux)
  
  ************
  Welcome to faux. For support and examples visit:
  https://debruine.github.io/faux/
  - Get and set global package options with: faux_options()
  ************
  > 
  > expect_equal <- function(...) {
  +   testthat::expect_equal(..., check.environment=FALSE)
  + }
  > 
  > test_check("faux")
  [ FAIL 0 | WARN 5 | SKIP 14 | PASS 1369 ]
  
  ══ Skipped tests (14) ══════════════════════════════════════════════════════════
  • On CRAN (12): 'test-distributions.R:59:3', 'test-distributions.R:90:3',
    'test-distributions.R:113:3', 'test-distributions.R:136:3',
    'test-distributions.R:160:3', 'test-distributions.R:234:3',
    'test-distributions.R:292:3', 'test-distributions.R:340:3',
    'test-distributions.R:369:3', 'test-distributions.R:569:3',
    'test-plot_design.R:51:3', 'test-plot_design.R:341:3'
  • Too variable (1): 'test-distributions.R:473:3'
  • long checking function (1): 'test-norta.R:55:3'
  
  [ FAIL 0 | WARN 5 | SKIP 14 | PASS 1369 ]
  > 
  > proc.time()
     user  system elapsed 
    80.93    5.01   86.00
Running 'spelling.R' [0s]
  Running 'testthat.R' [228s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > suppressMessages(library(testthat))
  > 
  > test_check("fbar")
  Loading required package: fbar
  [ FAIL 0 | WARN 11 | SKIP 2 | PASS 46 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • known theoretical issue (2): 'test-full-size.R:36:3', 'test-full-size.R:46:3'
  
  [ FAIL 0 | WARN 11 | SKIP 2 | PASS 46 ]
  > 
  > proc.time()
     user  system elapsed 
    41.73    2.76   56.03
Running 'testthat.R' [179s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fcfdr)
  > 
  > test_check("fcfdr")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 3 ]
  > 
  > proc.time()
     user  system elapsed 
     3.59    0.45    4.04
Running 'testthat.R' [251s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(FCVAR)
  > 
  > test_check("FCVAR")
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 32 ]
  
  ══ Skipped tests (3) ═══════════════════════════════════════════════════════════
  • On CRAN (3): 'test_estn.R:152:3', 'test_estn.R:213:3', 'test_estn.R:288:3'
  
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 32 ]
  > 
  > proc.time()
     user  system elapsed 
    76.04   13.56   89.68
installed size is  7.4Mb
  sub-directories of 1Mb or more:
    R      1.8Mb
    doc    1.5Mb
    help   2.1Mb
    libs   1.5Mb
Unexported object imported by a ':::' call: 'fdapace:::interp2lin'
  See the note in ?`:::` about the use of this operator.
Running 'spelling.R' [0s]
  Running 'testthat.R' [150s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fdaoutlier)
  > 
  > test_check("fdaoutlier")
  [ FAIL 0 | WARN 0 | SKIP 9 | PASS 244 ]
  
  ══ Skipped tests (9) ═══════════════════════════════════════════════════════════
  • empty test (9): 'test-simulation_models.R:28:1',
    'test-simulation_models.R:72:1', 'test-simulation_models.R:119:1',
    'test-simulation_models.R:164:1', 'test-simulation_models.R:211:1',
    'test-simulation_models.R:257:1', 'test-simulation_models.R:304:1',
    'test-simulation_models.R:350:1', 'test-simulation_models.R:396:1'
  
  [ FAIL 0 | WARN 0 | SKIP 9 | PASS 244 ]
  > 
  > proc.time()
     user  system elapsed 
     3.57    0.37    3.93
Running 'testthat.R' [163s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fdapaceShiny)
  > 
  > test_check("fdapaceShiny")
  [ FAIL 0 | WARN 1 | SKIP 1 | PASS 6 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-golem-recommended.R:24:5'
  
  [ FAIL 0 | WARN 1 | SKIP 1 | PASS 6 ]
  > 
  > proc.time()
     user  system elapsed 
     3.78    0.60    4.39
Running 'testthat.R' [166s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fddm)
  > 
  > test_check("fddm")
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 84 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-density.R:420:3'
  • skipping validity fit for now (1): 'test-validity_vignette_fits.R:4:3'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 84 ]
  > 
  > proc.time()
     user  system elapsed 
     4.75    0.64    5.39
Running 'testthat.R' [189s]
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)
  > library(fdicdata)
  > 
  > test_check("fdicdata")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 48 ]
  > 
  > proc.time()
     user  system elapsed 
     8.20    0.70   39.46
Running 'testthat.R' [167s]
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)
  > library(FDRsamplesize2)
  > 
  > test_check("FDRsamplesize2")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     0.59    0.06    0.64
Running 'testthat.R' [193s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(feasts)
  Loading required package: fabletools
  > 
  > test_check("feasts")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 109 ]
  > 
  > proc.time()
     user  system elapsed 
    23.20    1.46   32.35
Running 'spelling.R' [0s]
  Running 'testthat.R' [175s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(featureflag)
  > 
  > test_check("featureflag")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 12 ]
  > 
  > proc.time()
     user  system elapsed 
     0.76    0.12    0.89
Running 'testthat.R' [159s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fec16)
  > 
  > test_check("fec16")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 8 ]
  > 
  > proc.time()
     user  system elapsed 
     1.17    0.25    1.40
Problems with news in 'NEWS.md':
  Cannot extract version info from the following section titles:
    New Stuff
Running 'testthat.R' [160s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fedz1)
  > 
  > test_check("fedz1")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     0.59    0.12    0.70
Running 'testthat.R' [195s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(feisr)
  > 
  > test_check("feisr")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 176 ]
  > 
  > proc.time()
     user  system elapsed 
    22.90    1.54   24.43
Running 'testthat.R' [164s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(FER)
  > 
  > test_check("FER")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 11 ]
  > 
  > proc.time()
     user  system elapsed 
     0.79    0.17    0.95
Running 'testthat.R' [171s]
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)
  > library(FertNet)
  When you use this package in your work, please cite:
  Stulp, G. (2023). Describing the Dutch Social Networks and Fertility Study and how to process it. Demographic Research 49(19), 493-512. https://www.demographic-research.org/articles/volume/49/19
  > 
  > test_check("FertNet")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 13 ]
  > 
  > proc.time()
     user  system elapsed 
     0.68    0.31    0.93
Running 'spelling.R' [0s]
  Running 'testthat.R' [220s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fflr)
  > 
  > options(fflr.leagueId = "42654852")
  > test_check("fflr")
  Request failed [500]. Retrying in 1 seconds...
  Request failed [500]. Retrying in 1 seconds...
  No scheduled professional football events
  No scheduled professional football events
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 197 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • rvest cannot be loaded (1): 'test-news.R:10:3'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 197 ]
  > 
  > proc.time()
     user  system elapsed 
    16.14    0.81   48.25
Running 'testthat.R' [163s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > test_check("ff")
  Loading required package: ff
  Loading required package: bit
  
  Attaching package: 'bit'
  
  The following object is masked from 'package:base':
  
      xor
  
  Attaching package ff
  - getOption("fftempdir")=="D:/temp/RtmpO8Kdiv/ff"
  
  - getOption("ffextension")=="ff"
  
  - getOption("ffdrop")==TRUE
  
  - getOption("fffinonexit")==TRUE
  
  - getOption("ffpagesize")==65536
  
  - getOption("ffcaching")=="mmnoflush"  -- consider "ffeachflush" if your system stalls on large writes
  
  - getOption("ffbatchbytes")==16777216 -- consider a different value for tuning your system
  
  - getOption("ffmaxbytes")==536870912 -- consider a different value for tuning your system
  
  
  Attaching package: 'ff'
  
  The following objects are masked from 'package:utils':
  
      write.csv, write.csv2
  
  The following objects are masked from 'package:base':
  
      is.factor, is.ordered
  
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 966 ]
  > 
  > 
  > 
  > proc.time()
     user  system elapsed 
     5.07    0.68    5.78
Documented arguments not in \usage in Rd file 'checkStream.Rd':
  'skipChecks'

Documented arguments not in \usage in Rd file 'cpp_detectCUSUMMeanSinglePrechange.Rd':
  'BL'

Documented arguments not in \usage in Rd file 'cpp_detectEWMAMeanSinglePrechange.Rd':
  'BL'

Documented arguments not in \usage in Rd file 'makeStreamMeanChangeR.Rd':
  'x'

Documented arguments not in \usage in Rd file 'update_Omega.Rd':
  'm_new'

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 vignette without corresponding tangle output:
  'intro.Rmd'
Running 'testthat.R' [265s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(FFTrees)
               
     O         
    / \       
   F   O       
      / \     
     F   Trees 
               
  Welcome to FFTrees 2.0.0!
  FFTrees.guide() opens the main guide.
  > 
  > test_check("FFTrees")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 11115 ]
  > 
  > proc.time()
     user  system elapsed 
    78.65   11.81   91.10
Running 'spelling.R' [0s]
  Running 'testthat.R' [165s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fgeo.analyze)
  > 
  > test_check("fgeo.analyze")
  $N2
  [1] 29
  
  $R
  [1] 3
  
  $rate
  [1] 0.02413113
  
  $lower
  [1] 0.0084585
  
  $upper
  [1] 0.06812388
  
  $time
  [1] 4.525246
  
  $date1
  [1] 18937.96
  
  $date2
  [1] 20600.72
  
  [ FAIL 0 | WARN 3 | SKIP 14 | PASS 307 ]
  
  ══ Skipped tests (14) ══════════════════════════════════════════════════════════
  • FIXME: Real groups don't produce the same output (1):
    'test-demography_ctfs.R:52:3'
  • bciex cannot be loaded (3): 'test-byyr.R:58:5',
    'test-demography_ctfs.R:415:5', 'test-fgeo_topography.R:57:5'
  • bukittimah cannot be loaded (1): 'test-byyr.R:72:5'
  • can_access_private_data is not TRUE (1): 'test-tt_test.R:196:3'
  • ctfs cannot be loaded (4): 'test-abundance.R:10:3',
    'test-abundanceperquad2.R:4:3', 'test-demography_ctfs.R:126:5',
    'test-fill.dimension.R:4:3'
  • empty test (1): 'test-tt_test.R:132:1'
  • fgeo.data cannot be loaded (1): 'test-demography_ctfs.R:17:3'
  • ngel cannot be loaded (1): 'test-byyr.R:86:5'
  • pasoh cannot be loaded (1): 'test-fgeo_habitat.R:67:3'
  
  [ FAIL 0 | WARN 3 | SKIP 14 | PASS 307 ]
  > 
  > proc.time()
     user  system elapsed 
    26.67    3.62   30.25
Running 'spelling.R' [163s]
  Running 'testthat.R' [170s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if (requireNamespace("spelling", quietly = TRUE)) {
  +   spelling::spell_check_test(
  +     vignettes = TRUE, error = FALSE,
  +     skip_on_cran = TRUE
  +   )
  + }
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.14    0.06    0.18 
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fgeo)
  ── Attaching packages ──────────────────────────────────────────── fgeo 1.1.4 ──
  ✔ fgeo.analyze 1.1.14     ✔ fgeo.tool    1.2.9 
  ✔ fgeo.plot    1.1.11     ✔ fgeo.x       1.1.4 
  ── Conflicts ─────────────────────────────────────────────── fgeo_conflicts() ──
  ✖ fgeo.tool::filter()  masks stats::filter()
  ✖ fgeo.tool::matches() masks testthat::matches()
  > 
  > test_check("fgeo")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 15 ]
  > 
  > proc.time()
     user  system elapsed 
     1.29    0.37    1.64
Running 'spelling.R' [0s]
  Running 'testthat.R' [162s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fgeo.tool)
  
  Attaching package: 'fgeo.tool'
  
  The following object is masked from 'package:testthat':
  
      matches
  
  The following object is masked from 'package:stats':
  
      filter
  
  > 
  > test_check("fgeo.tool")
  [ FAIL 0 | WARN 0 | SKIP 9 | PASS 289 ]
  
  ══ Skipped tests (9) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-read_fgeo.R:37:3'
  • ctfs cannot be loaded (6): 'test-add_var.R:59:3', 'test-add_var.R:74:3',
    'test-add_var.R:143:3', 'test-add_var.R:156:3', 'test-add_var.R:169:3',
    'test-add_var.R:207:3'
  • fgeo.data cannot be loaded (2): 'test-guess_plotdim.R:4:3',
    'test-guess_plotdim.R:23:3'
  
  [ FAIL 0 | WARN 0 | SKIP 9 | PASS 289 ]
  > 
  > proc.time()
     user  system elapsed 
     5.12    0.82    5.67
Running 'testthat.R' [165s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fgitR)
  
      fgitR is created by Han Chen and maintained by FastGit UK Team who creates fastgit.org.
      
