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This page was generated on 2025-07-31 11:48 -0400 (Thu, 31 Jul 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.2 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4823
palomino7Windows Server 2022 Datacenterx644.5.1 (2025-06-13 ucrt) -- "Great Square Root" 4565
merida1macOS 12.7.5 Montereyx86_644.5.1 RC (2025-06-05 r88288) -- "Great Square Root" 4603
kjohnson1macOS 13.6.6 Venturaarm644.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" 4544
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: 2025-07-28 13:40 -0400 (Mon, 28 Jul 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 24.04.2 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    OK  


CHECK results for structToolbox on kunpeng2

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: 1.20.0
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_1.20.0.tar.gz
StartedAt: 2025-07-29 14:53:49 -0000 (Tue, 29 Jul 2025)
EndedAt: 2025-07-29 15:04:55 -0000 (Tue, 29 Jul 2025)
EllapsedTime: 666.8 seconds
RetCode: 0
Status:   OK  
CheckDir: structToolbox.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### 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_1.20.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/structToolbox.Rcheck’
* using R Under development (unstable) (2025-02-19 r87757)
* 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-SP1)
* 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 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           23.550  0.040  23.634
fold_change               17.538  0.108  17.679
fisher_exact              14.119  0.036  14.184
fs_line                   10.117  0.079  10.216
forward_selection_by_rank  9.063  0.036   9.118
grid_search_1d             6.631  0.008   6.651
compare_dist               6.224  0.131   6.379
kfoldxcv_grid              5.352  0.020   5.384
* 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-devel_2025-02-19/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 Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences"
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 
268.134   1.937 270.917 

Example timings

structToolbox.Rcheck/structToolbox-Ex.timings

nameusersystemelapsed
ANOVA0.3460.0040.351
AUC2.8020.1642.975
DFA0.2840.0000.285
DatasetExperiment_boxplot1.9260.0882.029
DatasetExperiment_dist1.7700.0361.820
DatasetExperiment_factor_boxplot0.3150.0000.316
DatasetExperiment_heatmap0.5500.0000.551
HCA0.0890.0000.089
HSD0.4180.0040.436
HSDEM0.4750.0010.477
MTBLS79_DatasetExperiment0.0010.0000.002
OPLSDA0.0150.0000.016
OPLSR0.0210.0000.022
PCA0.0060.0000.006
PLSDA0.0320.0030.037
PLSR0.0130.0000.014
SVM0.040.000.04
as_data_frame0.1740.0080.183
autoscale0.1040.0000.104
balanced_accuracy2.5400.0082.555
blank_filter0.4870.0240.513
blank_filter_hist0.0010.0000.001
bootstrap0.0260.0000.026
calculate0.0070.0000.007
chart_plot0.040.000.04
classical_lsq0.4730.0080.483
compare_dist6.2240.1316.379
confounders_clsq4.2810.0324.330
confounders_lsq_barchart4.4120.0404.466
confounders_lsq_boxplot4.3410.0604.410
constant_sum_norm0.0190.0000.019
corr_coef0.3640.0080.373
dfa_scores_plot1.0330.0001.035
dratio_filter0.4890.0160.506
equal_split0.1780.0000.177
feature_boxplot0.0420.0000.043
feature_profile0.5380.0040.543
feature_profile_array0.7020.0000.705
filter_by_name0.0440.0000.044
filter_na_count1.6350.0561.694
filter_smeta0.0870.0000.087
fisher_exact14.119 0.03614.184
fold_change17.538 0.10817.679
fold_change_int23.550 0.04023.634
fold_change_plot0.0180.0000.017
forward_selection_by_rank9.0630.0369.118
fs_line10.117 0.07910.216
glog_opt_plot0.6770.0000.678
glog_transform0.4200.0000.421
grid_search_1d6.6310.0086.651
gs_line0.0010.0000.001
hca_dendrogram0.0010.0000.001
kfold_xval4.9130.0164.986
kfoldxcv_grid5.3520.0205.384
kfoldxcv_metric0.0010.0000.001
knn_impute0.0180.0000.018
kw_p_hist0.0010.0000.001
kw_rank_sum0.1310.0000.131
linear_model0.0400.0000.041
log_transform0.0190.0000.020
mean_centre0.0040.0000.004
mean_of_medians0.1720.0040.176
mixed_effect0.2240.0000.225
model_apply0.0320.0000.031
model_predict0.0750.0000.076
model_reverse0.0590.0000.060
model_train0.0700.0000.071
mv_boxplot0.4250.0000.426
mv_feature_filter0.1620.0000.162
mv_feature_filter_hist0.0000.0000.001
mv_histogram0.3630.0000.364
mv_sample_filter0.0210.0000.021
mv_sample_filter_hist0.0000.0000.001
nroot_transform0.0170.0020.019
ontology_cache000
pairs_filter0.0230.0000.023
pareto_scale0.0790.0000.079
pca_biplot0.0280.0000.028
pca_correlation_plot0.0160.0000.016
pca_dstat_plot0.020.000.02
pca_loadings_plot0.020.000.02
pca_scores_plot0.7740.0000.775
pca_scree_plot0.0160.0000.016
permutation_test0.0250.0000.025
permutation_test_plot0.0040.0000.004
permute_sample_order0.0210.0000.021
pls_regcoeff_plot0.4940.0000.495
pls_scores_plot0.9950.0000.998
pls_vip_plot0.5370.0000.539
plsda_feature_importance_plot0.8570.0120.872
plsda_predicted_plot0.6420.0040.648
plsda_roc_plot1.7240.0001.727
plsr_cook_dist0.0170.0000.016
plsr_prediction_plot0.0160.0000.016
plsr_qq_plot0.0160.0000.017
plsr_residual_hist0.0160.0000.016
pqn_norm0.4830.0040.488
pqn_norm_hist0.0010.0000.001
prop_na0.0240.0000.024
r_squared0.0010.0000.001
resample0.0330.0000.033
resample_chart0.0040.0000.004
rsd_filter0.030.000.03
rsd_filter_hist0.0010.0000.001
run0.0400.0000.041
sb_corr0.0480.0000.048
scatter_chart0.5160.0000.518
split_data0.0190.0000.019
stratified_split0.1720.0000.173
svm_plot_2d0.9370.0200.961
tSNE0.0450.0000.045
tSNE_scatter0.0180.0000.018
tic_chart0.3070.0040.311
ttest0.0350.0000.035
vec_norm0.0010.0000.001
wilcox_p_hist0.0010.0000.001
wilcox_test0.0330.0080.040