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This page was generated on 2025-10-11 12:05 -0400 (Sat, 11 Oct 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4864
lconwaymacOS 12.7.1 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4652
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4597
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4586
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 2131/2346HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
structToolbox 1.21.0  (landing page)
Gavin Rhys Lloyd
Snapshot Date: 2025-10-10 13:45 -0400 (Fri, 10 Oct 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  NO, package depends on 'struct' which is not available
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  NO, package depends on 'struct' which is not available
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  NO, package depends on 'struct' which is not available
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: 2025-10-11 01:28:55 -0400 (Sat, 11 Oct 2025)
EndedAt: 2025-10-11 01:38:30 -0400 (Sat, 11 Oct 2025)
EllapsedTime: 575.7 seconds
RetCode: 0
Status:   OK  
CheckDir: structToolbox.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### 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           15.933  0.106  16.154
fold_change               14.102  0.115  14.403
fisher_exact              12.394  0.080  12.554
fs_line                    7.071  0.208   7.357
forward_selection_by_rank  7.011  0.185   7.270
compare_dist               4.929  0.288   5.272
* 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 
225.243   2.784 230.715 

Example timings

structToolbox.Rcheck/structToolbox-Ex.timings

nameusersystemelapsed
ANOVA0.2330.0100.245
AUC2.5860.1312.738
DFA0.2460.0030.250
DatasetExperiment_boxplot1.0360.0381.081
DatasetExperiment_dist2.2340.1072.365
DatasetExperiment_factor_boxplot0.3870.0050.394
DatasetExperiment_heatmap0.6800.0390.724
HCA0.0680.0010.069
HSD0.3330.0150.364
HSDEM0.4260.0280.460
MTBLS79_DatasetExperiment0.0010.0010.002
OPLSDA0.0150.0000.016
OPLSR0.0120.0000.012
PCA0.0060.0000.006
PLSDA0.0140.0010.015
PLSR0.0130.0000.014
SVM0.0290.0010.030
as_data_frame0.2040.0040.210
autoscale0.0880.0010.089
balanced_accuracy2.0430.0212.077
blank_filter0.3830.0220.407
blank_filter_hist0.0000.0000.001
bootstrap0.0090.0000.009
calculate0.0070.0010.007
chart_plot0.0300.0010.031
classical_lsq0.3360.0020.340
compare_dist4.9290.2885.272
confounders_clsq3.4620.0273.505
confounders_lsq_barchart3.6050.0273.648
confounders_lsq_boxplot3.6250.0313.679
constant_sum_norm0.0090.0000.010
corr_coef0.2860.0020.290
dfa_scores_plot1.1120.0091.128
dratio_filter0.2700.0090.279
equal_split0.1290.0010.131
feature_boxplot0.0320.0000.031
feature_profile0.6020.0120.618
feature_profile_array0.7430.0050.752
filter_by_name0.0320.0000.032
filter_na_count1.1270.0521.187
filter_smeta0.0720.0000.072
fisher_exact12.394 0.08012.554
fold_change14.102 0.11514.403
fold_change_int15.933 0.10616.154
fold_change_plot0.0060.0010.007
forward_selection_by_rank7.0110.1857.270
fs_line7.0710.2087.357
glog_opt_plot0.6110.0060.620
glog_transform0.3260.0020.331
grid_search_1d3.7620.1734.023
gs_line0.0010.0000.002
hca_dendrogram0.0010.0000.001
kfold_xval3.9160.0363.977
kfoldxcv_grid4.4740.0634.571
kfoldxcv_metric0.0010.0000.001
knn_impute0.0140.0010.015
kw_p_hist0.0010.0000.001
kw_rank_sum0.0760.0010.077
linear_model0.0270.0010.028
log_transform0.0070.0000.007
mean_centre0.0040.0000.005
mean_of_medians0.1370.0010.140
mixed_effect0.1960.0020.199
model_apply0.0290.0010.030
model_predict0.0600.0000.061
model_reverse0.0260.0000.026
model_train0.0580.0010.059
mv_boxplot0.5130.0210.540
mv_feature_filter0.1250.0020.127
mv_feature_filter_hist0.0010.0000.002
mv_histogram0.4100.0040.417
mv_sample_filter0.0100.0010.011
mv_sample_filter_hist0.0010.0000.001
nroot_transform0.0090.0000.010
ontology_cache000
pairs_filter0.0090.0000.009
pareto_scale0.0680.0010.069
pca_biplot0.0180.0010.019
pca_correlation_plot0.0080.0010.008
pca_dstat_plot0.0110.0000.011
pca_loadings_plot0.0090.0000.009
pca_scores_plot0.8110.0110.826
pca_scree_plot0.0070.0010.008
permutation_test0.0100.0010.010
permutation_test_plot0.0040.0000.004
permute_sample_order0.0090.0000.010
pls_regcoeff_plot0.5600.0070.572
pls_scores_plot0.9770.0070.988
pls_vip_plot0.5360.0050.542
plsda_feature_importance_plot1.0030.0121.019
plsda_predicted_plot0.6910.0080.703
plsda_roc_plot1.4080.0121.427
plsr_cook_dist0.0070.0000.008
plsr_prediction_plot0.0080.0010.008
plsr_qq_plot0.0060.0000.007
plsr_residual_hist0.0050.0000.005
pqn_norm0.3770.0030.381
pqn_norm_hist0.0000.0000.001
prop_na0.0100.0000.011
r_squared0.0010.0000.001
resample0.0170.0000.018
resample_chart0.0020.0000.002
rsd_filter0.0130.0010.014
rsd_filter_hist0.0010.0010.001
run0.0360.0010.038
sb_corr0.0280.0010.029
scatter_chart0.5930.0050.599
split_data0.0060.0000.007
stratified_split0.1310.0020.134
svm_plot_2d0.8740.0170.894
tSNE0.0260.0010.028
tSNE_scatter0.0090.0000.010
tic_chart0.4230.0100.436
ttest0.0260.0010.027
vec_norm0.0010.0000.002
wilcox_p_hist0.0010.0000.001
wilcox_test0.0230.0000.024