  > 
  > test_check("fgitR")
  [ FAIL 0 | WARN 0 | SKIP 4 | PASS 0 ]
  
  ══ Skipped tests (4) ═══════════════════════════════════════════════════════════
  • On CRAN (4): 'test-fgit_branch.R:2:3', 'test-fgit_clone.R:2:3',
    'test-fgit_clone.R:14:3', 'test-fgit_clone.R:27:3'
  
  [ FAIL 0 | WARN 0 | SKIP 4 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     0.70    0.26    0.95
Running 'testthat.R' [168s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(Fgmutils)
  Loading required package: sqldf
  Loading required package: gsubfn
  Loading required package: proto
  Loading required package: RSQLite
  Loading required package: stringr
  Loading required package: plyr
  
  Attaching package: 'Fgmutils'
  
  The following object is masked from 'package:methods':
  
      getClasses
  
  > 
  > test_check("Fgmutils")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 7 ]
  > 
  > proc.time()
     user  system elapsed 
     1.53    0.54    2.04
installed size is  7.1Mb
  sub-directories of 1Mb or more:
    data      1.9Mb
    extdata   2.8Mb
    libs      1.1Mb
Running 'test_base.R' [164s]
Running the tests in 'tests/test_base.R' failed.
Complete output:
  > if (require("testthat")){
  +     test_check("fic")
  + }
  Loading required package: testthat
  Loading required package: fic
  Error in X %*% par : non-conformable arguments
  Error in object$coefficients : $ operator is invalid for atomic vectors
  Error in X %*% par : non-conformable arguments
  Error in par %*% X : non-conformable arguments
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 50 ]
  > 
  > proc.time()
     user  system elapsed 
     5.51    0.53    6.04
Package suggested but not available for checking: 'MicrobeDS'
Running 'spelling.R' [0s]
  Running 'testthat.R' [175s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(FielDHub)
  > 
  > test_check("FielDHub")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 42 ]
  > 
  > proc.time()
     user  system elapsed 
     6.59    0.62    7.20
installed size is 10.3Mb
  sub-directories of 1Mb or more:
    R         4.6Mb
    doc       2.1Mb
    extdata   2.1Mb
Running 'testthat.R' [174s]
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)
  > library(figma)
  > 
  > test_check("figma")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 31 ]
  > 
  > proc.time()
     user  system elapsed 
     1.39    0.21    1.60
Running 'spelling.R' [162s]
  Running 'testthat.R' [1s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if (requireNamespace("spelling", quietly = TRUE)) {
  +   spelling::spell_check_test(
  +     vignettes = TRUE, error = FALSE,
  +     skip_on_cran = TRUE
  +   )
  + }
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.18    0.04    0.20
Running 'spelling.R' [155s]
  Running 'testthat.R' [15s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE)) {
  +   spelling::spell_check_test(
  +     vignettes = TRUE,
  +     error = FALSE,
  +     skip_on_cran = TRUE
  +   )
  + }
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.15    0.09    0.21
Installation failed.
See 'd:/Rcompile/CRANpkg/local/4.4/filelock.Rcheck/00install.out' for details.
Invalid package aliases in Rd file 'filename.Rd':
  'filename-package'
Running 'testthat.R' [172s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(filenamer)
  > 
  > test_check("filenamer")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 29 ]
  > 
  > proc.time()
     user  system elapsed 
     0.70    0.14    0.81
Running 'spelling.R' [0s]
  Running 'testthat.R' [154s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(filesstrings)
  Loading required package: stringr
  > 
  > test_check("filesstrings")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 66 ]
  > 
  > proc.time()
     user  system elapsed 
     1.15    0.12    1.28
Running 'spelling.R' [159s]
  Running 'testthat.R' [1s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.17    0.04    0.20
Running 'testthat.R' [172s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(filterNHP)
  > 
  > test_check("filterNHP")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 11 ]
  > 
  > proc.time()
     user  system elapsed 
     0.79    0.29    1.07
installed size is  5.6Mb
  sub-directories of 1Mb or more:
    doc   4.9Mb
Running 'testthat.R' [187s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(finalfit)
  > 
  > test_check("finalfit")
  [ FAIL 0 | WARN 19 | SKIP 0 | PASS 131 ]
  
  [ FAIL 0 | WARN 19 | SKIP 0 | PASS 131 ]
  > 
  > proc.time()
     user  system elapsed 
    28.15    1.70   29.86
Running 'test-all.R' [123s]
Running the tests in 'tests/test-all.R' failed.
Complete output:
  > library('testthat')
  > library('finch')
  > 
  > test_check('finch')
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 37 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On CRAN (2): 'test-dwca_get.R:38:3', 'test-dwca_get.R:60:3'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 37 ]
  > 
  > proc.time()
     user  system elapsed 
     2.18    0.35    2.50
Running 'testthat.R' [174s]
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)
  > library(findSVI)
  > 
  > test_check("findSVI")
  Joining with `by = join_by(GEOID)`
  Joining with `by = join_by(GEOID)`
  Joining with `by = join_by(GEOID)`
  Joining with `by = join_by(GEOID)`
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
  > 
  > proc.time()
     user  system elapsed 
     2.48    0.31    2.76
Running 'testthat.R' [176s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(findviews)
  > 
  > test_check("findviews")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 804 ]
  > 
  > proc.time()
     user  system elapsed 
     4.62    0.67    5.29
Running 'spelling.R' [0s]
  Running 'testthat.R' [191s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > 
  > suppressPackageStartupMessages(library(finetune))
  > 
  > # CRAN wants packages to be able to be check without the Suggests dependencies
  > if (rlang::is_installed(c("modeldata", "lme4", "testthat"))) {
  +   suppressPackageStartupMessages(library(testthat))
  +   test_check("finetune")
  + }
  [ FAIL 0 | WARN 0 | SKIP 21 | PASS 155 ]
  
  ══ Skipped tests (21) ══════════════════════════════════════════════════════════
  • On CRAN (21): 'test-anova-filter.R:132:3', 'test-anova-overall.R:3:3',
    'test-anova-overall.R:25:3', 'test-anova-overall.R:44:3',
    'test-anova-overall.R:69:3', 'test-race-control.R:17:3',
    'test-race-control.R:38:3', 'test-sa-control.R:19:3',
    'test-sa-control.R:48:3', 'test-sa-misc.R:5:3', 'test-sa-overall.R:2:3',
    'test-sa-overall.R:21:3', 'test-sa-overall.R:42:3', 'test-sa-overall.R:92:3',
    'test-sa-overall.R:131:3', 'test-sa-overall.R:186:3',
    'test-win-loss-filter.R:2:3', 'test-win-loss-overall.R:3:3',
    'test-win-loss-overall.R:22:3', 'test-win-loss-overall.R:39:3',
    'test-win-loss-overall.R:56:3'
  
  [ FAIL 0 | WARN 0 | SKIP 21 | PASS 155 ]
  > 
  > proc.time()
     user  system elapsed 
    31.04    1.35   32.56
Running 'testthat.R' [178s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fingraph)
  Loading required package: spectralGraphTopology
  
  Attaching package: 'spectralGraphTopology'
  
  The following object is masked from 'package:stats':
  
      D
  
  > 
  > test_check("fingraph")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 22 ]
  > 
  > proc.time()
     user  system elapsed 
     6.82    0.73    7.53
Running 'testthat.R' [176s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(finnishgrid)
  > 
  > test_check("finnishgrid")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 3 ]
  > 
  > proc.time()
     user  system elapsed 
     0.70    0.17    0.85
Running 'testthat.R' [163s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(mockery)
  > library(fipio)
  > 
  > test_check("fipio")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 172 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-fipio.R:191:5'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 172 ]
  > 
  > proc.time()
     user  system elapsed 
     6.78    0.35    7.14
Running 'testthat.R' [158s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fishbc)
  > 
  > test_check("fishbc")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 66 ]
  > 
  > proc.time()
     user  system elapsed 
     1.09    0.15    1.29
Running 'testthat.R' [172s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(FisherEM)
  Loading required package: MASS
  Loading required package: parallel
  Loading required package: elasticnet
  Loading required package: lars
  Loaded lars 1.3
  
  Loading required package: ggplot2
  > 
  > test_check("FisherEM")
  [ FAIL 0 | WARN 2 | SKIP 0 | PASS 73 ]
  
  [ FAIL 0 | WARN 2 | SKIP 0 | PASS 73 ]
  > 
  > proc.time()
     user  system elapsed 
     7.78    1.29    9.06
installed size is 13.9Mb
  sub-directories of 1Mb or more:
    libs  12.7Mb
installed size is  5.4Mb
  sub-directories of 1Mb or more:
    data      1.3Mb
    extdata   3.8Mb
Running 'testthat.R' [13s]
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)
  > library(fishRman)
  > 
  > test_check("fishRman")
  The resource you requested cannot be served. Error message:
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 8 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-fish.R:16:3'): the right dataframe is returned from the API ────
  Error in `curl::curl_fetch_memory(url, handle = handle)`: Timeout was reached: [fishrman.ddnsfree.com] Failed to connect to fishrman.ddnsfree.com port 443 after 10002 ms: Timeout was reached
  Backtrace:
      ▆
   1. └─fishRman::fish(bait) at test-fish.R:16:3
   2.   └─base::tryCatch(...)
   3.     └─base (local) tryCatchList(expr, classes, parentenv, handlers)
   4.       ├─base (local) tryCatchOne(...)
   5.       │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
   6.       └─base (local) tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
   7.         └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
   8.           └─value[[3L]](cond)
  
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 8 ]
  Error: Test failures
  Execution halted
Running 'spelling.R' [129s]
  Running 'testthat.R' [1s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.14    0.04    0.17
installed size is  5.7Mb
  sub-directories of 1Mb or more:
    lib    3.0Mb
    libs   2.3Mb
Running 'testthat.R' [160s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fitbitr)
  > 
  > test_check("fitbitr")
  [ FAIL 0 | WARN 0 | SKIP 11 | PASS 0 ]
  
  ══ Skipped tests (11) ══════════════════════════════════════════════════════════
  • On CRAN (11): 'test-activities.R:2:3', 'test-activities.R:14:3',
    'test-activities.R:46:3', 'test-heartrate.R:2:3', 'test-intraday.R:2:3',
    'test-intraday.R:26:3', 'test-sleep.R:2:3', 'test-sleep.R:19:3',
    'test-sleep.R:40:3', 'test-validation.R:2:3', 'test-zzz-teardown.R:2:3'
  
  [ FAIL 0 | WARN 0 | SKIP 11 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     1.73    0.21    1.93
installed size is  5.7Mb
  sub-directories of 1Mb or more:
    doc   4.0Mb
Running 'testthat.R' [189s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fitbitViz)
  > 
  > test_check("fitbitViz")
  [ FAIL 0 | WARN 3 | SKIP 0 | PASS 7 ]
  
  [ FAIL 0 | WARN 3 | SKIP 0 | PASS 7 ]
  > 
  > proc.time()
     user  system elapsed 
    14.32    0.78   15.10
Package suggested but not available for checking: 'gridlayout'
Running 'testthat.R' [167s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fitscape)
  > 
  > test_check("fitscape")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 19 ]
  > 
  > proc.time()
     user  system elapsed 
     0.79    0.15    0.93
Packages suggested but not available for checking: 'reliaR', 'STAR'
Package suggested but not available for checking: 'fivethirtyeightdata'
Package unavailable to check Rd xrefs: 'fivethirtyeightdata'
Running 'testthat.R' [181s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fixedincome)
  > 
  > test_check("fixedincome")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 309 ]
  > 
  > proc.time()
     user  system elapsed 
     7.87    0.78    8.65
Running 'testthat.R' [179s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fixerapi)
  > 
  > test_check("fixerapi")
  [ FAIL 0 | WARN 0 | SKIP 6 | PASS 0 ]
  
