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This page was generated on 2025-09-02 12:04 -0400 (Tue, 02 Sep 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: 2025-09-01 13:45 -0400 (Mon, 01 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    NA    NA  
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 taishan

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.
- See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host.

raw results


Summary

Package: structToolbox
Version: 1.21.0
Command: /home/biocbuild/R/R/bin/R CMD check --install=check:structToolbox.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings structToolbox_1.21.0.tar.gz
StartedAt: 2025-09-02 12:05:59 -0000 (Tue, 02 Sep 2025)
EndedAt: 2025-09-02 12:18:09 -0000 (Tue, 02 Sep 2025)
EllapsedTime: 730.7 seconds
RetCode: 0
Status:   OK  
CheckDir: structToolbox.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD check --install=check:structToolbox.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings structToolbox_1.21.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/structToolbox.Rcheck’
* using R version 4.5.0 (2025-04-11)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
    aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0
    GNU Fortran (GCC) 14.2.0
* running under: openEuler 24.03 (LTS)
* 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 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           24.366  0.046  24.850
fold_change               17.795  0.092  18.221
fisher_exact              14.451  0.104  16.499
fs_line                    8.971  0.012   9.010
forward_selection_by_rank  8.731  0.124   8.886
kfoldxcv_grid              5.539  0.001   5.557
compare_dist               5.283  0.117   6.425
grid_search_1d             5.132  0.012   5.160
kfold_xval                 5.008  0.008   5.033
confounders_lsq_barchart   4.556  0.024   7.239
confounders_lsq_boxplot    4.522  0.004   5.630
confounders_clsq           4.212  0.037   5.255
* 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:
###
###   /home/biocbuild/R/R/bin/R CMD INSTALL structToolbox
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/R/R-4.5.0/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 4.5.0 (2025-04-11) -- "How About a Twenty-Six"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-unknown-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 
257.350   1.913 260.268 

Example timings

structToolbox.Rcheck/structToolbox-Ex.timings

nameusersystemelapsed
ANOVA0.3010.0110.339
AUC3.4340.1844.300
DFA0.2930.0000.590
DatasetExperiment_boxplot0.9580.0131.947
DatasetExperiment_dist1.3850.0842.464
DatasetExperiment_factor_boxplot0.2950.0000.321
DatasetExperiment_heatmap0.5220.0000.542
HCA0.0800.0000.082
HSD0.3870.0070.568
HSDEM0.3690.0000.370
MTBLS79_DatasetExperiment0.0010.0000.001
OPLSDA0.0150.0000.015
OPLSR0.0120.0000.011
PCA0.0060.0000.006
PLSDA0.0160.0000.016
PLSR0.0140.0000.014
SVM0.0260.0040.030
as_data_frame0.1640.0000.164
autoscale0.0960.0040.100
balanced_accuracy3.2250.0363.640
blank_filter0.4850.0190.556
blank_filter_hist0.0010.0000.001
bootstrap0.0120.0040.018
calculate0.0070.0000.007
chart_plot0.0380.0000.042
classical_lsq0.4080.0040.424
compare_dist5.2830.1176.425
confounders_clsq4.2120.0375.255
confounders_lsq_barchart4.5560.0247.239
confounders_lsq_boxplot4.5220.0045.630
constant_sum_norm0.0110.0000.017
corr_coef0.3830.0000.384
dfa_scores_plot1.0160.0121.034
dratio_filter0.4270.0120.440
equal_split0.1910.0120.404
feature_boxplot0.0390.0000.079
feature_profile0.5330.0081.084
feature_profile_array0.6560.0000.978
filter_by_name0.0390.0030.044
filter_na_count1.4700.0402.541
filter_smeta0.0820.0000.087
fisher_exact14.451 0.10416.499
fold_change17.795 0.09218.221
fold_change_int24.366 0.04624.850
fold_change_plot0.010.000.01
forward_selection_by_rank8.7310.1248.886
fs_line8.9710.0129.010
glog_opt_plot0.6980.0000.700
glog_transform0.4380.0000.441
grid_search_1d5.1320.0125.160
gs_line0.0010.0000.001
hca_dendrogram0.0010.0000.001
kfold_xval5.0080.0085.033
kfoldxcv_grid5.5390.0015.557
kfoldxcv_metric0.0000.0000.001
knn_impute0.0180.0000.018
kw_p_hist0.0010.0000.001
kw_rank_sum0.1060.0000.106
linear_model0.0420.0000.042
log_transform0.0090.0000.010
mean_centre0.0040.0000.005
mean_of_medians0.1660.0000.167
mixed_effect0.2370.0000.240
model_apply0.0370.0000.037
model_predict0.0840.0000.084
model_reverse0.0390.0000.038
model_train0.0770.0000.076
mv_boxplot0.4120.0000.414
mv_feature_filter0.1530.0000.153
mv_feature_filter_hist0.0010.0000.001
mv_histogram0.3370.0000.337
mv_sample_filter0.0080.0040.012
mv_sample_filter_hist0.0010.0000.001
nroot_transform0.0090.0000.009
ontology_cache000
pairs_filter0.0130.0000.013
pareto_scale0.0820.0000.082
pca_biplot0.0220.0000.022
pca_correlation_plot0.0090.0000.010
pca_dstat_plot0.0090.0040.013
pca_loadings_plot0.0140.0000.013
pca_scores_plot0.7670.0000.769
pca_scree_plot0.0090.0000.009
permutation_test0.0140.0000.014
permutation_test_plot0.0040.0000.004
permute_sample_order0.010.000.01
pls_regcoeff_plot0.4880.0000.490
pls_scores_plot1.0260.0001.030
pls_vip_plot0.5240.0040.529
plsda_feature_importance_plot0.8860.0160.906
plsda_predicted_plot0.6540.0080.665
plsda_roc_plot1.7180.0041.727
plsr_cook_dist0.0100.0000.009
plsr_prediction_plot0.0090.0000.010
plsr_qq_plot0.010.000.01
plsr_residual_hist0.0100.0000.009
pqn_norm0.5370.0000.538
pqn_norm_hist0.0010.0000.000
prop_na0.0140.0000.014
r_squared0.0000.0000.001
resample0.0220.0000.023
resample_chart0.0040.0000.004
rsd_filter0.020.000.02
rsd_filter_hist0.0010.0000.001
run0.0430.0000.042
sb_corr0.0380.0000.037
scatter_chart0.5030.0000.504
split_data0.010.000.01
stratified_split0.1710.0000.172
svm_plot_2d1.6010.0671.682
tSNE0.0340.0000.034
tSNE_scatter0.0110.0000.010
tic_chart0.2850.0000.285
ttest0.0290.0000.029
vec_norm0.0010.0000.001
wilcox_p_hist0.0010.0000.001
wilcox_test0.0240.0000.024