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This page was generated on 2025-07-19 12:05 -0400 (Sat, 19 Jul 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.2 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4791
palomino8Windows Server 2022 Datacenterx644.5.1 (2025-06-13 ucrt) -- "Great Square Root" 4529
lconwaymacOS 12.7.1 Montereyx86_644.5.1 (2025-06-13) -- "Great Square Root" 4572
kjohnson3macOS 13.7.1 Venturaarm644.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" 4513
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4510
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 2097/2311HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
structToolbox 1.21.0  (landing page)
Gavin Rhys Lloyd
Snapshot Date: 2025-07-18 13:25 -0400 (Fri, 18 Jul 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 24.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino8Windows 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
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    OK    OK  


CHECK results for structToolbox on nebbiolo2

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: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:structToolbox.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings structToolbox_1.21.0.tar.gz
StartedAt: 2025-07-19 03:07:01 -0400 (Sat, 19 Jul 2025)
EndedAt: 2025-07-19 03:25:07 -0400 (Sat, 19 Jul 2025)
EllapsedTime: 1086.2 seconds
RetCode: 0
Status:   OK  
CheckDir: structToolbox.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:structToolbox.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings structToolbox_1.21.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/structToolbox.Rcheck’
* using R version 4.5.1 (2025-06-13)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
    GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.2 LTS
* using session charset: UTF-8
* 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 loading without being on the library search path ... 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           15.376  0.059  15.435
fold_change               10.301  0.102  10.403
fisher_exact               9.644  0.115   9.759
forward_selection_by_rank  6.358  0.116   6.475
fs_line                    5.885  0.009   5.894
* 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 re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: OK


Installation output

structToolbox.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD INSTALL structToolbox
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.22-bioc/R/site-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 (2025-06-13) -- "Great Square Root"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu

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 
176.522   1.434 177.954 

Example timings

structToolbox.Rcheck/structToolbox-Ex.timings

nameusersystemelapsed
ANOVA0.2200.0020.222
AUC2.5520.1182.671
DFA0.1870.0000.188
DatasetExperiment_boxplot0.7600.0230.783
DatasetExperiment_dist1.1640.0531.217
DatasetExperiment_factor_boxplot0.2070.0060.213
DatasetExperiment_heatmap0.3540.0080.362
HCA0.0570.0030.060
HSD0.2690.0020.274
HSDEM0.3390.0060.345
MTBLS79_DatasetExperiment0.0010.0000.001
OPLSDA0.010.000.01
OPLSR0.0070.0000.008
PCA0.0040.0000.004
PLSDA0.0110.0000.011
PLSR0.0090.0000.009
SVM0.0180.0010.019
as_data_frame0.1170.0000.117
autoscale0.0640.0000.065
balanced_accuracy2.3510.0872.439
blank_filter0.3060.0010.308
blank_filter_hist0.0010.0000.001
bootstrap0.0090.0000.009
calculate0.0040.0000.004
chart_plot0.0250.0000.026
classical_lsq0.2790.0000.280
compare_dist3.4730.0523.525
confounders_clsq2.8240.0032.826
confounders_lsq_barchart2.9330.0042.936
confounders_lsq_boxplot2.7950.0282.822
constant_sum_norm0.0080.0000.008
corr_coef0.2500.0010.251
dfa_scores_plot0.7000.0090.710
dratio_filter0.2520.0020.253
equal_split0.1240.0020.126
feature_boxplot0.0270.0000.026
feature_profile0.3420.0060.348
feature_profile_array0.4480.0050.454
filter_by_name0.030.000.03
filter_na_count0.9150.0030.919
filter_smeta0.0570.0000.057
fisher_exact9.6440.1159.759
fold_change10.301 0.10210.403
fold_change_int15.376 0.05915.435
fold_change_plot0.0070.0000.007
forward_selection_by_rank6.3580.1166.475
fs_line5.8850.0095.894
glog_opt_plot0.4610.0020.463
glog_transform0.2730.0010.274
grid_search_1d3.3430.0113.354
gs_line0.0010.0000.000
hca_dendrogram000
kfold_xval3.3280.0063.333
kfoldxcv_grid3.6780.0163.693
kfoldxcv_metric0.0010.0010.001
knn_impute0.0130.0000.013
kw_p_hist0.0010.0000.001
kw_rank_sum0.0730.0050.078
linear_model0.0410.0050.047
log_transform0.0060.0000.007
mean_centre0.0010.0010.003
mean_of_medians0.1090.0000.110
mixed_effect0.1580.0010.160
model_apply0.0220.0010.024
model_predict0.0550.0000.055
model_reverse0.0260.0000.025
model_train0.0520.0000.051
mv_boxplot0.2740.0010.274
mv_feature_filter0.1130.0000.113
mv_feature_filter_hist0.0010.0000.001
mv_histogram0.2650.0000.265
mv_sample_filter0.0090.0000.009
mv_sample_filter_hist0.0010.0000.000
nroot_transform0.0070.0000.006
ontology_cache0.0000.0000.001
pairs_filter0.0080.0000.009
pareto_scale0.0530.0000.053
pca_biplot0.0140.0000.014
pca_correlation_plot0.0060.0000.006
pca_dstat_plot0.0080.0000.009
pca_loadings_plot0.0080.0000.009
pca_scores_plot0.5040.0020.507
pca_scree_plot0.0080.0000.008
permutation_test0.010.000.01
permutation_test_plot0.0030.0000.003
permute_sample_order0.0070.0000.008
pls_regcoeff_plot0.3460.0010.348
pls_scores_plot0.6520.0020.655
pls_vip_plot0.3590.0000.359
plsda_feature_importance_plot0.5870.0010.588
plsda_predicted_plot0.4400.0000.441
plsda_roc_plot1.0910.0031.095
plsr_cook_dist0.0060.0000.006
plsr_prediction_plot0.0060.0000.006
plsr_qq_plot0.0050.0000.005
plsr_residual_hist0.0060.0000.005
pqn_norm0.3200.0010.321
pqn_norm_hist0.0010.0000.001
prop_na0.0090.0010.010
r_squared0.0010.0000.001
resample0.0150.0000.015
resample_chart0.0030.0000.003
rsd_filter0.0130.0000.013
rsd_filter_hist000
run0.0310.0090.040
sb_corr0.0240.0040.028
scatter_chart0.3510.0040.355
split_data0.0070.0000.007
stratified_split0.1120.0030.116
svm_plot_2d0.6210.0120.633
tSNE0.0230.0000.023
tSNE_scatter0.0070.0000.007
tic_chart0.2040.0000.204
ttest0.020.000.02
vec_norm0.0010.0000.001
wilcox_p_hist000
wilcox_test0.0150.0000.015