  ══ Skipped tests (6) ═══════════════════════════════════════════════════════════
  • On CRAN (6): 'test-conversion.R:4:3', 'test-errors.R:4:3', 'test-flux.R:4:3',
    'test-latest.R:4:3', 'test-symbols.R:4:3', 'test-timeseries.R:4:3'
  
  [ FAIL 0 | WARN 0 | SKIP 6 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     1.26    0.15    1.40
installed size is  7.5Mb
  sub-directories of 1Mb or more:
    R      1.3Mb
    doc    3.6Mb
    libs   1.5Mb
Running 'testthat.R' [179s]
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)
  > library(FjordLight)
  > 
  > test_check("FjordLight")
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 84 ]
  
  ══ Skipped tests (3) ═══════════════════════════════════════════════════════════
  • On CRAN (3): 'test-fl_DownloadFjord.R:4:3', 'test-fl_DownloadFjord.R:13:3',
    'test-fl_ListFjords.R:4:3'
  
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 84 ]
  > 
  > proc.time()
     user  system elapsed 
     9.96    0.42   10.37
Running 'testthat.R' [157s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(flametree)
  > 
  > test_check("flametree")
  Saving 7 x 7 in image
  [ FAIL 0 | WARN 5 | SKIP 1 | PASS 242 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-plot.R:84:1'
  
  [ FAIL 0 | WARN 5 | SKIP 1 | PASS 242 ]
  > 
  > proc.time()
     user  system elapsed 
     6.73    0.56    7.29
installed size is  5.8Mb
  sub-directories of 1Mb or more:
    doc    1.9Mb
    help   2.3Mb
    libs   1.2Mb
Running 'testthat.R' [174s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(flashlight)
  > 
  > test_check("flashlight")
  Deprecated. Will be removed in flashlight 1.0.0.
  Deprecated. Will be removed in flashlight 1.0.0.
  stats = 'quartiles' is deprecated and will be removed in flashlight 1.0.0.
  Deprecated in favor of {kernelshap} or {fastshap}. Will be removed in flashlight 1.0.0.
  type = 'shap' is deprecated and will be removed in flashlight 1.0.0.
  type = 'shap' is deprecated and will be removed in flashlight 1.0.0.
  type = 'shap' is deprecated and will be removed in flashlight 1.0.0.
  type = 'shap' is deprecated and will be removed in flashlight 1.0.0.
  type = 'shap' is deprecated and will be removed in flashlight 1.0.0.
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 336 ]
  > 
  > proc.time()
     user  system elapsed 
    14.53    1.53   16.09
Running 'testthat.R' [157s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(flatr)
  Loading required package: dplyr
  
  Attaching package: 'dplyr'
  
  The following object is masked from 'package:testthat':
  
      matches
  
  The following objects are masked from 'package:stats':
  
      filter, lag
  
  The following objects are masked from 'package:base':
  
      intersect, setdiff, setequal, union
  
  Loading required package: tibble
  Loading required package: magrittr
  
  Attaching package: 'magrittr'
  
  The following objects are masked from 'package:testthat':
  
      equals, is_less_than, not
  
  > 
  > test_check("flatr")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 5 ]
  > 
  > proc.time()
     user  system elapsed 
     1.20    0.25    1.40
Running 'testthat.R' [152s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(flattabler)
  > 
  > test_check("flattabler")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 40 ]
  > 
  > proc.time()
     user  system elapsed 
     6.39    0.96    7.34
Running 'testthat.R' [169s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(flevr)
  flevr version 0.0.4: Flexible, Ensemble-Based Variable Selection with Potentially
  Missing Data
  > 
  > test_check("flevr")
  warning - model size was reduced
  warning - model size was reduced
  step half ouch...
  warning - model size was reduced
  step half ouch...
  warning - model size was reduced
  step half ouch...
  warning - model size was reduced
  warning - model size was reduced
  step half ouch...
  warning - model size was reduced
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 20 ]
  > 
  > proc.time()
     user  system elapsed 
    11.93    1.03   12.46
Running 'testthat.R' [155s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(flexpolyline)
  > 
  > test_check("flexpolyline")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 20 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-cpp_binding.R:4:3'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 20 ]
  > 
  > proc.time()
     user  system elapsed 
     1.10    0.25    1.34
installed size is 23.4Mb
  sub-directories of 1Mb or more:
    libs  22.3Mb
Running 'spelling.R' [168s]
  Running 'testthat.R' [9s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.14    0.06    0.17
Running 'test_base.R' [204s]
Running the tests in 'tests/test_base.R' failed.
Complete output:
  > test_partial <- TRUE
  > 
  > if (test_partial)
  +   options(
  +     warnPartialMatchArgs = TRUE,
  +     warnPartialMatchAttr = TRUE,
  +     warnPartialMatchDollar = TRUE
  +   )
  > 
  > if (require("testthat")){
  +     test_check("flexsurv")
  + }
  Loading required package: testthat
  Loading required package: flexsurv
  Loading required package: survival
  [ FAIL 0 | WARN 66 | SKIP 0 | PASS 585 ]
  
  [ FAIL 0 | WARN 66 | SKIP 0 | PASS 585 ]
  > 
  > proc.time()
     user  system elapsed 
    41.26    2.92   44.21
Running 'testthat.R' [160s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > 
  > library(testthat)
  > test_check("flifo")
  Loading required package: flifo
  
  Attaching package: 'flifo'
  
  The following object is masked from 'package:base':
  
      fifo
  
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 16 ]
  > 
  > proc.time()
     user  system elapsed 
     0.92    0.23    1.20
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(flightsbr)
  > 
  > test_check("flightsbr")
  [ FAIL 0 | WARN 0 | SKIP 8 | PASS 0 ]
  
  ══ Skipped tests (8) ═══════════════════════════════════════════════════════════
  • On CRAN (8): 'test_check_date.R:5:1',
    'test_get_airport_movement_dates_available.R:5:1',
    'test_get_flight_dates_available.R:5:1', 'test_latest_flights_date.R:5:1',
    'test_read_aircrafts.R:5:1', 'test_read_airport_movements.R:5:1',
    'test_read_airports.R:5:1', 'test_read_flights.R:5:1'
  
  [ FAIL 0 | WARN 0 | SKIP 8 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     0.87    0.17    1.03
installed size is 10.7Mb
  sub-directories of 1Mb or more:
    doc   9.1Mb
Running 'testthat.R' [165s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(flobr)
  > 
  > test_check("flobr")
  [ FAIL 0 | WARN 2 | SKIP 0 | PASS 98 ]
  
  [ FAIL 0 | WARN 2 | SKIP 0 | PASS 98 ]
  > 
  > proc.time()
     user  system elapsed 
     5.90    0.28    6.12
Running 'testthat.R' [169s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(FLOPART)
  > 
  > test_check("FLOPART")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 20 ]
  > 
  > proc.time()
     user  system elapsed 
     1.06    0.18    1.21
Running 'spelling.R' [162s]
  Running 'testthat.R' [15s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.18    0.03    0.20
installed size is  7.1Mb
  sub-directories of 1Mb or more:
    R   7.0Mb
Running 'testthat.R' [166s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(flowTraceR)
  > 
  > test_check("flowTraceR")
  [ FAIL 0 | WARN 32 | SKIP 0 | PASS 187 ]
  
  [ FAIL 0 | WARN 32 | SKIP 0 | PASS 187 ]
  > 
  > proc.time()
     user  system elapsed 
     4.40    0.48    4.84
Running 'test_package.R' [169s]
Running the tests in 'tests/test_package.R' failed.
Complete output:
  > library(testthat)
  > library(flsa)
  > 
  > test_check("flsa")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 13 ]
  > 
  > proc.time()
     user  system elapsed 
     0.62    0.18    0.75
installed size is  8.6Mb
  sub-directories of 1Mb or more:
    libs   8.5Mb
Running 'testthat.R' [165s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fmesher)
  > 
  > test_check("fmesher")
  Starting 2 test processes
  [ FAIL 0 | WARN 0 | SKIP 7 | PASS 196 ]
  
  ══ Skipped tests (7) ═══════════════════════════════════════════════════════════
  • On CRAN (7): 'test-pixels.R:2:3', 'test-transform.R:2:3',
    'test-transform.R:28:3', 'test-transform.R:62:3', 'test-transform.R:90:3',
    'test-integration.R:239:3', 'test-integration.R:304:3'
  
  [ FAIL 0 | WARN 0 | SKIP 7 | PASS 196 ]
  > 
  > proc.time()
     user  system elapsed 
     3.81    0.51   11.64
Running 'testthat.R' [157s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fmpcloudr)
  > 
  > test_check("fmpcloudr")
  [ FAIL 0 | WARN 0 | SKIP 16 | PASS 1 ]
  
  ══ Skipped tests (16) ══════════════════════════════════════════════════════════
  • On CRAN (16): 'test-calendar.R:9:3', 'test-financials.R:9:3',
    'test-financials.R:95:3', 'test-holdings.R:9:3', 'test-marketInfo.R:11:3',
    'test-marketInfo.R:68:3', 'test-other.R:5:3', 'test-pricing.R:10:3',
    'test-pricing.R:124:3', 'test-pricing.R:152:3', 'test-secDetails.R:10:3',
    'test-secDetails.R:79:3', 'test-securityMetrics.R:10:3',
    'test-securityMetrics.R:78:3', 'test-securityMetrics.R:129:3',
    'test-securityMetrics.R:223:3'
  
  [ FAIL 0 | WARN 0 | SKIP 16 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     1.01    0.18    1.18
Running 'testthat.R' [219s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fnets)
  > 
  > test_check("fnets")
  [ FAIL 0 | WARN 3 | SKIP 17 | PASS 2 ]
  
  ══ Skipped tests (17) ══════════════════════════════════════════════════════════
  • On CRAN (12): 'test-fnets.R:26:3', 'test-fnets.R:33:3', 'test-fnets.R:40:3',
    'test-fnets.R:51:3', 'test-fnets.R:58:3', 'test-fnets.R:63:3',
    'test-fnets.R:69:3', 'test-idio.R:11:3', 'test-idio.R:25:3',
    'test-idio.R:40:3', 'test-idio.R:51:3', 'test-idio.R:60:3'
  • empty test (5): 'test-common.R:12:1', 'test-common.R:16:1',
    'test-common.R:20:1', 'test-fnets.R:75:1', 'test-omega.R:20:1'
  
  [ FAIL 0 | WARN 3 | SKIP 17 | PASS 2 ]
  > 
  > proc.time()
     user  system elapsed 
    10.71    1.57   60.53
Running 'testthat.R' [150s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(folders)
  > 
  > testthat::test_check("folders")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 27 ]
  > 
  > proc.time()
     user  system elapsed 
     1.15    0.25    1.35
Running 'testthat.R' [149s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fomantic.plus)
  > 
  > test_check("fomantic.plus")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 125 ]
  > 
  > proc.time()
     user  system elapsed 
     1.67    0.29    1.98
installed size is  6.6Mb
  sub-directories of 1Mb or more:
    fonts   6.6Mb
installed size is  6.1Mb
  sub-directories of 1Mb or more:
    fonts   6.1Mb
Running 'testthat.R' [161s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fontquiver)
  > 
  > test_check("fontquiver")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 14 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • empty test (1): 'test-fonts.R:17:1'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 14 ]
  > 
  > proc.time()
     user  system elapsed 
     1.10    0.32    1.39
Running 'testthat.R' [153s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > # library(testthat)
  > # library(footBayes)
  > #
  > # test_check("footBayes")
  > 
  > proc.time()
     user  system elapsed 
     0.18    0.06    0.23
Running 'testthat.R' [210s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(forecastML)
  Loading required package: dplyr
  
  Attaching package: 'dplyr'
  
  The following object is masked from 'package:testthat':
  
      matches
  
  The following objects are masked from 'package:stats':
  
      filter, lag
  
  The following objects are masked from 'package:base':
  
      intersect, setdiff, setequal, union
  
  > 
  > test_check("forecastML")
  [ FAIL 0 | WARN 24 | SKIP 25 | PASS 68 ]
  
