Back to Multiple platform build/check report for BioC 3.21:   simplified   long
ABCDEFGHIJKLMNOPQR[S]TUVWXYZ

This page was generated on 2025-03-27 11:47 -0400 (Thu, 27 Mar 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.1 LTS)x86_64R Under development (unstable) (2025-03-13 r87965) -- "Unsuffered Consequences" 4783
palomino7Windows Server 2022 Datacenterx64R Under development (unstable) (2025-03-01 r87860 ucrt) -- "Unsuffered Consequences" 4552
lconwaymacOS 12.7.1 Montereyx86_64R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences" 4581
kjohnson3macOS 13.7.1 Venturaarm64R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences" 4533
kunpeng2Linux (openEuler 24.03 LTS)aarch64R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" 4463
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 2098/2315HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
structToolbox 1.19.2  (landing page)
Gavin Rhys Lloyd
Snapshot Date: 2025-03-26 13:40 -0400 (Wed, 26 Mar 2025)
git_url: https://git.bioconductor.org/packages/structToolbox
git_branch: devel
git_last_commit: 4fab996
git_last_commit_date: 2025-02-19 06:09:45 -0400 (Wed, 19 Feb 2025)
nebbiolo1Linux (Ubuntu 24.04.1 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
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.1 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 kjohnson3

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: 1.19.2
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:structToolbox.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings structToolbox_1.19.2.tar.gz
StartedAt: 2025-03-26 21:50:25 -0400 (Wed, 26 Mar 2025)
EndedAt: 2025-03-26 21:53:08 -0400 (Wed, 26 Mar 2025)
EllapsedTime: 162.9 seconds
RetCode: 0
Status:   OK  
CheckDir: structToolbox.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:structToolbox.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings structToolbox_1.19.2.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.21-bioc/meat/structToolbox.Rcheck’
* using R Under development (unstable) (2025-03-02 r87868)
* using platform: aarch64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Ventura 13.7.1
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘structToolbox/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘structToolbox’ version ‘1.19.2’
* 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 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
* 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:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL structToolbox
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library’
* installing *source* package ‘structToolbox’ ...
** this is package ‘structToolbox’ version ‘1.19.2’
** 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 Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20

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 
 53.551   0.624  54.785 

Example timings

structToolbox.Rcheck/structToolbox-Ex.timings

nameusersystemelapsed
ANOVA0.0770.0030.081
AUC0.5650.0250.590
DFA0.0550.0000.056
DatasetExperiment_boxplot0.6210.0160.644
DatasetExperiment_dist0.7850.0200.807
DatasetExperiment_factor_boxplot0.0660.0000.067
DatasetExperiment_heatmap0.1300.0110.141
HCA0.0210.0020.023
HSD0.0900.0050.099
HSDEM0.1470.0070.159
MTBLS79_DatasetExperiment000
OPLSDA0.0040.0000.003
OPLSR0.0040.0000.004
PCA0.0010.0000.002
PLSDA0.0070.0000.007
PLSR0.0030.0000.002
SVM0.0080.0000.008
as_data_frame0.0370.0000.038
autoscale0.0220.0000.023
balanced_accuracy0.5080.0050.516
blank_filter0.1180.0060.128
blank_filter_hist0.0000.0000.001
bootstrap0.0050.0000.006
calculate0.0020.0000.002
chart_plot0.0100.0010.010
classical_lsq0.0990.0010.100
compare_dist1.2260.0471.274
confounders_clsq0.8120.0080.821
confounders_lsq_barchart0.8470.0040.852
confounders_lsq_boxplot0.8300.0050.836
constant_sum_norm0.0040.0000.004
corr_coef0.0740.0010.074
dfa_scores_plot0.2130.0010.215
dratio_filter0.0860.0020.088
equal_split0.0350.0000.035
feature_boxplot0.0090.0000.009
feature_profile0.1180.0030.121
feature_profile_array0.1350.0010.137
filter_by_name0.0090.0000.009
filter_na_count0.3510.0210.374
filter_smeta0.0170.0000.018
fisher_exact2.7880.0152.812
fold_change3.1880.0123.201
fold_change_int4.8410.0184.969
fold_change_plot0.0040.0000.004
forward_selection_by_rank1.7220.0391.764
fs_line1.7560.0341.792
glog_opt_plot0.1320.0000.132
glog_transform0.0830.0010.085
grid_search_1d1.1550.0761.239
gs_line000
hca_dendrogram000
kfold_xval0.9580.0070.991
kfoldxcv_grid1.0400.0101.051
kfoldxcv_metric0.0010.0000.001
knn_impute0.0040.0000.004
kw_p_hist0.0000.0010.001
kw_rank_sum0.0240.0000.024
linear_model0.0080.0000.008
log_transform0.0040.0000.004
mean_centre0.0000.0000.001
mean_of_medians0.0340.0000.034
mixed_effect0.0520.0010.052
model_apply0.0070.0000.007
model_predict0.0160.0000.016
model_reverse0.0120.0000.013
model_train0.0150.0000.015
mv_boxplot0.0900.0040.093
mv_feature_filter0.0330.0000.033
mv_feature_filter_hist000
mv_histogram0.0750.0030.078
mv_sample_filter0.0050.0000.005
mv_sample_filter_hist0.0010.0000.001
nroot_transform0.0040.0000.004
ontology_cache000
pairs_filter0.0050.0000.004
pareto_scale0.0160.0000.017
pca_biplot0.0060.0000.006
pca_correlation_plot0.0030.0000.003
pca_dstat_plot0.0040.0010.004
pca_loadings_plot0.0040.0000.004
pca_scores_plot0.1610.0020.163
pca_scree_plot0.0030.0000.003
permutation_test0.0050.0000.005
permutation_test_plot0.0010.0010.001
permute_sample_order0.0040.0000.005
pls_regcoeff_plot0.1120.0010.113
pls_scores_plot0.2000.0020.204
pls_vip_plot0.1050.0010.107
plsda_feature_importance_plot0.1780.0020.180
plsda_predicted_plot0.1320.0010.133
plsda_roc_plot0.3660.0100.376
plsr_cook_dist0.0030.0000.004
plsr_prediction_plot0.0030.0000.004
plsr_qq_plot0.0030.0000.003
plsr_residual_hist0.0030.0000.004
pqn_norm0.1020.0050.107
pqn_norm_hist0.0000.0000.001
prop_na0.0050.0000.005
r_squared0.0010.0000.000
resample0.0070.0000.007
resample_chart0.0010.0000.001
rsd_filter0.0060.0000.006
rsd_filter_hist000
run0.0090.0000.009
sb_corr0.0100.0000.009
scatter_chart0.0980.0010.099
split_data0.0050.0000.005
stratified_split0.0350.0000.035
svm_plot_2d0.2060.0080.216
tSNE0.0100.0000.009
tSNE_scatter0.0030.0000.003
tic_chart0.0630.0010.064
ttest0.0060.0010.006
vec_norm000
wilcox_p_hist000
wilcox_test0.0070.0000.007