Back to Multiple platform build/check report for BioC 3.23:   simplified   long
ABCDEFGHIJKLMNOPQR[S]TUVWXYZ

This page was generated on 2026-05-02 11:36 -0400 (Sat, 02 May 2026).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.4 LTS)x86_644.6.0 RC (2026-04-17 r89917) -- "Because it was There" 4988
kjohnson3macOS 13.7.7 Venturaarm644.6.0 Patched (2026-04-24 r89963) -- "Because it was There" 4718
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 2201/2418HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
structToolbox 1.24.0  (landing page)
Gavin Rhys Lloyd
Snapshot Date: 2026-05-01 13:40 -0400 (Fri, 01 May 2026)
git_url: https://git.bioconductor.org/packages/structToolbox
git_branch: RELEASE_3_23
git_last_commit: 635292a
git_last_commit_date: 2026-04-28 08:51:44 -0400 (Tue, 28 Apr 2026)
nebbiolo1Linux (Ubuntu 24.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
See other builds for structToolbox in R Universe.


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: 1.24.0
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_1.24.0.tar.gz
StartedAt: 2026-05-01 22:43:46 -0400 (Fri, 01 May 2026)
EndedAt: 2026-05-01 22:47:08 -0400 (Fri, 01 May 2026)
EllapsedTime: 202.5 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_1.24.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.23-bioc/meat/structToolbox.Rcheck’
* using R version 4.6.0 Patched (2026-04-24 r89963)
* using platform: aarch64-apple-darwin23
* R was compiled by
    Apple clang version 17.0.0 (clang-1700.3.19.1)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Tahoe 26.3.1
* using session charset: UTF-8
* current time: 2026-05-02 02:43:46 UTC
* using option ‘--no-vignettes’
* checking for file ‘structToolbox/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘structToolbox’ version ‘1.24.0’
* 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 ... NOTE
Namespaces in Imports field not imported from:
  ‘httr’ ‘jsonlite’ ‘limma’
  All declared Imports should be used.
* 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: 1 NOTE
See
  ‘/Users/biocbuild/bbs-3.23-bioc/meat/structToolbox.Rcheck/00check.log’
for details.


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/4.6/Resources/library’
* installing *source* package ‘structToolbox’ ...
** this is package ‘structToolbox’ version ‘1.24.0’
** 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 version 4.6.0 Patched (2026-04-24 r89963) -- "Because it was There"
Copyright (C) 2026 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin23

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 2 | SKIP 0 | PASS 166 ]

[ FAIL 0 | WARN 2 | SKIP 0 | PASS 166 ]
> 
> proc.time()
   user  system elapsed 
 74.863   0.806  76.669 

Example timings

structToolbox.Rcheck/structToolbox-Ex.timings

nameusersystemelapsed
ANOVA0.0740.0020.077
AUC0.9580.0250.985
DFA0.0720.0010.074
DatasetExperiment_boxplot0.6660.0070.681
DatasetExperiment_dist0.5620.0100.591
DatasetExperiment_factor_boxplot0.1120.0000.114
DatasetExperiment_heatmap0.1810.0040.187
HCA0.0190.0000.019
HSD0.1080.0070.122
HSDEM0.1660.0100.179
MTBLS79_DatasetExperiment0.0010.0000.000
OPLSDA0.0030.0000.004
OPLSR0.0030.0000.003
PCA0.0010.0000.001
PLSDA0.0040.0010.003
PLSR0.0030.0000.003
SVM0.0060.0010.007
as_data_frame0.0430.0000.047
autoscale0.0220.0000.023
balanced_accuracy0.7960.0080.814
balanced_error0.8170.0070.850
blank_filter0.1450.0100.156
blank_filter_hist000
bootstrap0.3270.0010.328
calculate0.0020.0000.002
chart_plot0.0080.0010.009
classical_lsq0.1030.0010.108
compare_dist1.5180.0271.562
confounders_clsq0.8930.0080.913
confounders_lsq_barchart1.0310.0061.047
confounders_lsq_boxplot1.0270.0061.052
constant_sum_norm0.0060.0000.010
corr_coef0.0800.0000.081
dfa_scores_plot0.3260.0020.339
dratio_filter0.0840.0020.086
equal_split0.0350.0010.036
feature_boxplot0.0080.0000.009
feature_profile0.1610.0080.170
feature_profile_array0.2130.0020.220
filter_by_name0.0090.0000.009
filter_na_count0.3530.0220.382
filter_smeta0.0190.0000.020
fisher_exact2.8580.0032.863
fold_change3.4540.0073.468
fold_change_int4.9490.0054.966
fold_change_plot0.0020.0000.002
forward_selection_by_rank2.5610.0292.630
fs_line2.4670.0232.531
glog_opt_plot0.1670.0010.170
glog_transform0.0850.0000.086
grid_search_1d1.4230.0261.455
gs_line0.0000.0000.001
hca_dendrogram000
kfold_xval1.4530.0121.471
kfoldxcv_grid1.6310.0131.667
kfoldxcv_metric000
knn_impute0.0040.0000.004
kw_p_hist0.0000.0000.001
kw_rank_sum0.0230.0010.024
linear_model0.0090.0000.009
log_transform0.0020.0000.003
mean_centre0.0010.0000.001
mean_of_medians0.0360.0000.036
mixed_effect0.0510.0010.052
model_apply0.0080.0000.008
model_predict0.0160.0010.016
model_reverse0.0070.0000.007
model_train0.0230.0000.023
mv_boxplot0.1280.0010.128
mv_feature_filter0.0330.0010.034
mv_feature_filter_hist0.0000.0000.001
mv_histogram0.1120.0010.113
mv_sample_filter0.0030.0000.003
mv_sample_filter_hist000
nroot_transform0.0020.0000.002
ontology_cache0.0010.0000.000
pairs_filter0.0020.0000.002
pareto_scale0.0170.0000.017
pca_biplot0.0040.0010.004
pca_correlation_plot0.0020.0000.002
pca_dstat_plot0.0020.0000.002
pca_loadings_plot0.0030.0000.003
pca_scores_plot0.2150.0020.218
pca_scree_plot0.0020.0000.004
permutation_test0.0030.0010.004
permutation_test_plot0.0010.0000.001
permute_sample_order0.0030.0000.002
pls_regcoeff_plot0.1680.0020.170
pls_scores_plot0.2910.0020.292
pls_vip_plot0.1930.0020.195
plsda_feature_importance_plot0.3180.0040.324
plsda_predicted_plot0.1990.0010.201
plsda_roc_plot0.4310.0020.435
plsr_cook_dist0.0030.0000.002
plsr_prediction_plot0.0020.0000.002
plsr_qq_plot0.0020.0000.003
plsr_residual_hist0.0020.0000.002
pqn_norm0.1180.0010.123
pqn_norm_hist000
prop_na0.0040.0010.004
r_squared000
resample0.0050.0000.004
resample_chart0.0010.0000.001
rsd_filter0.0040.0000.004
rsd_filter_hist0.0000.0000.001
run0.0090.0000.009
sb_corr0.0080.0000.008
scatter_chart0.1770.0010.182
split_data0.0030.0010.003
stratified_split0.0320.0000.033
svm_plot_2d0.2690.0060.280
tSNE0.0080.0000.008
tSNE_scatter0.0020.0000.003
tic_chart0.1150.0010.116
ttest0.0060.0000.007
vec_norm0.0010.0000.001
wilcox_p_hist000
wilcox_test0.0050.0000.006