  ══ Skipped tests (25) ══════════════════════════════════════════════════════════
  • empty test (25): 'test_create_lagged_df_grouped.R:7:1',
    'test_create_lagged_df_grouped.R:56:1',
    'test_create_lagged_df_grouped.R:109:1',
    'test_create_lagged_df_grouped_multi_output.R:7:1',
    'test_create_lagged_df_grouped_multi_output.R:65:1',
    'test_create_lagged_df_horizons.R:7:1',
    'test_create_lagged_df_horizons.R:44:1',
    'test_create_lagged_df_horizons.R:86:1',
    'test_create_lagged_df_horizons_multi_output.R:7:1',
    'test_create_lagged_df_horizons_multi_output.R:46:1',
    'test_create_lagged_df_horizons_multi_output.R:88:1',
    'test_create_lagged_df_lookback.R:73:1',
    'test_create_lagged_df_lookback.R:115:1',
    'test_create_lagged_df_lookback_multi_output.R:73:1',
    'test_create_lagged_df_lookback_multi_output.R:115:1',
    'test_create_lagged_df_nongrouped.R:7:1',
    'test_create_lagged_df_nongrouped.R:43:1', 'test_fill_gaps.R:6:1',
    'test_fill_gaps.R:35:1', 'test_return_error.R:6:1',
    'test_return_error.R:73:1', 'test_return_error.R:134:1',
    'test_return_error.R:275:1', 'test_return_error.R:329:1',
    'test_return_error.R:380:1'
  
  [ FAIL 0 | WARN 24 | SKIP 25 | PASS 68 ]
  > 
  > proc.time()
     user  system elapsed 
    54.60    1.03   55.62
Running 'testthat.R' [269s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > Sys.setenv("R_TESTS" = "")
  > if (require(testthat)) {
  +   test_check("forecast")
  + }
  Loading required package: testthat
  Loading required package: forecast
  [ FAIL 0 | WARN 4 | SKIP 1 | PASS 783 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-bats.R:17:5'
  
  [ FAIL 0 | WARN 4 | SKIP 1 | PASS 783 ]
  > 
  > proc.time()
     user  system elapsed 
    91.34    3.40   94.85
Found the following significant warnings:
  pfm-read.c:552:16: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'size_t' {aka 'long long unsigned int'} [-Wformat=]
  pfm-read.c:579:16: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'size_t' {aka 'long long unsigned int'} [-Wformat=]
  pfm-read.c:754:18: warning: format '%lu' expects argument of type 'long unsigned int', but argument 3 has type 'size_t' {aka 'long long unsigned int'} [-Wformat=]
  sfm-read.c:554:14: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'long long unsigned int' [-Wformat=]
  sfm-read.c:621:14: warning: format '%lu' expects argument of type 'long unsigned int', but argument 5 has type 'long long unsigned int' [-Wformat=]
  sfm-read.c:802:14: warning: format '%ld' expects argument of type 'long int', but argument 4 has type 'long long unsigned int' [-Wformat=]
See 'd:/Rcompile/CRANpkg/local/4.4/foreign.Rcheck/00install.out' for details.
* used C compiler: 'gcc.exe (GCC) 13.2.0'
Running 'testthat.R' [159s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(foreSIGHT)
  Loading required package: GA
  Loading required package: foreach
  Loading required package: iterators
  Package 'GA' version 3.2.4
  Type 'citation("GA")' for citing this R package in publications.
  
  Attaching package: 'GA'
  
  The following object is masked from 'package:utils':
  
      de
  
  Package 'foreSIGHT' version 1.2.0
  Type 'citation("foreSIGHT")' for citing this R package in publications.
  > 
  > test_check("foreSIGHT")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 3 ]
  > 
  > 
  > proc.time()
     user  system elapsed 
     1.07    0.26    1.32
Running 'testthat.R' [150s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(forestControl)
  > 
  > test_check('forestControl')
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 18 ]
  > 
  > proc.time()
     user  system elapsed 
     2.79    0.54    3.15
Problems with news in 'NEWS.md':
  Cannot extract version info from the following section titles:
    Previous versions (not tagged nor released)
Running 'testthat.R' [174s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(forestecology)
  > 
  > test_check("forestecology")
  
  Attaching package: 'dplyr'
  
  The following object is masked from 'package:testthat':
  
      matches
  
  The following objects are masked from 'package:stats':
  
      filter, lag
  
  The following objects are masked from 'package:base':
  
      intersect, setdiff, setequal, union
  
  blockCV 3.1.3
  This function is deprecated! Please use 'cv_spatial' instead.
  [ FAIL 0 | WARN 3 | SKIP 0 | PASS 19 ]
  
  [ FAIL 0 | WARN 3 | SKIP 0 | PASS 19 ]
  > 
  > proc.time()
     user  system elapsed 
     2.54    0.40    2.96
Running 'testthat.R' [164s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(vdiffr)
  > library(forestploter)
  > 
  > test_check("forestploter")
  found values equal or less than 0 in lower
  The confidence interval of row 2, column 4, group 1 is outside of the xlim.
  [ FAIL 0 | WARN 0 | SKIP 14 | PASS 42 ]
  
  ══ Skipped tests (14) ══════════════════════════════════════════════════════════
  • On CRAN (14): 'test-addgrob.R:54:3', 'test-forest.R:37:3',
    'test-forest.R:52:3', 'test-forest.R:79:3', 'test-forest.R:174:3',
    'test-forest.R:214:3', 'test-forest.R:265:3', 'test-forest.R:314:3',
    'test-forest.R:359:3', 'test-forest.R:405:3', 'test-forest.R:448:3',
    'test-make-boxplot.R:38:3', 'test-make-boxplot.R:69:3',
    'test-make-boxplot.R:110:3'
  
  [ FAIL 0 | WARN 0 | SKIP 14 | PASS 42 ]
  Deleting unused snapshots:
  • addgrob/add-grob-header.svg
  • forest/arrow-start.svg
  • forest/edit-plot-with-theme.svg
  • forest/insert-text-vector.svg
  • forest/x-scale-log10.svg
  > 
  > proc.time()
     user  system elapsed 
     7.57    0.43    8.01
Running 'testthat.R' [150s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(forge)
  > 
  > test_check("forge")
  [ FAIL 0 | WARN 8 | SKIP 0 | PASS 102 ]
  
  [ FAIL 0 | WARN 8 | SKIP 0 | PASS 102 ]
  > 
  > proc.time()
     user  system elapsed 
     1.96    0.20    2.15
Running 'testthat.R' [163s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ForIT)
  > 
  > test_check("ForIT")
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 9 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 9 ]
  > 
  > proc.time()
     user  system elapsed 
     8.76    0.34    9.09
Running 'tinytest.R' [155s]
Running the tests in 'tests/tinytest.R' failed.
Complete output:
  > if (requireNamespace("tinytest", quietly = TRUE)){
  +     tinytest::test_package("formatdown")
  + }
  
  test_format_decimal.R.........    0 tests    
  test_format_decimal.R.........   43 tests [0;32mOK[0m [0;34m0.2s[0m
  
  test_format_power.R...........    0 tests    
  test_format_power.R...........   60 tests [0;32mOK[0m [0;34m0.4s[0m
  
  test_format_text.R............    0 tests    
  test_format_text.R............   43 tests [0;32mOK[0m [0;36m60ms[0m
  
  test_format_units.R...........    0 tests    
  test_format_units.R...........   59 tests [0;32mOK[0m [0;34m0.1s[0m
  All ok, 205 results (0.8s)
  > 
  > proc.time()
     user  system elapsed 
     1.10    0.18    1.28
Running 'testthat.R' [169s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(formattable)
  > 
  > test_check("formattable")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 276 ]
  > 
  > proc.time()
     user  system elapsed 
     2.06    0.39    2.39
Running 'testthat.R' [173s]
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)
  > library(FormShare)
  > 
  > test_check("FormShare")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     0.57    0.26    1.15
Running 'testthat.R' [152s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > testthat::test_check("formulaic")
  Loading required package: formulaic
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 9 ]
  > 
  > 
  > proc.time()
     user  system elapsed 
     1.10    0.23    1.32
Running 'testthat.R' [168s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(formulops)
  > 
  > test_check("formulops")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 74 ]
  > 
  > proc.time()
     user  system elapsed 
     0.96    0.17    1.12
Running 'testthat.R' [158s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(forrel)
  Loading required package: pedtools
  > 
  > test_check("forrel")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 48 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • Merlin not installed (1): 'test-kinshipLR-merlin.R:3:1'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 48 ]
  > 
  > proc.time()
     user  system elapsed 
     2.14    0.25    2.37
installed size is  6.4Mb
  sub-directories of 1Mb or more:
    data   2.7Mb
    doc    1.1Mb
    help   1.0Mb
    libs   1.1Mb
Running 'spelling.R' [172s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.20    0.06    0.21
Running 'testthat.R' [168s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > #  (c) Copyright 2022 Palantir Technologies Inc. All rights reserved.
  > #
  > #  Licensed under the Apache License, Version 2.0 (the "License");
  > #  you may not use this file except in compliance with the License.
  > #  You may obtain a copy of the License at
  > #
  > #      http://www.apache.org/licenses/LICENSE-2.0
  > #
  > #  Unless required by applicable law or agreed to in writing, software
  > #  distributed under the License is distributed on an "AS IS" BASIS,
  > #  WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
  > #  See the License for the specific language governing permissions and
  > #  limitations under the License.
  > 
  > library(testthat)
  > library(foundry)
  > 
  > test_check("foundry")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 23 ]
  > 
  > proc.time()
     user  system elapsed 
     1.26    0.31    1.56
Running 'spelling.R' [159s]
  Running 'testthat.R' [1s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.10    0.12    0.17
Running 'test-all.R' [155s]
Running the tests in 'tests/test-all.R' failed.
Complete output:
  > library(testthat)
  > test_check("fpCompare")
  Loading required package: fpCompare
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 9 ]
  > 
  > proc.time()
     user  system elapsed 
     0.65    0.18    0.82
Running 'testthat.R' [166s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fpeek)
  > 
  > test_check("fpeek")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 9 ]
  > 
  > proc.time()
     user  system elapsed 
     0.79    0.14    0.92
Running 'testthat.R' [168s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fplyr)
  Loading required package: data.table
  > 
  > test_check("fplyr")
  [ FAIL 0 | WARN 10 | SKIP 0 | PASS 22 ]
  
  [ FAIL 0 | WARN 10 | SKIP 0 | PASS 22 ]
  Warning message:
  In for (i in seq_len(n)) { :
    closing unused connection 4 (D:/RCompile/CRANpkg/lib/4.4/fplyr/extdata/dt_iris.csv)
  > 
  > proc.time()
     user  system elapsed 
     1.60    1.07    2.64
Running 'testthat.R' [196s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library("testthat")
  > 
  > test_check("frab")
  Loading required package: frab
  
  Attaching package: 'frab'
  
  The following objects are masked from 'package:base':
  
      pmax, pmin
  
  .local(x = x, i = i, j = j, drop = drop)
  .local(x = x, i = i, j = j, value = value)
  .local(x = x, i = i, j = j, value = value)
  .local(x = x, i = i, j = j, value = value)
  .local(x = x, i = i, j = j, value = value)
  .local(x = x, i = i, j = j, value = value)
  values(e1) * e2
  values(e1) * e2
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1346 ]
  > 
  > proc.time()
     user  system elapsed 
    29.68    2.18   32.04
Package suggested but not available for checking: 'RandomFields'
Running 'testthat.R' [162s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fracture)
  > 
  > test_check("fracture")
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 214 ]
  
  ══ Skipped tests (3) ═══════════════════════════════════════════════════════════
  • On CRAN (3): 'test-check_dots_empty0.R:2:3', 'test-fracture.R:67:3',
    'test-fracture.R:134:3'
  
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 214 ]
  > 
  > proc.time()
     user  system elapsed 
     4.35    0.67    5.03
installed size is  9.1Mb
  sub-directories of 1Mb or more:
    R      1.3Mb
    help   2.7Mb
    libs   3.6Mb
Running 'testthat.R' [156s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(frair)
  Loading required package: stats4
  Loading required package: bbmle
  > 
  > test_check("frair")
  [ FAIL 0 | WARN 5 | SKIP 0 | PASS 28 ]
  
  [ FAIL 0 | WARN 5 | SKIP 0 | PASS 28 ]
  > 
  > 
  > proc.time()
     user  system elapsed 
    12.29    1.50    3.45
Running 'testthat.R' [158s]
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)
  > library(frbinom)
  > 
  > test_check("frbinom")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     0.51    0.17    0.67
Running 'testthat.R' [173s]
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)
  > test_check("freecurrencyapi")
  Loading required package: freecurrencyapi
  [ FAIL 0 | WARN 0 | SKIP 4 | PASS 0 ]
  
