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This page was generated on 2025-09-16 12:06 -0400 (Tue, 16 Sep 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4726
lconwaymacOS 12.7.1 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4545
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4529
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4554
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 2116/2330HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
structToolbox 1.21.0  (landing page)
Gavin Rhys Lloyd
Snapshot Date: 2025-09-15 13:45 -0400 (Mon, 15 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: 2025-09-16 00:15:40 -0400 (Tue, 16 Sep 2025)
EndedAt: 2025-09-16 00:25:08 -0400 (Tue, 16 Sep 2025)
EllapsedTime: 568.1 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           18.386  0.097  18.581
fold_change               12.713  0.083  12.868
fisher_exact              11.538  0.074  11.702
fs_line                    8.360  0.146   8.559
forward_selection_by_rank  6.791  0.153   6.985
compare_dist               5.656  0.253   5.955
* 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 
219.387   2.545 223.467 

Example timings

structToolbox.Rcheck/structToolbox-Ex.timings

nameusersystemelapsed
ANOVA0.2350.0080.246
AUC2.2670.1202.398
DFA0.2050.0020.207
DatasetExperiment_boxplot1.0540.0541.117
DatasetExperiment_dist1.5540.0901.650
DatasetExperiment_factor_boxplot0.3810.0030.386
DatasetExperiment_heatmap0.6740.0340.711
HCA0.0850.0000.086
HSD0.3070.0140.332
HSDEM0.3930.0240.422
MTBLS79_DatasetExperiment0.0010.0000.001
OPLSDA0.0100.0010.012
OPLSR0.0100.0010.011
PCA0.0050.0000.005
PLSDA0.0150.0010.016
PLSR0.0120.0010.014
SVM0.0250.0010.027
as_data_frame0.1460.0010.148
autoscale0.0870.0020.092
balanced_accuracy2.0260.0232.055
blank_filter0.3970.0220.421
blank_filter_hist0.0010.0000.001
bootstrap0.0100.0000.011
calculate0.0050.0000.005
chart_plot0.0290.0010.030
classical_lsq0.3160.0020.320
compare_dist5.6560.2535.955
confounders_clsq3.4820.0283.530
confounders_lsq_barchart3.6760.0333.733
confounders_lsq_boxplot3.6420.0283.693
constant_sum_norm0.0100.0000.011
corr_coef0.2970.0050.304
dfa_scores_plot1.1050.0131.129
dratio_filter0.2900.0060.299
equal_split0.1500.0010.153
feature_boxplot0.0330.0000.034
feature_profile0.6220.0120.640
feature_profile_array0.8630.0100.884
filter_by_name0.0460.0000.047
filter_na_count1.3360.0761.440
filter_smeta0.0580.0010.059
fisher_exact11.538 0.07411.702
fold_change12.713 0.08312.868
fold_change_int18.386 0.09718.581
fold_change_plot0.0090.0000.010
forward_selection_by_rank6.7910.1536.985
fs_line8.3600.1468.559
glog_opt_plot0.6650.0100.681
glog_transform0.3300.0030.334
grid_search_1d3.7400.0983.863
gs_line0.0010.0000.001
hca_dendrogram0.0010.0000.001
kfold_xval3.7940.0323.847
kfoldxcv_grid4.4390.0414.510
kfoldxcv_metric0.0010.0010.001
knn_impute0.0170.0010.018
kw_p_hist0.0010.0010.001
kw_rank_sum0.0890.0010.090
linear_model0.0350.0010.036
log_transform0.0080.0000.008
mean_centre0.0030.0000.003
mean_of_medians0.1380.0010.141
mixed_effect0.1820.0030.185
model_apply0.0260.0020.028
model_predict0.0610.0010.063
model_reverse0.0320.0010.033
model_train0.0620.0020.067
mv_boxplot0.5030.0080.515
mv_feature_filter0.1380.0020.142
mv_feature_filter_hist0.0010.0000.001
mv_histogram0.3980.0040.406
mv_sample_filter0.0110.0000.011
mv_sample_filter_hist0.0010.0000.001
nroot_transform0.0080.0000.008
ontology_cache000
pairs_filter0.0120.0000.012
pareto_scale0.0630.0010.065
pca_biplot0.0190.0000.020
pca_correlation_plot0.0070.0010.007
pca_dstat_plot0.0100.0000.011
pca_loadings_plot0.0130.0000.013
pca_scores_plot0.8530.0110.871
pca_scree_plot0.0090.0000.008
permutation_test0.0140.0010.014
permutation_test_plot0.0030.0000.004
permute_sample_order0.0080.0000.008
pls_regcoeff_plot0.5850.0270.620
pls_scores_plot1.0170.0101.036
pls_vip_plot0.5530.0090.564
plsda_feature_importance_plot0.9990.0131.021
plsda_predicted_plot0.6890.0100.706
plsda_roc_plot1.4370.0111.457
plsr_cook_dist0.0090.0000.010
plsr_prediction_plot0.0060.0000.007
plsr_qq_plot0.0080.0010.008
plsr_residual_hist0.0070.0000.008
pqn_norm0.4110.0030.417
pqn_norm_hist0.0010.0000.001
prop_na0.0140.0010.015
r_squared0.0010.0000.001
resample0.0170.0000.018
resample_chart0.0030.0000.003
rsd_filter0.0150.0010.017
rsd_filter_hist0.0000.0000.001
run0.0390.0010.040
sb_corr0.0270.0010.028
scatter_chart0.6510.0060.665
split_data0.0090.0000.009
stratified_split0.1410.0020.144
svm_plot_2d0.9660.0190.994
tSNE0.0260.0010.028
tSNE_scatter0.0090.0010.010
tic_chart0.4110.0050.419
ttest0.0450.0040.049
vec_norm0.0020.0000.001
wilcox_p_hist0.0010.0000.001
wilcox_test0.0220.0010.022