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This page was generated on 2025-09-22 12:05 -0400 (Mon, 22 Sep 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4814
lconwaymacOS 12.7.1 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4603
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4547
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4553
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 2119/2333HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
structToolbox 1.21.0  (landing page)
Gavin Rhys Lloyd
Snapshot Date: 2025-09-21 13:45 -0400 (Sun, 21 Sep 2025)
git_url: https://git.bioconductor.org/packages/structToolbox
git_branch: devel
git_last_commit: 36d5ff1
git_last_commit_date: 2025-04-15 11:54:06 -0400 (Tue, 15 Apr 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  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 13.7.7 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    OK    OK  


CHECK results for structToolbox on lconway

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: 1.21.0
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_1.21.0.tar.gz
StartedAt: 2025-09-22 00:31:35 -0400 (Mon, 22 Sep 2025)
EndedAt: 2025-09-22 00:41:15 -0400 (Mon, 22 Sep 2025)
EllapsedTime: 579.5 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_1.21.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/structToolbox.Rcheck’
* using R version 4.5.1 Patched (2025-09-10 r88807)
* using platform: x86_64-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 Monterey 12.7.6
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘structToolbox/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘structToolbox’ version ‘1.21.0’
* 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 ... 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
Examples with CPU (user + system) or elapsed time > 5s
                            user system elapsed
fold_change_int           19.754  0.124  20.005
fold_change               14.332  0.104  14.543
fisher_exact              12.342  0.068  12.480
fs_line                    8.478  0.174   8.720
forward_selection_by_rank  7.010  0.151   7.220
compare_dist               5.714  0.230   5.979
kfoldxcv_grid              4.993  0.041   5.057
* 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-x86_64/Resources/library’
* installing *source* package ‘structToolbox’ ...
** this is package ‘structToolbox’ version ‘1.21.0’
** 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 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-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 
224.646   2.575 228.692 

Example timings

structToolbox.Rcheck/structToolbox-Ex.timings

nameusersystemelapsed
ANOVA0.2530.0090.264
AUC2.3470.1262.485
DFA0.2270.0020.231
DatasetExperiment_boxplot1.0610.0481.117
DatasetExperiment_dist1.4000.0831.489
DatasetExperiment_factor_boxplot0.3730.0030.376
DatasetExperiment_heatmap0.6500.0320.686
HCA0.0870.0010.088
HSD0.2910.0140.313
HSDEM0.3640.0230.388
MTBLS79_DatasetExperiment0.0010.0000.001
OPLSDA0.0130.0000.012
OPLSR0.010.000.01
PCA0.0060.0010.006
PLSDA0.0130.0010.014
PLSR0.0130.0010.013
SVM0.0270.0010.028
as_data_frame0.1440.0030.149
autoscale0.0810.0010.082
balanced_accuracy1.9720.0202.001
blank_filter0.4020.0220.427
blank_filter_hist0.0000.0010.001
bootstrap0.0080.0000.008
calculate0.0070.0000.007
chart_plot0.0270.0000.027
classical_lsq0.3420.0020.346
compare_dist5.7140.2305.979
confounders_clsq3.4610.0323.520
confounders_lsq_barchart3.7900.0333.848
confounders_lsq_boxplot3.6690.0283.718
constant_sum_norm0.0090.0010.010
corr_coef0.3330.0040.339
dfa_scores_plot1.2280.0121.252
dratio_filter0.3140.0070.322
equal_split0.1420.0020.144
feature_boxplot0.0310.0010.032
feature_profile0.6160.0140.634
feature_profile_array0.8020.0060.810
filter_by_name0.040.000.04
filter_na_count1.1560.0601.229
filter_smeta0.0750.0000.076
fisher_exact12.342 0.06812.480
fold_change14.332 0.10414.543
fold_change_int19.754 0.12420.005
fold_change_plot0.0080.0010.008
forward_selection_by_rank7.0100.1517.220
fs_line8.4780.1748.720
glog_opt_plot0.6640.0080.676
glog_transform0.3400.0030.345
grid_search_1d3.8730.1124.011
gs_line0.0000.0000.001
hca_dendrogram0.0010.0000.001
kfold_xval4.0460.0434.118
kfoldxcv_grid4.9930.0415.057
kfoldxcv_metric0.0010.0000.001
knn_impute0.0130.0010.014
kw_p_hist0.0010.0000.001
kw_rank_sum0.0900.0010.092
linear_model0.0310.0010.033
log_transform0.0090.0010.009
mean_centre0.0030.0010.003
mean_of_medians0.1380.0020.140
mixed_effect0.2010.0030.205
model_apply0.0280.0020.031
model_predict0.0750.0010.078
model_reverse0.0320.0010.037
model_train0.0660.0020.068
mv_boxplot0.5310.0100.543
mv_feature_filter0.1440.0030.148
mv_feature_filter_hist0.0000.0010.001
mv_histogram0.4390.0040.448
mv_sample_filter0.0110.0010.012
mv_sample_filter_hist0.0010.0010.001
nroot_transform0.0080.0010.009
ontology_cache0.0000.0010.000
pairs_filter0.0130.0000.015
pareto_scale0.0730.0010.079
pca_biplot0.0200.0010.022
pca_correlation_plot0.0080.0010.009
pca_dstat_plot0.0110.0000.013
pca_loadings_plot0.0110.0010.012
pca_scores_plot0.9110.0150.948
pca_scree_plot0.0090.0010.027
permutation_test0.0130.0010.014
permutation_test_plot0.0040.0010.004
permute_sample_order0.0100.0010.011
pls_regcoeff_plot0.6370.0380.688
pls_scores_plot1.1170.0101.140
pls_vip_plot0.6470.0100.668
plsda_feature_importance_plot1.1410.0111.162
plsda_predicted_plot0.7660.0070.777
plsda_roc_plot1.5750.0131.595
plsr_cook_dist0.0060.0010.006
plsr_prediction_plot0.0090.0000.010
plsr_qq_plot0.0080.0010.008
plsr_residual_hist0.0090.0000.009
pqn_norm0.4390.0040.443
pqn_norm_hist0.0010.0000.001
prop_na0.0140.0010.015
r_squared0.0010.0010.003
resample0.0200.0020.022
resample_chart0.0030.0000.004
rsd_filter0.0180.0020.019
rsd_filter_hist0.0010.0000.002
run0.0430.0020.053
sb_corr0.0310.0010.033
scatter_chart0.7170.0060.726
split_data0.0080.0010.008
stratified_split0.1500.0010.152
svm_plot_2d0.9990.0201.025
tSNE0.0280.0010.028
tSNE_scatter0.0080.0000.008
tic_chart0.4380.0030.444
ttest0.0450.0050.050
vec_norm0.0010.0000.001
wilcox_p_hist0.0010.0000.001
wilcox_test0.0210.0000.022