  ══ Skipped tests (4) ═══════════════════════════════════════════════════════════
  • On CRAN (4): 'test-historical.R:3:3', 'test-latest.R:3:3',
    'test-status.R:3:3', 'test-supported.R:3:3'
  
  [ FAIL 0 | WARN 0 | SKIP 4 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     0.92    0.14    1.06
Running 'testthat.R' [190s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(FREEtree)
  
  > 
  > test_check("FREEtree")
  [1] 327.7407
  [1] 53.06216
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 2 ]
  > 
  > proc.time()
     user  system elapsed 
    31.01    1.73   32.71
Documented arguments not in \usage in Rd file 'freqdom.transpose.Rd':
  'S'

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' [172s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(freqtables)
  > 
  > test_check("freqtables")
  [ FAIL 0 | WARN 13 | SKIP 0 | PASS 78 ]
  
  [ FAIL 0 | WARN 13 | SKIP 0 | PASS 78 ]
  > 
  > proc.time()
     user  system elapsed 
     1.96    0.23    2.26
Running 'testthat.R' [146s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(frequentdirections)
  > 
  > test_check("frequentdirections")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 2 ]
  > 
  > proc.time()
     user  system elapsed 
     0.60    0.18    0.79
Running 'testthat.R' [159s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fresh)
  > 
  > test_check("fresh")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 190 ]
  > 
  > proc.time()
     user  system elapsed 
     4.32    0.87    5.14
installed size is  5.7Mb
  sub-directories of 1Mb or more:
    R   5.7Mb
checkRd: (-1) NEWS.Rd:234: Escaped LaTeX specials: \_
checkRd: (-1) NEWS.Rd:257: Escaped LaTeX specials: \_ \_
checkRd: (-1) NEWS.Rd:258: Escaped LaTeX specials: \_ \_
checkRd: (-1) NEWS.Rd:259: Escaped LaTeX specials: \_
checkRd: (-1) NEWS.Rd:262: Escaped LaTeX specials: \_
checkRd: (-1) NEWS.Rd:265: Escaped LaTeX specials: \_
Running 'testthat.R' [150s]
  Running 'tinytest.R' [22s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fritools2)
  
  Attaching package: 'fritools2'
  
  The following object is masked from 'package:testthat':
  
      is_false
  
  The following object is masked from 'package:base':
  
      tapply
  
  > 
  > test_check("fritools2")
  Set csv type to standard!
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
  > 
  > proc.time()
     user  system elapsed 
     0.98    0.23    1.18
Running 'testthat.R' [155s]
  Running 'tinytest.R' [20s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fritools)
  
  Attaching package: 'fritools'
  
  The following object is masked from 'package:testthat':
  
      is_false
  
  The following object is masked from 'package:base':
  
      tapply
  
  > 
  > test_check("fritools")
  Set csv type to standard!
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
  > 
  > proc.time()
     user  system elapsed 
     1.01    0.21    1.21
Package suggested but not available for checking: 'dggrids'
installed size is 20.6Mb
  sub-directories of 1Mb or more:
    data   4.8Mb
    doc    1.8Mb
    libs  12.8Mb
Running 'testthat.R' [161s]
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)
  > library(fRLR)
  > 
  > test_check("fRLR")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 3 ]
  > 
  > proc.time()
     user  system elapsed 
     0.79    0.15    0.93
Running 'testthat.R' [161s]
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)
  > library(fr)
  > 
  > test_check("fr")
  Starting 2 test processes
  [ FAIL 0 | WARN 0 | SKIP 5 | PASS 60 ]
  
  ══ Skipped tests (5) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-read_fr_tdr.R:13:3'
  • On Windows (4): 'test-fr_schema.R:44:3', 'test-fr_field.R:61:3',
    'test-fr_tdr.R:139:3', 'test-write_fr_tdr.R:2:3'
  
  [ FAIL 0 | WARN 0 | SKIP 5 | PASS 60 ]
  Deleting unused snapshots:
  • write_fr_tdr/my_mtcars.csv
  • write_fr_tdr/tabular-data-resource.yaml
  > 
  > proc.time()
     user  system elapsed 
     1.20    0.28    3.31
Running 'spelling.R' [0s]
  Running 'testthat.R' [174s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > Sys.setenv(R_TESTS="")
  > library(testthat)
  > library(frscore)
  Loading required package: cna
  Loading required package: lifecycle
  > 
  > test_check("frscore")
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 36 ]
  
  ══ Skipped tests (3) ═══════════════════════════════════════════════════════════
  • On CRAN (3): 'test_frscore.R:22:2', 'test_frscore.R:36:3',
    'test_frscored_cna.R:13:3'
  
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 36 ]
  > 
  > proc.time()
     user  system elapsed 
    11.67    2.12   13.78
Running 'testthat_au.R' [22s]
  Running 'testthat_vz.R' [169s]
Running the tests in 'tests/testthat_vz.R' failed.
Complete output:
  > library(testthat)
  > library(fsbrain)
  > 
  > # Break up tests to allow tests to run longer than 10 min in travis,
  > # see https://github.com/travis-ci/travis-ci/issues/3849#issuecomment-345686242.
  > test_check("fsbrain", filter = "^[v-z]")
  [ FAIL 0 | WARN 0 | SKIP 36 | PASS 23 ]
  
  ══ Skipped tests (36) ══════════════════════════════════════════════════════════
  • On CRAN (36): 'test-vis.R:5:5', 'test-vis.R:39:5', 'test-vis.R:56:5',
    'test-vis.R:77:5', 'test-vis.R:101:5', 'test-vis.R:131:5',
    'test-vis.R:166:5', 'test-vis.R:199:5', 'test-vis.R:218:5',
    'test-vis.R:237:5', 'test-vis.R:257:5', 'test-vis.R:280:5',
    'test-vis.R:301:5', 'test-vis.R:346:5', 'test-volume.R:2:5',
    'test-volume.R:32:5', 'test-volume.R:111:5', 'test-w_vis_group.R:3:5',
    'test-w_vis_group.R:25:5', 'test-w_vis_group.R:51:5',
    'test-y_vis_multiview.R:8:5', 'test-y_vis_multiview.R:63:5',
    'test-y_vis_multiview.R:95:5', 'test-y_vis_multiview.R:118:5',
    'test-y_vis_multiview.R:132:5', 'test-y_vis_multiview.R:175:5',
    'test-y_vis_multiview.R:193:5', 'test-y_vis_multiview.R:233:5',
    'test-y_vis_multiview.R:262:5', 'test-y_vis_multiview.R:352:5',
    'test-y_vis_multiview.R:385:5', 'test-y_vis_multiview.R:399:5',
    'test-z_vis_surface_background.R:5:5',
    'test-z_vis_surface_background.R:55:5',
    'test-z_vis_surface_background.R:81:5',
    'test-z_vis_surface_background.R:106:5'
  
  [ FAIL 0 | WARN 0 | SKIP 36 | PASS 23 ]
  > 
  > proc.time()
     user  system elapsed 
     4.32    0.71    9.65
Running 'testthat.R' [168s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > # vi: fdm=marker
  > # Script needed to run testthat automatically from ‘R CMD check’. See
  > # testthat::test_dir documentation.
  > library(testthat)
  > library(fscache)
  > test_check("fscache")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 113 ]
  > 
  > proc.time()
     user  system elapsed 
     1.56    0.23    1.78
Packages suggested but not available for checking:
  'extraTrees', 'foba', 'nodeHarvest', 'obliqueRF', 'relaxo', 'rrlda'
Documented arguments not in \usage in Rd file 'imp_small_gaps_WMA.Rd':
  'Data' 'univariate'

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' [158s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > 
  > # required packages
  > library(testthat)
  > library(fstcore)
  > library(lintr)
  > 
  > # run tests
  > test_check("fstcore")
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 11 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • On CRAN (2): 'test_lintr.R:9:3', 'test_long_tables.R:19:3'
  
  [ FAIL 0 | WARN 0 | SKIP 2 | PASS 11 ]
  > 
  > proc.time()
     user  system elapsed 
     1.20    0.18    1.39
Running 'testthat.R' [178s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ftExtra)
  Registered S3 method overwritten by 'ftExtra':
    method                  from     
    as_flextable.data.frame flextable
  > 
  > test_check("ftExtra")
  [ FAIL 0 | WARN 0 | SKIP 4 | PASS 46 ]
  
  ══ Skipped tests (4) ═══════════════════════════════════════════════════════════
  • On CRAN (4): 'test-footnote.R:2:3', 'test-footnote.R:7:3',
    'test-footnote.R:17:3', 'test-footnote.R:37:3'
  
  [ FAIL 0 | WARN 0 | SKIP 4 | PASS 46 ]
  > 
  > proc.time()
     user  system elapsed 
     4.78    0.54    6.60
Running 'testthat.R' [157s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(ftrCOOL)
  > 
  > 
  > proc.time()
     user  system elapsed 
     0.42    0.06    0.42
Running 'testthat.R' [198s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(funcharts)
  Loading required package: robustbase
  > 
  > test_check("funcharts")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 108 ]
  > 
  > proc.time()
     user  system elapsed 
    29.50    1.95   34.17
Running 'testthat.R' [172s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(FunChisq)
  > 
  > test_check("FunChisq")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 247 ]
  > 
  > proc.time()
     user  system elapsed 
     2.54    0.21    2.75
Running 'testthat.R' [165s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(functiondepends)
  > 
  > test_check("functiondepends")
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 16 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 16 ]
  > 
  > proc.time()
     user  system elapsed 
     1.06    0.34    1.40
Running 'testthat.R' [158s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(funData)
  
  Attaching package: 'funData'
  
  The following object is masked from 'package:stats':
  
      integrate
  
  > 
  > test_check("funData")
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 493 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 493 ]
  > 
  > proc.time()
     user  system elapsed 
     8.76    0.78    9.53
Running 'testthat.R' [169s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(fundiversity)
  > 
  > if (requireNamespace("testthat", quietly = TRUE)) {
  +   library(testthat)
  +   options(fundiversity.memoise = TRUE)
  +   test_check("fundiversity")
  + }
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 170 ]
  > 
  > proc.time()
     user  system elapsed 
     4.57    0.79    5.36
Running 'testthat.R' [165s]
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)
  > library(funkycells)
  > 
  > test_check("funkycells")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 19 ]
  > 
  > proc.time()
     user  system elapsed 
    10.34    1.06   11.35
Documented arguments not in \usage in Rd file 'build_limits_lookup.Rd':
  'min_preds' 'max_preds' 'min_ratio' 'max_ratio' 'draw_unadjusted'

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' [165s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(FunnelPlotR)
  > 
  > test_check("FunnelPlotR")
  draw_adjusted set to FALSE, plotting using unadjusted limits
  draw_adjusted set to FALSE, plotting using unadjusted limits
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 69 ]
  > 
  > proc.time()
     user  system elapsed 
     2.09    0.34    2.39
Running 'testthat.R' [171s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(funprog)
  > 
  > test_check("funprog")
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 76 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 76 ]
  > 
  > proc.time()
     user  system elapsed 
     1.12    0.23    1.34
Running 'testthat.R' [153s]
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)
  > library(funspace)
  > 
  > test_check("funspace")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 7 ]
  > 
  > proc.time()
     user  system elapsed 
     2.67    0.46    3.12
Running 'testthat.R' [162s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(furniture)
  > 
  > test_check("furniture")
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  [ FAIL 0 | WARN 4 | SKIP 0 | PASS 67 ]
  
  [ FAIL 0 | WARN 4 | SKIP 0 | PASS 67 ]
  > 
  > proc.time()
     user  system elapsed 
     3.40    0.32    3.71
Running 'testthat.R' [185s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fuser)
  > 
  > ## force tests to be executed if in dev release which we define as
  > ## having a sub-release, eg 0.9.15.5 is one whereas 0.9.16 is not
  > if (length(strsplit(packageDescription("Rcpp")$Version, "\\.")[[1]]) > 3) {
  +   Sys.setenv("RunAllRcppTests"="yes")
  + }
  > 
  > test_check("fuser")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 6 ]
  > 
  > proc.time()
     user  system elapsed 
    23.21    1.18   24.39
Running 'testthat.R' [167s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(futile.logger)
  > test_check("futile.logger")
  [ FAIL 0 | WARN 30 | SKIP 0 | PASS 69 ]
  
