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This page was generated on 2025-10-16 11:38 -0400 (Thu, 16 Oct 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4833
merida1macOS 12.7.6 Montereyx86_644.5.1 RC (2025-06-05 r88288) -- "Great Square Root" 4614
kjohnson1macOS 13.7.5 Venturaarm644.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" 4555
kunpeng2Linux (openEuler 24.03 LTS)aarch64R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" 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 2122/2341HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
structToolbox 1.20.0  (landing page)
Gavin Rhys Lloyd
Snapshot Date: 2025-10-13 13:40 -0400 (Mon, 13 Oct 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
merida1macOS 12.7.6 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.7.5 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: 2025-10-16 04:09:55 -0400 (Thu, 16 Oct 2025)
EndedAt: 2025-10-16 04:28:37 -0400 (Thu, 16 Oct 2025)
EllapsedTime: 1122.5 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           16.314  0.112  16.426
fold_change               10.741  0.090  10.831
fisher_exact               9.926  0.022   9.948
fs_line                    6.170  0.014   6.184
forward_selection_by_rank  5.839  0.074   5.914
* 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 
185.134   2.024 187.187 

Example timings

structToolbox.Rcheck/structToolbox-Ex.timings

nameusersystemelapsed
ANOVA0.2030.0030.206
AUC1.9450.0912.035
DFA0.1920.0010.192
DatasetExperiment_boxplot1.8390.0171.855
DatasetExperiment_dist1.3130.0411.355
DatasetExperiment_factor_boxplot0.3340.0000.335
DatasetExperiment_heatmap0.5510.0010.553
HCA0.0570.0000.057
HSD0.2730.0030.281
HSDEM0.2580.0030.261
MTBLS79_DatasetExperiment0.0010.0000.001
OPLSDA0.0110.0000.011
OPLSR0.0080.0000.007
PCA0.0040.0000.004
PLSDA0.0120.0000.012
PLSR0.0090.0010.010
SVM0.0200.0000.021
as_data_frame0.1210.0000.121
autoscale0.0710.0000.072
balanced_accuracy1.7240.0041.728
blank_filter0.3440.0050.349
blank_filter_hist0.0010.0000.001
bootstrap0.0120.0000.012
calculate0.0060.0000.006
chart_plot0.0310.0000.030
classical_lsq0.3070.0030.309
compare_dist4.2790.0314.309
confounders_clsq2.9000.0272.927
confounders_lsq_barchart3.1890.0113.200
confounders_lsq_boxplot3.0750.0273.101
constant_sum_norm0.0080.0000.008
corr_coef0.270.000.27
dfa_scores_plot0.9320.0070.939
dratio_filter0.3120.0020.314
equal_split0.1090.0010.111
feature_boxplot0.0250.0000.025
feature_profile0.5150.0000.515
feature_profile_array0.7170.0040.721
filter_by_name0.0310.0020.033
filter_na_count0.9980.0081.008
filter_smeta0.0590.0000.059
fisher_exact9.9260.0229.948
fold_change10.741 0.09010.831
fold_change_int16.314 0.11216.426
fold_change_plot0.0070.0000.007
forward_selection_by_rank5.8390.0745.914
fs_line6.1700.0146.184
glog_opt_plot0.5230.0050.529
glog_transform0.2710.0000.272
grid_search_1d3.3560.0063.363
gs_line0.0000.0000.001
hca_dendrogram0.0010.0000.000
kfold_xval3.360.013.37
kfoldxcv_grid3.9060.0113.917
kfoldxcv_metric0.0010.0000.001
knn_impute0.0110.0010.012
kw_p_hist0.0010.0000.001
kw_rank_sum0.0710.0000.071
linear_model0.0270.0010.028
log_transform0.0070.0000.006
mean_centre0.0020.0000.002
mean_of_medians0.1220.0000.122
mixed_effect0.1530.0010.154
model_apply0.0220.0010.023
model_predict0.0510.0000.051
model_reverse0.0230.0010.023
model_train0.0460.0010.047
mv_boxplot0.4100.0000.411
mv_feature_filter0.1010.0010.103
mv_feature_filter_hist0.0000.0010.001
mv_histogram0.3330.0010.333
mv_sample_filter0.0080.0010.010
mv_sample_filter_hist0.0010.0000.000
nroot_transform0.0060.0010.007
ontology_cache0.0010.0000.001
pairs_filter0.0080.0000.009
pareto_scale0.0660.0000.067
pca_biplot0.0130.0000.014
pca_correlation_plot0.0060.0000.006
pca_dstat_plot0.0090.0000.009
pca_loadings_plot0.0080.0000.009
pca_scores_plot0.6840.0000.684
pca_scree_plot0.0070.0000.007
permutation_test0.010.000.01
permutation_test_plot0.0020.0000.003
permute_sample_order0.0050.0010.006
pls_regcoeff_plot0.4770.0020.480
pls_scores_plot0.8130.0030.816
pls_vip_plot0.4760.0020.478
plsda_feature_importance_plot0.8330.0020.835
plsda_predicted_plot0.5640.0030.567
plsda_roc_plot1.2480.0011.249
plsr_cook_dist0.0070.0000.007
plsr_prediction_plot0.0050.0000.007
plsr_qq_plot0.0060.0000.007
plsr_residual_hist0.0060.0000.007
pqn_norm0.3440.0000.345
pqn_norm_hist0.0010.0000.001
prop_na0.0090.0000.009
r_squared0.0010.0000.001
resample0.0150.0000.014
resample_chart0.0020.0010.003
rsd_filter0.0130.0000.013
rsd_filter_hist0.0000.0000.001
run0.0320.0000.032
sb_corr0.0240.0010.026
scatter_chart0.5410.0030.544
split_data0.0060.0010.006
stratified_split0.1070.0010.109
svm_plot_2d0.7640.0030.767
tSNE0.0220.0000.023
tSNE_scatter0.0070.0000.007
tic_chart0.3300.0010.330
ttest0.0210.0000.021
vec_norm0.0010.0000.001
wilcox_p_hist0.0000.0000.001
wilcox_test0.0160.0000.016