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This page was generated on 2025-08-15 12:07 -0400 (Fri, 15 Aug 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4818
palomino8Windows Server 2022 Datacenterx644.5.1 (2025-06-13 ucrt) -- "Great Square Root" 4554
lconwaymacOS 12.7.1 Montereyx86_644.5.1 (2025-06-13) -- "Great Square Root" 4595
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" 4537
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4535
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 2103/2317HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
structToolbox 1.21.0  (landing page)
Gavin Rhys Lloyd
Snapshot Date: 2025-08-14 13:45 -0400 (Thu, 14 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
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 13.7.7 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 palomino8

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: F:\biocbuild\bbs-3.22-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:structToolbox.install-out.txt --library=F:\biocbuild\bbs-3.22-bioc\R\library --no-vignettes --timings structToolbox_1.21.0.tar.gz
StartedAt: 2025-08-15 08:31:17 -0400 (Fri, 15 Aug 2025)
EndedAt: 2025-08-15 08:41:31 -0400 (Fri, 15 Aug 2025)
EllapsedTime: 614.4 seconds
RetCode: 0
Status:   OK  
CheckDir: structToolbox.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   F:\biocbuild\bbs-3.22-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:structToolbox.install-out.txt --library=F:\biocbuild\bbs-3.22-bioc\R\library --no-vignettes --timings structToolbox_1.21.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'F:/biocbuild/bbs-3.22-bioc/meat/structToolbox.Rcheck'
* using R version 4.5.1 (2025-06-13 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 14.2.0
    GNU Fortran (GCC) 14.2.0
* running under: Windows Server 2022 x64 (build 20348)
* 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 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 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           18.03   0.21   18.24
fold_change               14.45   0.08   14.53
fisher_exact              12.64   0.15   12.81
fs_line                    8.20   0.20    8.41
forward_selection_by_rank  6.27   0.14    6.54
compare_dist               5.25   0.19    5.44
* 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:
###
###   F:\biocbuild\bbs-3.22-bioc\R\bin\R.exe CMD INSTALL structToolbox
###
##############################################################################
##############################################################################


* installing to library 'F:/biocbuild/bbs-3.22-bioc/R/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 ucrt) -- "Great Square Root"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64

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 
 233.76    4.35  240.07 

Example timings

structToolbox.Rcheck/structToolbox-Ex.timings

nameusersystemelapsed
ANOVA0.330.020.34
AUC2.730.042.78
DFA0.960.000.95
DatasetExperiment_boxplot0.920.040.97
DatasetExperiment_dist1.480.001.48
DatasetExperiment_factor_boxplot0.290.000.28
DatasetExperiment_heatmap0.350.030.39
HCA0.080.000.08
HSD0.420.030.55
HSDEM0.490.040.70
MTBLS79_DatasetExperiment000
OPLSDA0.010.000.02
OPLSR000
PCA0.020.000.01
PLSDA0.020.000.02
PLSR000
SVM0.030.000.03
as_data_frame0.140.000.14
autoscale0.090.000.10
balanced_accuracy2.810.022.82
blank_filter0.410.000.43
blank_filter_hist000
bootstrap000
calculate0.010.000.02
chart_plot0.050.000.04
classical_lsq0.30.00.3
compare_dist5.250.195.44
confounders_clsq3.350.083.44
confounders_lsq_barchart3.740.043.78
confounders_lsq_boxplot3.440.103.53
constant_sum_norm0.010.000.01
corr_coef0.350.010.36
dfa_scores_plot0.900.000.92
dratio_filter0.310.000.32
equal_split0.170.020.18
feature_boxplot0.030.000.04
feature_profile0.420.000.42
feature_profile_array0.560.010.58
filter_by_name0.070.000.06
filter_na_count1.200.131.33
filter_smeta0.050.000.05
fisher_exact12.64 0.1512.81
fold_change14.45 0.0814.53
fold_change_int18.03 0.2118.24
fold_change_plot000
forward_selection_by_rank6.270.146.54
fs_line8.200.208.41
glog_opt_plot0.450.020.47
glog_transform0.30.00.3
grid_search_1d4.340.124.46
gs_line000
hca_dendrogram000
kfold_xval3.950.054.02
kfoldxcv_grid4.670.044.73
kfoldxcv_metric000
knn_impute0.020.000.02
kw_p_hist000
kw_rank_sum0.120.000.12
linear_model0.050.000.05
log_transform000
mean_centre0.020.000.01
mean_of_medians0.150.020.18
mixed_effect0.240.000.25
model_apply0.040.000.04
model_predict0.080.000.08
model_reverse0.050.000.05
model_train0.060.000.06
mv_boxplot0.440.000.44
mv_feature_filter0.090.020.11
mv_feature_filter_hist000
mv_histogram0.330.020.35
mv_sample_filter0.020.000.01
mv_sample_filter_hist000
nroot_transform000
ontology_cache000
pairs_filter0.020.000.01
pareto_scale0.090.000.10
pca_biplot0.030.000.03
pca_correlation_plot0.020.000.01
pca_dstat_plot0.010.000.02
pca_loadings_plot0.020.000.01
pca_scores_plot0.700.000.72
pca_scree_plot000
permutation_test0.020.000.02
permutation_test_plot000
permute_sample_order0.010.000.01
pls_regcoeff_plot0.40.00.4
pls_scores_plot0.820.010.84
pls_vip_plot0.460.000.45
plsda_feature_importance_plot0.650.000.66
plsda_predicted_plot0.380.030.41
plsda_roc_plot1.090.031.13
plsr_cook_dist0.020.000.01
plsr_prediction_plot000
plsr_qq_plot0.010.000.02
plsr_residual_hist000
pqn_norm0.440.000.43
pqn_norm_hist000
prop_na0.020.000.02
r_squared000
resample0.030.000.03
resample_chart000
rsd_filter0.010.000.01
rsd_filter_hist000
run0.030.000.03
sb_corr0.040.000.03
scatter_chart0.480.000.49
split_data0.020.000.01
stratified_split0.150.000.16
svm_plot_2d0.910.011.08
tSNE0.020.000.02
tSNE_scatter0.010.000.02
tic_chart0.290.000.28
ttest0.030.000.03
vec_norm000
wilcox_p_hist000
wilcox_test0.010.000.02