  [ FAIL 0 | WARN 30 | SKIP 0 | PASS 69 ]
  > 
  > proc.time()
     user  system elapsed 
     1.50    0.31    1.78
Running 'spelling.R' [0s]
  Running 'testthat.R' [175s]
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)
  > library(FuzzyDBScan)
  > 
  > test_check("FuzzyDBScan")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 11 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • empty test (1): 'test_initialize.R:20:1'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 11 ]
  > 
  > proc.time()
     user  system elapsed 
     2.48    0.37    2.84
Running 'testthat.R' [188s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fuzzyjoin)
  > 
  > test_check("fuzzyjoin")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 295 ]
  > 
  > proc.time()
     user  system elapsed 
    20.40    1.60   22.03
Running 'spelling.R' [164s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.17    0.03    0.18
Running 'testthat.R' [172s]
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)
  > library(FuzzyResampling)
  > 
  > test_check("FuzzyResampling")
  [ FAIL 0 | WARN 0 | SKIP 16 | PASS 223 ]
  
  ══ Skipped tests (16) ══════════════════════════════════════════════════════════
  • On CRAN (16): 'test-ClassicalBootstrap.R:11:3',
    'test-ComparePowerOneSampleCTest.R:6:3',
    'test-ComparisonOneSampleCTest.R:6:3', 'test-ComparisonSEMean.R:6:3',
    'test-DMethod.R:11:3', 'test-EWMethod.R:11:3',
    'test-GeneratorFuzzyNumbers.R:6:3', 'test-GeneratorNExpUU.R:6:3',
    'test-GeneratorNU.R:6:3', 'test-OneSampleCTest.R:13:3',
    'test-SEResamplingMean.R:12:3', 'test-TwoSampleCTest.R:14:3',
    'test-VAAMethod.R:11:3', 'test-VAFMethod.R:11:3', 'test-VAMethod.R:11:3',
    'test-WMethod.R:11:3'
  
  [ FAIL 0 | WARN 0 | SKIP 16 | PASS 223 ]
  > 
  > proc.time()
     user  system elapsed 
    12.79    0.53   13.36
Running 'testthat.R' [233s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fwildclusterboot)
  > 
  > test_check("fwildclusterboot")
  Loading required namespace: data.table
  Loading required namespace: lfe
  Loading required namespace: fixest
  Too guarantee reproducibility, don't forget to set a global random seed **both** via `set.seed()` and `dqrng::dqset.seed()`.
  This message is displayed once every 8 hours.
  Too guarantee reproducibility, don't forget to set a global random seed **both** via `set.seed()` and `dqrng::dqset.seed()`.
  This message is displayed once every 8 hours.
  Too guarantee reproducibility, don't forget to set a global random seed via `set.seed()`.
  This message is displayed once every 8 hours.
  *
  Confidence Intervals are currently only supported for
  the R engine with 'bootstrap_type = 'fnw11'.
  This message is displayed once every 8 hours.
  The variable 'X2' has been removed because of collinearity (see $collin.var).
  [ FAIL 0 | WARN 1 | SKIP 19 | PASS 181 ]
  
  ══ Skipped tests (19) ══════════════════════════════════════════════════════════
  • On CRAN (19): 'test-convergence.R:3:3', 'test-error_warning.R:3:3',
    'test-error_warning.R:1392:3', 'test-full-enumeration.R:213:3',
    'test-global_vars.R:3:3', 'test-method_equivalence.R:4:3',
    'test-new-bootstrap-variants.R:3:7', 'test-new-bootstrap-variants.R:160:3',
    'test-new-bootstrap-variants.R:274:3', 'test-new-bootstrap-variants.R:392:3',
    'test-r-vs-julia.R:4:3', 'test-seed.R:3:3', 'test-tstat_equivalence.R:335:3',
    'test-tstat_equivalence.R:561:3', 'test-tstat_equivalence.R:840:3',
    'test-uncategorized.R:3:3', 'test_sunab.R:3:3', 'test_tidy.R:3:3',
    'test_tidy.R:64:3'
  
  [ FAIL 0 | WARN 1 | SKIP 19 | PASS 181 ]
  > 
  > proc.time()
     user  system elapsed 
    77.46    2.76   80.25
installed size is  5.7Mb
  sub-directories of 1Mb or more:
    doc    1.1Mb
    help   4.2Mb
Running 'testthat.R' [190s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(fxl)
  Loading required package: rlang
  
  Attaching package: 'rlang'
  
  The following objects are masked from 'package:testthat':
  
      is_false, is_null, is_true
  
  Loading required package: grImport
  Loading required package: grid
  Loading required package: XML
  > 
  > test_check("fxl")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 81 ]
  > #
  > 
  > proc.time()
     user  system elapsed 
    18.92    2.87   22.12
Invalid package aliases in Rd file 'GAabbreviate-internal.Rd':
  'GAabbreviation-package'
Running 'testthat.R' [154s]
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)
  > library(GABB)
  > 
  > test_check("GABB")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     0.46    0.17    0.62
Running 'test-gadget.R' [154s]
Running the tests in 'tests/test-gadget.R' failed.
Complete output:
  > library(gadget2)
  > library(unittest, quietly = TRUE)
  > 
  > matching_line <- function(match, lines) {
  +     if (any(grepl(match, lines, fixed = TRUE))) return(TRUE)
  +     # Test failed, return the actual output
  +     return(lines)
  + }
  > 
  > 
  > ok_group("gadget_binary", {
  +     out <- system2(gadget_binary(), c('-h'), stdout = TRUE, stderr = TRUE)
  +     ok(matching_line(
  +         sprintf("Gadget version %s", packageVersion("gadget2")),
  +         out), "Run gadget binary and get help text with matching version")
  +     ok(matching_line(
  +         'https://github.com/gadget-framework/gadget2',
  +         out), "Help quoted webpage link (i.e. got to the end of the output")
  + })
  # gadget_binary
  ok - Run gadget binary and get help text with matching version
  ok - Help quoted webpage link (i.e. got to the end of the output
  > 
  > proc.time()
     user  system elapsed 
     0.20    0.06    0.48
Running 'testthat.R' [180s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(galamm)
  > 
  > test_check("galamm")
  [ FAIL 0 | WARN 0 | SKIP 10 | PASS 96 ]
  
  ══ Skipped tests (10) ══════════════════════════════════════════════════════════
  • On CRAN (10): 'test-galamm-glmm.R:17:3', 'test-galamm-heteroscedastic.R:8:3',
    'test-galamm-latent-covariates-interaction.R:18:3',
    'test-galamm-latent-covariates-interaction.R:69:3', 'test-galamm-lmm.R:76:3',
    'test-galamm-lmm.R:155:3', 'test-galamm-mixed-resp.R:139:3',
    'test-galamm-mixed-resp.R:152:3', 'test-galamm-semiparametric.R:14:3',
    'test-galamm-setup.R:296:3'
  
  [ FAIL 0 | WARN 0 | SKIP 10 | PASS 96 ]
  > 
  > proc.time()
     user  system elapsed 
    26.28    1.18   27.45
Running 'testthat.R' [169s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(galvanizer)
  > 
  > test_check("galvanizer")
  [ FAIL 0 | WARN 0 | SKIP 27 | PASS 0 ]
  
  ══ Skipped tests (27) ══════════════════════════════════════════════════════════
  • API not available (27): 'test-highbond_api_projects.R:9:3',
    'test-highbond_api_projects.R:20:3', 'test-highbond_api_projects.R:33:3',
    'test-highbond_api_projects.R:43:3', 'test-highbond_api_projects.R:54:3',
    'test-highbond_api_projects.R:65:3', 'test-highbond_api_projects.R:76:3',
    'test-highbond_api_projects.R:87:3', 'test-highbond_api_projects.R:99:3',
    'test-highbond_api_projects.R:111:3', 'test-highbond_api_projects.R:123:3',
    'test-highbond_api_projects.R:142:3', 'test-highbond_api_projects.R:161:3',
    'test-highbond_api_projects.R:180:3', 'test-highbond_api_projects.R:199:3',
    'test-highbond_api_projects.R:210:3', 'test-highbond_api_projects.R:222:3',
    'test-highbond_api_projects.R:231:3', 'test-highbond_api_projects.R:242:3',
    'test-highbond_api_projects.R:253:3', 'test-highbond_api_projects.R:265:3',
    'test-highbond_api_results.R:17:3', 'test-highbond_api_results.R:48:3',
    'test-highbond_api_results.R:77:3', 'test-highbond_api_results.R:89:3',
    'test-highbond_api_results.R:101:3', 'test-highbond_api_results.R:118:3'
  
  [ FAIL 0 | WARN 0 | SKIP 27 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     1.70    0.23    1.92
Running 'spelling.R' [160s]
  Running 'testthat.R' [1s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if (requireNamespace("spelling", quietly = TRUE)) {
  +   spelling::spell_check_test(
  +     vignettes = TRUE, error = FALSE,
  +     skip_on_cran = TRUE
  +   )
  + }
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.15    0.04    0.18
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(gapminder)
  > 
  > test_check("gapminder")
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 1 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-gapminder.R:11:3'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     1.04    0.15    1.18
installed size is  9.1Mb
  sub-directories of 1Mb or more:
    doc   7.9Mb
installed size is 33.5Mb
  sub-directories of 1Mb or more:
    doc   31.8Mb
    libs   1.2Mb
Running 'testthat.R' [163s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(GARCOM)
  GARCOM v1.2.2 package has been loaded
  > 
  > test_check("GARCOM")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 42 ]
  > 
  > proc.time()
     user  system elapsed 
     2.50    0.35    2.82
Running 'spelling.R' [161s]
  Running 'testthat.R' [18s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if (requireNamespace("spelling", quietly = TRUE)) {
  +   spelling::spell_check_test(
  +     vignettes = TRUE, error = FALSE,
  +     skip_on_cran = TRUE
  +   )
  + }
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.18    0.06    0.23
Running 'testthat.R' [175s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(garma)
  Loading required package: forecast
  Loading required package: ggplot2
  
  
  Package garma: 0.9.13
  
  > 
  > test_check("garma")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 11 ]
  > 
  > proc.time()
     user  system elapsed 
    11.53    0.75   12.31
Running 'testthat.R' [158s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library("testthat")
  > 
  > test_check("GAS")
  Loading required package: GAS
  
  Attaching package: 'GAS'
  
  The following object is masked from 'package:stats':
  
      residuals
  
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 14 ]
  > 
  > proc.time()
     user  system elapsed 
     0.92    0.28    1.17
Running 'test-all.R' [197s]
Running the tests in 'tests/test-all.R' failed.
Complete output:
  > library(testthat)
  > library(gastempt)
  > options(Ncpus = parallel::detectCores(logical = TRUE))
  > test_check("gastempt")
  Starting 6 test processes
  [ FAIL 0 | WARN 50 | SKIP 10 | PASS 224 ]
  
  ══ Skipped tests (10) ══════════════════════════════════════════════════════════
  • On CRAN (8): 'test-graphics.R:2:3', 'test-stan.R:60:13', 'test-stan.R:65:13',
    'test-stan.R:90:3', 'test-stan.R:118:3', 'test-stan.R:134:3',
    'test-fitnlme.R:11:3', 'test-fitnlme.R:87:3'
  • Skipped because it fails on aarch64 (1): 'test-fitnlme.R:30:3'
  • Slow. Only use on errors in other Stan functions. (1): 'test-stan.R:153:3'
  
  [ FAIL 0 | WARN 50 | SKIP 10 | PASS 224 ]
  Deleting unused snapshots:
  • graphics/nlme-gastempt.svg
  > 
  > proc.time()
     user  system elapsed 
     9.17    0.90   28.50
installed size is  6.4Mb
  sub-directories of 1Mb or more:
    extdata   1.6Mb
    libs      2.9Mb
Running 'testthat.R' [159s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(gatepoints)
  > 
  > test_check("gatepoints")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 2 ]
  > 
  > proc.time()
     user  system elapsed 
     0.60    0.14    0.73
Running 'spelling.R' [152s]
  Running 'testthat.R' [203s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.15    0.14    0.21 
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(gateR)
  
  Welcome to {gateR} version 0.1.15
  > help("gateR") # for documentation
  > citation("gateR") # for how to cite
  
