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This page was generated on 2025-08-18 11:42 -0400 (Mon, 18 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: 2025-08-14 13:40 -0400 (Thu, 14 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    NA  


CHECK results for structToolbox on palomino7

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: E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:structToolbox.install-out.txt --library=E:\biocbuild\bbs-3.21-bioc\R\library --no-vignettes --timings structToolbox_1.20.0.tar.gz
StartedAt: 2025-08-15 07:33:36 -0400 (Fri, 15 Aug 2025)
EndedAt: 2025-08-15 07:43:55 -0400 (Fri, 15 Aug 2025)
EllapsedTime: 619.2 seconds
RetCode: 0
Status:   OK  
CheckDir: structToolbox.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:structToolbox.install-out.txt --library=E:\biocbuild\bbs-3.21-bioc\R\library --no-vignettes --timings structToolbox_1.20.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'E:/biocbuild/bbs-3.21-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 '1.20.0'
* 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 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           19.58   0.11   19.71
fold_change               13.31   0.03   13.34
fisher_exact              12.85   0.03   12.87
forward_selection_by_rank  7.92   0.26    8.24
fs_line                    7.77   0.14    7.90
grid_search_1d             5.05   0.13    5.18
* 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:
###
###   E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL structToolbox
###
##############################################################################
##############################################################################


* installing to library 'E:/biocbuild/bbs-3.21-bioc/R/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 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 
 232.93    3.90  237.28 

Example timings

structToolbox.Rcheck/structToolbox-Ex.timings

nameusersystemelapsed
ANOVA0.280.030.31
AUC2.800.132.92
DFA0.280.000.28
DatasetExperiment_boxplot1.780.041.83
DatasetExperiment_dist1.480.071.54
DatasetExperiment_factor_boxplot0.330.000.33
DatasetExperiment_heatmap0.500.010.52
HCA0.100.020.11
HSD0.390.020.58
HSDEM0.570.050.74
MTBLS79_DatasetExperiment000
OPLSDA0.020.000.01
OPLSR000
PCA0.020.000.01
PLSDA0.010.000.02
PLSR0.020.000.01
SVM0.030.000.04
as_data_frame0.190.000.18
autoscale0.130.000.12
balanced_accuracy2.200.002.21
blank_filter0.440.020.48
blank_filter_hist000
bootstrap0.010.000.02
calculate0.020.000.01
chart_plot0.040.000.05
classical_lsq0.410.000.41
compare_dist4.530.084.61
confounders_clsq3.450.063.52
confounders_lsq_barchart4.090.014.11
confounders_lsq_boxplot3.490.053.53
constant_sum_norm0.010.000.01
corr_coef0.380.000.38
dfa_scores_plot0.830.000.83
dratio_filter0.290.030.32
equal_split0.180.000.18
feature_boxplot0.040.000.04
feature_profile0.520.000.52
feature_profile_array1.300.021.31
filter_by_name0.030.000.03
filter_na_count1.140.111.25
filter_smeta0.080.000.08
fisher_exact12.85 0.0312.87
fold_change13.31 0.0313.34
fold_change_int19.58 0.1119.71
fold_change_plot0.010.000.01
forward_selection_by_rank7.920.268.24
fs_line7.770.147.90
glog_opt_plot0.610.000.61
glog_transform0.400.020.42
grid_search_1d5.050.135.18
gs_line000
hca_dendrogram000
kfold_xval4.300.044.34
kfoldxcv_grid4.780.064.91
kfoldxcv_metric0.020.000.01
knn_impute000
kw_p_hist000
kw_rank_sum0.090.000.09
linear_model0.030.000.03
log_transform0.020.000.02
mean_centre0.010.000.01
mean_of_medians0.140.000.14
mixed_effect0.220.000.22
model_apply0.030.000.03
model_predict0.080.000.08
model_reverse0.050.000.05
model_train0.080.000.08
mv_boxplot0.320.000.33
mv_feature_filter0.140.000.14
mv_feature_filter_hist000
mv_histogram0.250.030.28
mv_sample_filter000
mv_sample_filter_hist000
nroot_transform0.020.000.02
ontology_cache000
pairs_filter0.010.000.01
pareto_scale0.060.000.07
pca_biplot0.020.000.01
pca_correlation_plot0.010.000.02
pca_dstat_plot0.020.000.01
pca_loadings_plot000
pca_scores_plot0.70.00.7
pca_scree_plot0.010.000.02
permutation_test0.020.000.01
permutation_test_plot000
permute_sample_order0.020.000.02
pls_regcoeff_plot0.50.00.5
pls_scores_plot0.790.000.80
pls_vip_plot0.570.000.56
plsda_feature_importance_plot0.780.030.81
plsda_predicted_plot0.480.000.49
plsda_roc_plot1.270.001.26
plsr_cook_dist000
plsr_prediction_plot0.010.000.02
plsr_qq_plot0.020.000.01
plsr_residual_hist000
pqn_norm0.370.000.38
pqn_norm_hist000
prop_na0.020.000.01
r_squared000
resample0.010.000.02
resample_chart000
rsd_filter0.050.000.05
rsd_filter_hist000
run0.050.000.04
sb_corr0.030.000.03
scatter_chart0.470.000.47
split_data0.020.000.01
stratified_split0.170.000.18
svm_plot_2d0.890.031.06
tSNE0.030.000.03
tSNE_scatter000
tic_chart0.270.000.26
ttest0.030.000.03
vec_norm000
wilcox_p_hist000
wilcox_test0.020.000.02