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This page was generated on 2025-02-06 11:44 -0500 (Thu, 06 Feb 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.1 LTS)x86_64R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" 4719
palomino7Windows Server 2022 Datacenterx64R Under development (unstable) (2025-01-21 r87610 ucrt) -- "Unsuffered Consequences" 4480
lconwaymacOS 12.7.1 Montereyx86_64R Under development (unstable) (2025-01-22 r87618) -- "Unsuffered Consequences" 4491
kjohnson3macOS 13.7.1 Venturaarm64R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" 4444
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 2083/2295HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
structToolbox 1.19.1  (landing page)
Gavin Rhys Lloyd
Snapshot Date: 2025-02-05 13:48 -0500 (Wed, 05 Feb 2025)
git_url: https://git.bioconductor.org/packages/structToolbox
git_branch: devel
git_last_commit: 6714233
git_last_commit_date: 2025-01-28 04:25:47 -0500 (Tue, 28 Jan 2025)
nebbiolo1Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino7Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.1 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published


CHECK results for structToolbox on kjohnson3

To the developers/maintainers of the structToolbox package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/structToolbox.git to reflect on this report. See Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results


Summary

Package: structToolbox
Version: 1.19.1
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:structToolbox.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings structToolbox_1.19.1.tar.gz
StartedAt: 2025-02-05 21:43:07 -0500 (Wed, 05 Feb 2025)
EndedAt: 2025-02-05 21:45:43 -0500 (Wed, 05 Feb 2025)
EllapsedTime: 155.8 seconds
RetCode: 0
Status:   OK  
CheckDir: structToolbox.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:structToolbox.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings structToolbox_1.19.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.21-bioc/meat/structToolbox.Rcheck’
* using R Under development (unstable) (2025-01-20 r87609)
* using platform: aarch64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Ventura 13.7.1
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘structToolbox/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘structToolbox’ version ‘1.19.1’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘structToolbox’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking R/sysdata.rda ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK


Installation output

structToolbox.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL structToolbox
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library’
* installing *source* package ‘structToolbox’ ...
** this is package ‘structToolbox’ version ‘1.19.1’
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** 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 (structToolbox)

Tests output

structToolbox.Rcheck/tests/testthat.Rout


R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(testthat)
> library(ggplot2)
> library(structToolbox)
Loading required package: struct
> 
> test_check("structToolbox")
[ FAIL 0 | WARN 6 | SKIP 0 | PASS 166 ]

[ FAIL 0 | WARN 6 | SKIP 0 | PASS 166 ]
> 
> proc.time()
   user  system elapsed 
 52.656   0.606  53.342 

Example timings

structToolbox.Rcheck/structToolbox-Ex.timings

nameusersystemelapsed
ANOVA0.0750.0040.078
AUC0.5490.0230.572
DFA0.050.000.05
DatasetExperiment_boxplot0.5660.0130.579
DatasetExperiment_dist0.7470.0240.773
DatasetExperiment_factor_boxplot0.0610.0010.061
DatasetExperiment_heatmap0.1270.0100.137
HCA0.0200.0010.022
HSD0.0890.0060.098
HSDEM0.1460.0070.155
MTBLS79_DatasetExperiment0.0010.0000.000
OPLSDA0.0030.0000.003
OPLSR0.0050.0010.005
PCA0.0010.0000.002
PLSDA0.0080.0000.007
PLSR0.0020.0010.002
SVM0.0080.0000.008
as_data_frame0.0360.0000.037
autoscale0.0220.0000.021
balanced_accuracy0.4940.0050.500
blank_filter0.1090.0060.116
blank_filter_hist0.0010.0000.001
bootstrap0.0050.0000.005
calculate0.0010.0010.002
chart_plot0.0080.0000.008
classical_lsq0.0850.0010.086
compare_dist1.2210.0731.298
confounders_clsq0.7990.0050.804
confounders_lsq_barchart0.8500.0080.857
confounders_lsq_boxplot0.8220.0040.826
constant_sum_norm0.0040.0000.004
corr_coef0.0740.0000.075
dfa_scores_plot0.2080.0020.209
dratio_filter0.0830.0020.085
equal_split0.0360.0010.036
feature_boxplot0.0080.0000.009
feature_profile0.1120.0030.114
feature_profile_array0.1320.0020.134
filter_by_name0.0140.0000.015
filter_na_count0.3380.0230.364
filter_smeta0.0180.0000.018
fisher_exact2.7450.0082.780
fold_change3.1820.0183.203
fold_change_int4.5390.0044.548
fold_change_plot0.0030.0000.003
forward_selection_by_rank2.0580.0612.121
fs_line1.7420.0401.784
glog_opt_plot0.1340.0020.135
glog_transform0.0790.0000.080
grid_search_1d1.1240.0621.187
gs_line0.0010.0000.000
hca_dendrogram000
kfold_xval0.9400.0060.953
kfoldxcv_grid1.0390.0071.052
kfoldxcv_metric0.0000.0000.001
knn_impute0.0040.0000.004
kw_p_hist000
kw_rank_sum0.0290.0000.029
linear_model0.0080.0000.008
log_transform0.0040.0000.005
mean_centre0.0000.0000.001
mean_of_medians0.0340.0010.035
mixed_effect0.0540.0000.055
model_apply0.0070.0010.007
model_predict0.0150.0000.016
model_reverse0.0120.0000.013
model_train0.0140.0000.014
mv_boxplot0.0840.0010.085
mv_feature_filter0.0390.0010.039
mv_feature_filter_hist000
mv_histogram0.0760.0010.079
mv_sample_filter0.0050.0010.005
mv_sample_filter_hist000
nroot_transform0.0040.0000.004
ontology_cache0.0010.0000.000
pairs_filter0.0040.0000.005
pareto_scale0.0160.0010.016
pca_biplot0.0060.0000.006
pca_correlation_plot0.0040.0000.004
pca_dstat_plot0.0040.0000.005
pca_loadings_plot0.0040.0000.004
pca_scores_plot0.1590.0020.163
pca_scree_plot0.0040.0000.004
permutation_test0.0050.0000.006
permutation_test_plot0.0010.0000.001
permute_sample_order0.0050.0000.005
pls_regcoeff_plot0.1040.0010.105
pls_scores_plot0.2010.0020.203
pls_vip_plot0.1140.0010.115
plsda_feature_importance_plot0.1860.0020.198
plsda_predicted_plot0.1250.0010.126
plsda_roc_plot0.3410.0020.344
plsr_cook_dist0.0040.0000.004
plsr_prediction_plot0.0040.0000.004
plsr_qq_plot0.0030.0000.004
plsr_residual_hist0.0030.0000.003
pqn_norm0.0980.0010.098
pqn_norm_hist000
prop_na0.0040.0000.005
r_squared000
resample0.0060.0010.007
resample_chart0.0000.0000.001
rsd_filter0.0050.0000.006
rsd_filter_hist0.0000.0000.001
run0.0080.0000.008
sb_corr0.0090.0000.009
scatter_chart0.1170.0010.118
split_data0.0040.0000.004
stratified_split0.0340.0000.033
svm_plot_2d0.1970.0080.206
tSNE0.0150.0010.015
tSNE_scatter0.0060.0000.006
tic_chart0.0630.0000.062
ttest0.0060.0000.006
vec_norm0.0000.0000.001
wilcox_p_hist0.0010.0000.000
wilcox_test0.0070.0000.008