  > 
  > test_check("gateR")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 36 ]
  > 
  > proc.time()
     user  system elapsed 
    40.25    1.70   42.03
Running 'testthat.R' [276s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(GauPro)
  > 
  > test_check("GauPro")
  
  warning: solve(): system is singular; attempting approx solution
  Error : solve(): solution not found
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 3055 ]
  > 
  > proc.time()
     user  system elapsed 
   104.03    5.54  111.18
Running 'testthat.R' [191s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(gbfs)
  > 
  > test_check("gbfs")
  [ FAIL 0 | WARN 0 | SKIP 8 | PASS 10 ]
  
  ══ Skipped tests (8) ═══════════════════════════════════════════════════════════
  • On CRAN (7): 'test-dynamic-feeds.R:6:3', 'test-dynamic-feeds.R:31:3',
    'test-static-feeds.R:6:3', 'test-utils.R:6:3', 'test-utils.R:60:3',
    'test-wrapper.R:43:3', 'test-wrapper.R:53:3'
  • row-binding trips up on GHA (1): 'test-dynamic-feeds.R:16:3'
  
  [ FAIL 0 | WARN 0 | SKIP 8 | PASS 10 ]
  > 
  > proc.time()
     user  system elapsed 
     2.57    0.51   40.92
Running 'spelling.R' [157s]
  Running 'testthat.R' [147s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.15    0.06    0.21 
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(gbifdb)
  > 
  > test_check("gbifdb")
  The tzdb package is not installed. Timezones will not be available to Arrow compute functions.
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 3 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test_gbifdb.R:30:3'
  
  [ FAIL 0 | WARN 0 | SKIP 1 | PASS 3 ]
  > 
  > proc.time()
     user  system elapsed 
     1.59    0.21    1.79
Package in Depends field not imported from: 'tools'
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
Unexported objects imported by ':::' calls:
  'tools:::.Rd_get_argument_names' 'tools:::RdTags' 'tools:::fetchRdDB'
  See the note in ?`:::` about the use of this operator.
Running 'testthat.R' [157s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(gbutils)
  > 
  > test_check("gbutils")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 9 ]
  > 
  > proc.time()
     user  system elapsed 
     0.92    0.10    0.96
Package suggested but not available for checking: 'paleofire'
Running 'testthat.R' [157s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library("testthat")
  > library("gclm")
  > 
  > test_check("gclm")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 9 ]
  > 
  > proc.time()
     user  system elapsed 
     0.59    0.09    0.67
Installation failed.
See 'd:/Rcompile/CRANpkg/local/4.4/gdalBindings.Rcheck/00install.out' for details.
installed size is 107.3Mb
  sub-directories of 1Mb or more:
    L8NY18   2.3Mb
    gdal     3.0Mb
    libs    92.4Mb
    proj     8.4Mb
installed size is 104.4Mb
  sub-directories of 1Mb or more:
    gdal   3.0Mb
    libs  90.6Mb
    proj   8.4Mb
Running 'test-all.R' [154s]
Running the tests in 'tests/test-all.R' failed.
Complete output:
  > library(testthat)
  > 
  > test_check("GDELTtools")
  Loading required package: GDELTtools
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
     1.10    0.21    1.96
Running 'testthat.R' [155s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(gdpc)
  > 
  > test_check("gdpc")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 12 ]
  > 
  > proc.time()
     user  system elapsed 
     1.04    0.17    2.56
Package suggested but not available for checking: 'gdxrrw'
Running 'testthat.R' [143s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > 
  > proc.time()
     user  system elapsed 
     0.40    0.09    0.46
Running 'test-all.R' [217s]
Running the tests in 'tests/test-all.R' failed.
Complete output:
  > library(gear)
  > if (requireNamespace("testthat", quietly = TRUE)) {
  +   library(testthat)
  +   test_check("gear")
  + } else {
  +   message("tests could not be run because testthat is not installed")
  + }
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 628 ]
  > 
  > proc.time()
     user  system elapsed 
    59.10    2.81   61.90
Running 'spelling.R' [0s]
  Running 'testthat.R' [153s]
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)
  > library(geboes.score)
  > 
  > test_check("geboes.score")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 17 ]
  > 
  > proc.time()
     user  system elapsed 
     0.70    0.15    0.84
Found the following significant warnings:
  ugee.c:813:54: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'long long unsigned int' [-Wformat=]
See 'd:/Rcompile/CRANpkg/local/4.4/gee.Rcheck/00install.out' for details.
* used C compiler: 'gcc.exe (GCC) 13.2.0'
* used Fortran compiler: 'GNU Fortran (GCC) 13.2.0'
Running 'testthat.R' [167s]
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)
  > library(geessbin)
  > 
  > test_check("geessbin")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 2 ]
  > 
  > proc.time()
     user  system elapsed 
     0.68    0.18    0.86
Running 'testthat.R' [215s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(geex)
  
  Attaching package: 'geex'
  
  The following object is masked from 'package:methods':
  
      show
  
  > 
  > test_check("geex")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 84 ]
  > 
  > proc.time()
     user  system elapsed 
    40.17    1.46   41.70
Auto-generated content requiring editing in Rd file 'gemlog-package.Rd':
  \details: '...the package, including the most important ~~ ~~ functions ~~'
Running 'test.R' [170s]
Running the tests in 'tests/test.R' failed.
Complete output:
  > library(testthat)
  > test_check('gemtc', filter="unit")
  Loading required package: gemtc
  Loading required package: coda
  [ FAIL 0 | WARN 8 | SKIP 0 | PASS 378 ]
  
  [ FAIL 0 | WARN 8 | SKIP 0 | PASS 378 ]
  > 
  > proc.time()
     user  system elapsed 
    24.54    1.03   25.57
installed size is  6.1Mb
  sub-directories of 1Mb or more:
    doc       1.5Mb
    extdata   3.2Mb
    libs      1.0Mb
Running 'testthat.R' [164s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > # Copyright (c) 2020, ETH Zurich
  > 
  > library(testthat)
  > library(gen3sis)
  > 
  > test_check("gen3sis")
  [ FAIL 0 | WARN 0 | SKIP 11 | PASS 28 ]
  
  ══ Skipped tests (11) ══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-gen3sis_main.R:5:3'
  • can't mock file.exists (1): 'test-input_creation.R:2:3'
  • skip for now (2): 'test-config_handling.R:28:3',
    'test-config_handling.R:49:3'
  • skip until config handling settled (1): 'test-config_handling.R:38:3'
  • skip until confoig handling settled (2): 'test-config_handling.R:7:3',
    'test-config_handling.R:21:3'
  • skip until devtools updated in docker image (4):
    'test-config_handling.R:64:3', 'test-config_handling.R:74:3',
    'test-config_handling.R:84:3', 'test-config_handling.R:94:3'
  
  [ FAIL 0 | WARN 0 | SKIP 11 | PASS 28 ]
  > 
  > proc.time()
     user  system elapsed 
     9.40    0.57    9.98
Running 'testthat.R' [162s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(GenderInfer)
  > 
  > test_check("GenderInfer")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
  > 
  > proc.time()
     user  system elapsed 
     1.37    0.23    1.53
Package suggested but not available for checking: 'genderdata'
Running 'testthat.R' [176s]
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)
  > library(geneHapR)
  Loading required package: ggplot2
  > 
  > test_check("geneHapR")
  Indel replcements are:
  GG->i1; GCCTA->i2; AA->i3; GGG->i4; CC->i5; AC->i6
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
    11.48    1.00   12.48
Running 'testthat.R' [152s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(generator)
  > 
  > test_check("generator")
  [ FAIL 0 | WARN 0 | SKIP 9 | PASS 19 ]
  
  ══ Skipped tests (9) ═══════════════════════════════════════════════════════════
  • empty test (9): 'test-r_credit_card_numbers.R:12:1',
    'test-r_date_of_births.R:12:1', 'test-r_email_addresses.R:12:1',
    'test-r_full_names.R:12:1', 'test-r_ip_addresses.R:12:1',
    'test-r_latitudes.R:12:1', 'test-r_longitudes.R:12:1',
    'test-r_national_identification_numbers.R:12:1',
    'test-r_phone_numbers.R:13:1'
  
  [ FAIL 0 | WARN 0 | SKIP 9 | PASS 19 ]
  > 
  > proc.time()
     user  system elapsed 
     0.93    0.18    1.12
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(genero)
  > 
  > test_check("genero")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 13 ]
  > 
  > proc.time()
     user  system elapsed 
     0.67    0.18    0.81
Running 'testthat.R' [168s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(geneSLOPE)
  Loading required package: SLOPE
  > 
  > test_check("geneSLOPE")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 6 ]
  > 
  > proc.time()
     user  system elapsed 
    18.56    0.34   18.92
Running 'testthat.R' [150s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library("testthat")
  > library("genie")
  Loading required package: genieclust
  > test_check("genie")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
  > 
  > proc.time()
     user  system elapsed 
     0.71    0.15    0.85
Running 'testthat.R' [158s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(genomic.autocorr)
  > 
  > test_check("genomic.autocorr")
  [ FAIL 0 | WARN 405 | SKIP 0 | PASS 2 ]
  
  [ FAIL 0 | WARN 405 | SKIP 0 | PASS 2 ]
  > 
  > proc.time()
     user  system elapsed 
     8.45    0.85    9.39
Running 'testthat.R' [159s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > #library(testthat)
  > 
  > ## These tests have not been updated for changes in testthat!
  > #test_check("genpathmox")
  > 
  > proc.time()
     user  system elapsed 
     0.12    0.04    0.15
installed size is 13.5Mb
  sub-directories of 1Mb or more:
    libs  12.8Mb
Running 'testthat.R' [168s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(geocacheR)
  > 
  > test_check("geocacheR")
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 45 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 45 ]
  > 
  > proc.time()
     user  system elapsed 
     1.20    0.21    1.40
installed size is  6.7Mb
  sub-directories of 1Mb or more:
    extdata   3.0Mb
    libs      1.4Mb
Running 'testthat.R' [169s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(geodimension)
  > 
  > test_check("geodimension")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 101 ]
  > 
  > proc.time()
     user  system elapsed 
    19.21    0.85   20.06
Running 'testthat.R' [158s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(geodist)
  > 
  > test_check("geodist")
  Starting 2 test processes
  [ FAIL 0 | WARN 0 | SKIP 4 | PASS 104 ]
  
  ══ Skipped tests (4) ═══════════════════════════════════════════════════════════
  • empty test (4): 'test-georange.R:70:1', 'test-georange.R:83:1',
    'test-geodist.R:42:1', 'test-geodist.R:52:1'
  
  [ FAIL 0 | WARN 0 | SKIP 4 | PASS 104 ]
  > 
  > proc.time()
     user  system elapsed 
     1.07    0.43    2.81
Running 'testthat.R' [178s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(geodiv)
  > 
  > test_check("geodiv")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 104 ]
  > 
  > 
  > proc.time()
     user  system elapsed 
     7.46    0.56    7.98
Running 'testthat.r' [164s]
Running the tests in 'tests/testthat.r' failed.
Complete output:
  > library(testthat)
  > library(geoelectrics)
  Loading required package: lattice
  Loading required package: rgl
  Loading required package: fields
  Loading required package: spam
  Spam version 2.10-0 (2023-10-23) is loaded.
  Type 'help( Spam)' or 'demo( spam)' for a short introduction 
  and overview of this package.
  Help for individual functions is also obtained by adding the
  suffix '.spam' to the function name, e.g. 'help( chol.spam)'.
  
  Attaching package: 'spam'
  
  The following objects are masked from 'package:base':
  
      backsolve, forwardsolve
  
  Loading required package: viridisLite
  
  Try help(fields) to get started.
  
