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This page was generated on 2025-08-14 11:41 -0400 (Thu, 14 Aug 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4824
palomino7Windows Server 2022 Datacenterx644.5.1 (2025-06-13 ucrt) -- "Great Square Root" 4566
merida1macOS 12.7.5 Montereyx86_644.5.1 RC (2025-06-05 r88288) -- "Great Square Root" 4604
kjohnson1macOS 13.6.6 Venturaarm644.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" 4545
kunpeng2Linux (openEuler 24.03 LTS)aarch64R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" 4579
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 2122/2341HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
structToolbox 1.20.0  (landing page)
Gavin Rhys Lloyd
Snapshot Date: 2025-08-11 13:40 -0400 (Mon, 11 Aug 2025)
git_url: https://git.bioconductor.org/packages/structToolbox
git_branch: RELEASE_3_21
git_last_commit: 1668438
git_last_commit_date: 2025-04-15 11:54:06 -0400 (Tue, 15 Apr 2025)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino7Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 12.7.5 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.6 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
kunpeng2Linux (openEuler 24.03 LTS) / aarch64  OK    OK    OK  


CHECK results for structToolbox on nebbiolo1

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: 1.20.0
Command: /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --install=check:structToolbox.install-out.txt --library=/home/biocbuild/bbs-3.21-bioc/R/site-library --timings structToolbox_1.20.0.tar.gz
StartedAt: 2025-08-14 03:16:32 -0400 (Thu, 14 Aug 2025)
EndedAt: 2025-08-14 03:34:45 -0400 (Thu, 14 Aug 2025)
EllapsedTime: 1093.5 seconds
RetCode: 0
Status:   OK  
CheckDir: structToolbox.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --install=check:structToolbox.install-out.txt --library=/home/biocbuild/bbs-3.21-bioc/R/site-library --timings structToolbox_1.20.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.21-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 ‘1.20.0’
* 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           15.803  0.077  15.881
fold_change               10.482  0.061  10.544
fisher_exact               9.623  0.065   9.688
fs_line                    6.471  0.174   6.645
forward_selection_by_rank  5.769  0.049   5.817
* 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-3.21-bioc/R/bin/R CMD INSTALL structToolbox
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.21-bioc/R/site-library’
* installing *source* package ‘structToolbox’ ...
** this is package ‘structToolbox’ version ‘1.20.0’
** 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 
181.657   1.660 183.335 

Example timings

structToolbox.Rcheck/structToolbox-Ex.timings

nameusersystemelapsed
ANOVA0.2180.0040.223
AUC1.8840.1121.997
DFA0.1870.0010.188
DatasetExperiment_boxplot1.4800.0211.502
DatasetExperiment_dist1.1930.0261.220
DatasetExperiment_factor_boxplot0.2000.0000.201
DatasetExperiment_heatmap0.3880.0000.389
HCA0.0560.0000.057
HSD0.2620.0080.274
HSDEM0.3570.0020.359
MTBLS79_DatasetExperiment0.0010.0000.001
OPLSDA0.0090.0020.011
OPLSR0.0080.0000.008
PCA0.0060.0010.006
PLSDA0.0170.0010.018
PLSR0.0130.0010.015
SVM0.0240.0020.026
as_data_frame0.1220.0000.121
autoscale0.0660.0020.068
balanced_accuracy1.7290.0041.733
blank_filter0.3350.0090.344
blank_filter_hist0.0000.0000.001
bootstrap0.010.000.01
calculate0.0040.0020.005
chart_plot0.0310.0000.030
classical_lsq0.3520.0000.353
compare_dist4.2190.0484.267
confounders_clsq2.7860.0032.788
confounders_lsq_barchart2.8600.0232.883
confounders_lsq_boxplot2.8770.0282.904
constant_sum_norm0.0070.0000.007
corr_coef0.2670.0030.270
dfa_scores_plot0.7010.0050.709
dratio_filter0.2470.0000.248
equal_split0.1150.0010.118
feature_boxplot0.0260.0010.027
feature_profile0.3810.0020.384
feature_profile_array0.4690.0030.472
filter_by_name0.0300.0010.031
filter_na_count0.9570.0000.958
filter_smeta0.0590.0000.060
fisher_exact9.6230.0659.688
fold_change10.482 0.06110.544
fold_change_int15.803 0.07715.881
fold_change_plot0.0060.0010.007
forward_selection_by_rank5.7690.0495.817
fs_line6.4710.1746.645
glog_opt_plot0.4740.0000.474
glog_transform0.2920.0000.292
grid_search_1d3.3050.0113.316
gs_line0.0010.0000.001
hca_dendrogram0.0010.0000.001
kfold_xval3.1930.0023.195
kfoldxcv_grid3.4660.0083.475
kfoldxcv_metric0.0010.0000.001
knn_impute0.0220.0000.023
kw_p_hist0.0000.0000.001
kw_rank_sum0.0660.0010.067
linear_model0.0270.0000.027
log_transform0.0050.0010.006
mean_centre0.0020.0000.002
mean_of_medians0.1040.0010.105
mixed_effect0.1510.0000.150
model_apply0.0210.0020.023
model_predict0.0500.0020.051
model_reverse0.0230.0010.024
model_train0.0480.0020.049
mv_boxplot0.2740.0020.275
mv_feature_filter0.1030.0020.106
mv_feature_filter_hist0.0010.0000.001
mv_histogram0.2290.0000.229
mv_sample_filter0.0070.0000.008
mv_sample_filter_hist0.0010.0000.001
nroot_transform0.0060.0000.006
ontology_cache000
pairs_filter0.0070.0010.008
pareto_scale0.0520.0010.054
pca_biplot0.0130.0010.014
pca_correlation_plot0.0060.0000.006
pca_dstat_plot0.0080.0000.008
pca_loadings_plot0.0080.0000.009
pca_scores_plot0.4970.0010.498
pca_scree_plot0.0070.0000.006
permutation_test0.0090.0000.009
permutation_test_plot0.0020.0000.002
permute_sample_order0.0050.0000.006
pls_regcoeff_plot0.3130.0020.315
pls_scores_plot0.6570.0030.659
pls_vip_plot0.3730.0000.375
plsda_feature_importance_plot0.5820.0050.587
plsda_predicted_plot0.4090.0030.412
plsda_roc_plot1.0450.0011.048
plsr_cook_dist0.0060.0000.007
plsr_prediction_plot0.0060.0000.006
plsr_qq_plot0.0060.0000.005
plsr_residual_hist0.0050.0000.006
pqn_norm0.3100.0020.313
pqn_norm_hist0.0010.0000.001
prop_na0.0090.0000.010
r_squared0.0000.0010.001
resample0.0150.0000.014
resample_chart0.0030.0000.002
rsd_filter0.0100.0020.013
rsd_filter_hist0.0010.0000.001
run0.0260.0020.028
sb_corr0.0240.0020.025
scatter_chart0.3470.0000.346
split_data0.0060.0000.007
stratified_split0.1050.0000.106
svm_plot_2d0.6320.0060.638
tSNE0.0210.0010.022
tSNE_scatter0.0070.0000.006
tic_chart0.1860.0010.188
ttest0.0200.0000.021
vec_norm0.0010.0000.001
wilcox_p_hist0.0000.0000.001
wilcox_test0.0170.0000.017