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This page was generated on 2025-08-30 12:05 -0400 (Sat, 30 Aug 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4824
lconwaymacOS 12.7.1 Montereyx86_644.5.1 (2025-06-13) -- "Great Square Root" 4615
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" 4562
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4541
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 2106/2320HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
structToolbox 1.21.0  (landing page)
Gavin Rhys Lloyd
Snapshot Date: 2025-08-29 13:45 -0400 (Fri, 29 Aug 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 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: 2025-08-30 03:39:23 -0400 (Sat, 30 Aug 2025)
EndedAt: 2025-08-30 03:57:29 -0400 (Sat, 30 Aug 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 24.04.3 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           15.369  0.010  15.378
fold_change               10.267  0.100  10.367
fisher_exact               9.831  0.031   9.862
fs_line                    6.129  0.017   6.146
forward_selection_by_rank  5.781  0.071   5.852
* 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 
179.544   1.553 180.853 

Example timings

structToolbox.Rcheck/structToolbox-Ex.timings

nameusersystemelapsed
ANOVA0.2190.0020.221
AUC2.7450.1082.853
DFA0.2070.0010.208
DatasetExperiment_boxplot0.8100.0290.838
DatasetExperiment_dist1.4650.0991.565
DatasetExperiment_factor_boxplot0.2260.0010.227
DatasetExperiment_heatmap0.3780.0030.381
HCA0.0580.0000.059
HSD0.2750.0060.286
HSDEM0.3010.0030.304
MTBLS79_DatasetExperiment0.0010.0000.001
OPLSDA0.0100.0000.011
OPLSR0.0080.0000.007
PCA0.0030.0000.004
PLSDA0.0110.0000.011
PLSR0.0100.0000.009
SVM0.020.000.02
as_data_frame0.1230.0000.124
autoscale0.0740.0020.075
balanced_accuracy2.7090.0652.776
blank_filter0.3310.0050.338
blank_filter_hist0.0010.0000.000
bootstrap0.0090.0000.009
calculate0.0040.0000.005
chart_plot0.0280.0000.029
classical_lsq0.3020.0000.302
compare_dist4.6540.0444.699
confounders_clsq3.1500.0243.035
confounders_lsq_barchart3.4300.0343.266
confounders_lsq_boxplot3.3240.0613.189
constant_sum_norm0.0070.0010.007
corr_coef0.2710.0000.272
dfa_scores_plot0.7370.0020.739
dratio_filter0.2490.0000.249
equal_split0.140.000.14
feature_boxplot0.0240.0040.028
feature_profile0.3530.0050.358
feature_profile_array0.4500.0100.459
filter_by_name0.0320.0010.032
filter_na_count0.9170.0230.941
filter_smeta0.0560.0000.057
fisher_exact9.8310.0319.862
fold_change10.267 0.10010.367
fold_change_int15.369 0.01015.378
fold_change_plot0.0070.0000.006
forward_selection_by_rank5.7810.0715.852
fs_line6.1290.0176.146
glog_opt_plot0.4380.0020.439
glog_transform0.2840.0000.284
grid_search_1d3.4130.0213.435
gs_line0.0010.0010.001
hca_dendrogram0.0010.0000.001
kfold_xval3.3730.0073.380
kfoldxcv_grid3.6900.0053.696
kfoldxcv_metric0.0010.0000.001
knn_impute0.0120.0000.012
kw_p_hist0.0010.0000.001
kw_rank_sum0.0770.0000.077
linear_model0.0290.0000.029
log_transform0.0060.0000.007
mean_centre0.0020.0000.003
mean_of_medians0.1090.0000.109
mixed_effect0.160.000.16
model_apply0.0230.0000.024
model_predict0.0560.0000.057
model_reverse0.0260.0000.026
model_train0.0510.0000.052
mv_boxplot0.2910.0000.292
mv_feature_filter0.1110.0000.112
mv_feature_filter_hist0.0010.0000.001
mv_histogram0.2290.0000.229
mv_sample_filter0.0070.0000.009
mv_sample_filter_hist0.0010.0000.000
nroot_transform0.0050.0000.006
ontology_cache000
pairs_filter0.0090.0000.009
pareto_scale0.0570.0000.058
pca_biplot0.0140.0000.015
pca_correlation_plot0.0060.0000.006
pca_dstat_plot0.0090.0000.008
pca_loadings_plot0.0090.0000.008
pca_scores_plot0.5400.0040.543
pca_scree_plot0.0060.0000.008
permutation_test0.0090.0000.010
permutation_test_plot0.0020.0000.003
permute_sample_order0.0070.0010.007
pls_regcoeff_plot0.3250.0070.331
pls_scores_plot0.6970.0080.704
pls_vip_plot0.3470.0020.349
plsda_feature_importance_plot0.5810.0000.582
plsda_predicted_plot0.4150.0020.417
plsda_roc_plot1.9100.0771.988
plsr_cook_dist0.0060.0000.007
plsr_prediction_plot0.0060.0000.007
plsr_qq_plot0.0060.0000.006
plsr_residual_hist0.0050.0000.006
pqn_norm0.3340.0000.335
pqn_norm_hist0.0010.0000.001
prop_na0.0090.0000.009
r_squared0.0010.0000.001
resample0.0140.0010.014
resample_chart0.0020.0010.002
rsd_filter0.0140.0000.013
rsd_filter_hist0.0010.0000.001
run0.0280.0000.028
sb_corr0.0240.0010.025
scatter_chart0.330.000.33
split_data0.0070.0000.006
stratified_split0.1090.0000.109
svm_plot_2d0.6160.0010.618
tSNE0.0240.0000.024
tSNE_scatter0.0060.0000.007
tic_chart0.1890.0000.189
ttest0.020.000.02
vec_norm0.0010.0000.001
wilcox_p_hist0.0010.0000.001
wilcox_test0.0170.0000.017