  Attaching package: 'fields'
  
  The following object is masked from 'package:testthat':
  
      describe
  
  > 
  > test_check("geoelectrics")
  Created an empty GPS coordinates object.
  Created an empty processed data object.
  Created an empty GPS coordinates object.
  Created an empty raw data object.
  Created an empty processed data object.
  Created an empty raw data object.
  [ FAIL 0 | WARN 0 | SKIP 15 | PASS 48 ]
  
  ══ Skipped tests (15) ══════════════════════════════════════════════════════════
  • empty test (15): 'test_gui.r:3:1', 'test_levelplot.r:11:1',
    'test_levelplot.r:27:1', 'test_plot.r:5:1', 'test_plot.r:12:1',
    'test_plot.r:19:1', 'test_plot.r:26:1', 'test_plot.r:33:1',
    'test_plot3d.r:5:1', 'test_plot3d.r:9:1', 'test_plotIntersect.r:5:1',
    'test_plotIntersect.r:9:1', 'test_plotLegend.r:5:1',
    'test_plotLegend.r:10:1', 'test_plotLegend.r:15:1'
  
  [ FAIL 0 | WARN 0 | SKIP 15 | PASS 48 ]
  > 
  > proc.time()
     user  system elapsed 
     5.81    0.65    6.45
installed size is  6.7Mb
  sub-directories of 1Mb or more:
    doc       2.1Mb
    extdata   3.5Mb
Running 'testthat.R' [180s]
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)
  > library(geogenr)
  > 
  > test_check("geogenr")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 49 ]
  > 
  > proc.time()
     user  system elapsed 
    27.75    5.00   33.39
Running 'testthat.R' [152s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(geogrid)
  > 
  > test_check("geogrid")
  Reading layer `london_LA' from data source 
    `D:\RCompile\CRANpkg\lib\4.4\geogrid\extdata\london_LA.json' 
    using driver `GeoJSON'
  Simple feature collection with 33 features and 7 fields
  Geometry type: MULTIPOLYGON
  Dimension:     XY
  Bounding box:  xmin: 503568.2 ymin: 155850.8 xmax: 561957.5 ymax: 200933.9
  Geodetic CRS:  WGS 84
  [ FAIL 0 | WARN 1 | SKIP 1 | PASS 9 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-zzz-lintr.R:8:9'
  
  [ FAIL 0 | WARN 1 | SKIP 1 | PASS 9 ]
  > 
  > proc.time()
     user  system elapsed 
     4.43    0.70    5.12
Running 'testthat.R' [162s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(geohashTools)
  > 
  > # TODO(#40): activate this
  > # options(warn = 2L)
  > test_check('geohashTools')
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 116 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 116 ]
  > 
  > proc.time()
     user  system elapsed 
     2.85    0.48    3.32
Running 'spelling.R' [166s]
  Running 'testthat.R' [190s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.25    0.03    0.21 
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(geomander)
  > 
  > test_check('geomander')
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 33 ]
  
  [ FAIL 0 | WARN 1 | SKIP 0 | PASS 33 ]
  > 
  > proc.time()
     user  system elapsed 
    19.56    0.81   20.43
Package suggested but not available for checking: 'geomarocdata'
Running 'testthat.R' [181s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > require(testthat)
  Loading required package: testthat
  > require(GeomComb)
  Loading required package: GeomComb
  > 
  > test_check("GeomComb")
  [ FAIL 0 | WARN 1 | SKIP 2 | PASS 311 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • empty test (2): 'test-foreccomb.R:21:1', 'test-foreccomb.R:37:1'
  
  [ FAIL 0 | WARN 1 | SKIP 2 | PASS 311 ]
  > 
  > proc.time()
     user  system elapsed 
    17.76    0.82   18.57
installed size is 14.7Mb
  sub-directories of 1Mb or more:
    R         9.5Mb
    extdata   2.5Mb
    help      2.6Mb
Running 'spelling.R' [146s]
  Running 'testthat.R' [167s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.17    0.09    0.20 
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > 
  > test_check("geometry")
  Loading required package: geometry
  [ FAIL 0 | WARN 0 | SKIP 4 | PASS 260 ]
  
  ══ Skipped tests (4) ═══════════════════════════════════════════════════════════
  • empty test (4): 'test-intersectn.R:96:1', 'test-intersectn.R:125:1',
    'test-intersectn.R:217:1', 'test-intersectn.R:227:1'
  
  [ FAIL 0 | WARN 0 | SKIP 4 | PASS 260 ]
  > 
  > proc.time()
     user  system elapsed 
     7.26    1.42    8.67
Running 'testthat.R' [158s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(GeoMongo)
  If the 'GeoMongo' package gives the following error: 'attempt to apply non-function' then make sure to open a new R session and run 'reticulate::py_config()' before loading the package!
  > 
  > test_check("GeoMongo")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     1.54    0.26    1.76
Running 'testthat.R' [161s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(geomtextpath)
  Loading required package: ggplot2
  > 
  > test_check("geomtextpath")
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 469 ]
  
  ══ Skipped tests (3) ═══════════════════════════════════════════════════════════
  • On CRAN (2): 'test-text_helpers.R:30:3', 'test-utils.R:215:3'
  • utils.R has been moved (1): 'test-utils.R:275:3'
  
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 469 ]
  > 
  > proc.time()
     user  system elapsed 
     8.09    1.28    9.36
Running 'testthat.R' [166s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(geomultistar)
  > 
  > test_check("geomultistar")
  Deleting source `D:\temp\RtmpU9svNi/city.gpkg' failed
  Writing layer `city' to data source `D:\temp\RtmpU9svNi/city.gpkg' using driver `GPKG'
  Writing 9 features with 19 fields and geometry type Point.
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 57 ]
  > 
  > proc.time()
     user  system elapsed 
     5.50    0.37    5.84
Running 'spelling.R' [161s]
  Running 'testthat.R' [168s]
Running the tests in 'tests/spelling.R' failed.
Complete output:
  > if(requireNamespace('spelling', quietly = TRUE))
  +   spelling::spell_check_test(vignettes = TRUE, error = FALSE,
  +                              skip_on_cran = TRUE)
  NULL
  > 
  > proc.time()
     user  system elapsed 
     0.20    0.04    0.23 
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(georefdatar)
  > 
  > test_check("georefdatar")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 139 ]
  > 
  > proc.time()
     user  system elapsed 
     1.54    0.26    1.81
Running 'test-all.R' [158s]
Running the tests in 'tests/test-all.R' failed.
Complete output:
  > library(testthat)
  > library(geosapi)
  > 
  > #test environment
  > gsUrl <- "http://localhost:8080/geoserver"
  > gsUsr <- "admin"
  > gsPwd <- "geoserver"
  > gsLogger <- "INFO"
  > gsman <- try(GSManager$new(gsUrl, gsUsr, gsPwd, gsLogger))
  Error in curl::curl_fetch_memory(url, handle = handle) : 
    Failed to connect to localhost port 8080 after 2387 ms: Couldn't connect to server
  > 
  > 
  > if(is(gsman, "GSManager")){
  +   cat(sprintf("GeoServer test instance started at %s. Running integration tests...\n", gsUrl))
  +   test_check("geosapi")
  + }else{
  +   cat("GeoServer test instance is not started. Skipping integration tests...\n")
  + }
  GeoServer test instance is not started. Skipping integration tests...
  > 
  > proc.time()
     user  system elapsed 
     0.71    0.18    3.28
Running 'testthat.R' [168s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > 
  > library(testthat)
  > library(geospark)
  > 
  > if (identical(Sys.getenv("NOT_CRAN"), "true")) {
  +     test_check("geospark")
  +     on.exit({spark_disconnect_all()})
  + }
  > 
  > proc.time()
     user  system elapsed 
     1.20    0.18    1.39
Running 'testthat.R' [230s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(geozoo)
  > 
  > test_check("geozoo")
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ]
  > 
  > proc.time()
     user  system elapsed 
    54.76   16.92   71.65
Running 'testthat.R' [162s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(gerbil)
  > 
  > test_check("gerbil")
        Variable.Type Num.Observed Num.Miss Miss.Rate
  X1 continuous (EMP)          900      100    10.00%
  X2 continuous (EMP)          900      100    10.00%
  X3 continuous (EMP)          900      100    10.00%
                      Variable.Type Num.Observed Num.Miss Miss.Rate
  sex                        binary        42125        0     0.00%
  age              continuous (EMP)        27382    14743    35.00%
  marital_status             binary        27382    14743    35.00%
  job_field        continuous (EMP)        27382    14743    35.00%
  farm_labour_days continuous (EMP)        27382    14743    35.00%
  own_livestock              binary        27382    14743    35.00%
  education_level  continuous (EMP)        27382    14743    35.00%
  income           continuous (EMP)        27382    14743    35.00%
  [ FAIL 0 | WARN 2 | SKIP 0 | PASS 2 ]
  
  [ FAIL 0 | WARN 2 | SKIP 0 | PASS 2 ]
  > 
  > proc.time()
     user  system elapsed 
     9.28    2.29   11.56
installed size is  7.3Mb
  sub-directories of 1Mb or more:
    libs   7.0Mb
Running 'libgit2.R' [153s]
  Running 'spelling.R' [0s]
  Running 'testthat.R' [157s]
Running the tests in 'tests/libgit2.R' failed.
Complete output:
  > library(gert)
  Linking to libgit2 v1.7.1, ssh support: YES
  No global .gitconfig found in: C:\Users\CRAN
  No default user configured
  > 
  > proc.time()
     user  system elapsed 
     0.25    0.07    0.36 
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(gert)
  Linking to libgit2 v1.7.1, ssh support: YES
  No global .gitconfig found in: C:\Users\CRAN
  No default user configured
  > 
  > test_check("gert")
  [ FAIL 0 | WARN 0 | SKIP 7 | PASS 60 ]
  
  ══ Skipped tests (7) ═══════════════════════════════════════════════════════════
  • On CRAN (7): 'test-auth.R:3:3', 'test-auth.R:14:3', 'test-auth.R:34:3',
    'test-clone.R:2:3', 'test-rebase.R:2:3', 'test-remotes.R:2:3',
    'test-remotes.R:26:3'
  
  [ FAIL 0 | WARN 0 | SKIP 7 | PASS 60 ]
  > 
  > proc.time()
     user  system elapsed 
     1.40    0.64    2.09
Running 'testthat.R' [172s]
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)
  > library(geslaR)
  Loading required package: arrow
  
  Attaching package: 'arrow'
  
  The following object is masked from 'package:testthat':
  
      matches
  
  The following object is masked from 'package:utils':
  
      timestamp
  
  Loading required package: dplyr
  
  Attaching package: 'dplyr'
  
  The following object is masked from 'package:testthat':
  
      matches
  
  The following objects are masked from 'package:stats':
  
      filter, lag
  
  The following objects are masked from 'package:base':
  
      intersect, setdiff, setequal, union
  
  > 
  > test_check("geslaR")
  i The total size of the dataset is about 7GB, and the download time will depend
  on your internet connection
  i To use the app, the whole GESLA dataset must be downloaded locally
  i The total size of the dataset is about 7GB, and the download time will depend
  on your internet connection
  i You chose `overwrite = TRUE` to download the dataset again
  i The total size of the dataset is about 7GB, and the download time will depend
  on your internet connection
  [ FAIL 0 | WARN 0 | SKIP 0 | PASS 21 ]
  > 
  > proc.time()
     user  system elapsed 
     3.21    0.56    3.75
Running 'testthat.R' [166s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(gestalt)
  > 
  > test_check("gestalt")
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 995 ]
  
  ══ Skipped tests (3) ═══════════════════════════════════════════════════════════
  • On CRAN (3): 'test-print.R:10:3', 'test-print.R:14:3', 'test-print.R:20:3'
  
  [ FAIL 0 | WARN 0 | SKIP 3 | PASS 995 ]
  > 
  > proc.time()
     user  system elapsed 
     6.81    1.50    8.29
Running 'testthat.R' [170s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(gesttools)
  > 
  > test_check("gesttools")
  # weights:  24 (14 variable)
  initial  value 2523.512427 
  iter  10 value 2318.419668
  final  value 2295.263360 
  converged
  # weights:  24 (14 variable)
  initial  value 2523.512427 
  iter  10 value 2318.419668
  final  value 2295.263360 
  converged
  [ FAIL 0 | WARN 3 | SKIP 0 | PASS 4 ]
  
  [ FAIL 0 | WARN 3 | SKIP 0 | PASS 4 ]
  > 
  > proc.time()
     user  system elapsed 
     5.40    0.51    5.93
Running 'testthat.R' [171s]
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)
  > library(GetBCBData)
  > 
  > test_check("GetBCBData")
  [ FAIL 0 | WARN 0 | SKIP 7 | PASS 0 ]
  
  ══ Skipped tests (7) ═══════════════════════════════════════════════════════════
  • On CRAN (7): 'test-get_series.R:16:3', 'test-get_series.R:27:3',
    'test-get_series.R:39:3', 'test-get_series.R:50:3', 'test-get_series.R:62:3',
    'test-get_series.R:73:3', 'test-get_series.R:84:3'
  
  [ FAIL 0 | WARN 0 | SKIP 7 | PASS 0 ]
  > 
  > proc.time()
     user  system elapsed 
     0.89    0.18    1.06