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This page was generated on 2025-01-11 11:45 -0500 (Sat, 11 Jan 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.1 LTS)x86_64R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" 4760
palomino7Windows Server 2022 Datacenterx64R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" 4479
lconwaymacOS 12.7.1 Montereyx86_64R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" 4443
kjohnson3macOS 13.7.1 Venturaarm64R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" 4398
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch64R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" 4391
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 2067/2277HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
structToolbox 1.19.0  (landing page)
Gavin Rhys Lloyd
Snapshot Date: 2025-01-10 13:40 -0500 (Fri, 10 Jan 2025)
git_url: https://git.bioconductor.org/packages/structToolbox
git_branch: devel
git_last_commit: 4622d2f
git_last_commit_date: 2024-10-29 10:43:04 -0500 (Tue, 29 Oct 2024)
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 22.03 LTS-SP1) / 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: 1.19.0
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_1.19.0.tar.gz
StartedAt: 2025-01-10 21:44:18 -0500 (Fri, 10 Jan 2025)
EndedAt: 2025-01-10 21:46:59 -0500 (Fri, 10 Jan 2025)
EllapsedTime: 160.9 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_1.19.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.21-bioc/meat/structToolbox.Rcheck’
* using R Under development (unstable) (2024-11-20 r87352)
* using platform: aarch64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 12.2.0
* 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 ‘1.19.0’
* 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 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’ ...
** 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) (2024-11-20 r87352) -- "Unsuffered Consequences"
Copyright (C) 2024 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 
 53.194   0.583  54.012 

Example timings

structToolbox.Rcheck/structToolbox-Ex.timings

nameusersystemelapsed
ANOVA0.0810.0030.084
AUC0.5800.0220.637
DFA0.0550.0010.056
DatasetExperiment_boxplot0.6420.0150.691
DatasetExperiment_dist0.5080.0270.601
DatasetExperiment_factor_boxplot0.0620.0000.063
DatasetExperiment_heatmap0.1290.0070.155
HCA0.0210.0010.023
HSD0.0990.0050.113
HSDEM0.1580.0080.166
MTBLS79_DatasetExperiment000
OPLSDA0.0030.0000.003
OPLSR0.0050.0000.005
PCA0.0010.0000.001
PLSDA0.0070.0000.008
PLSR0.0030.0000.003
SVM0.0080.0010.008
as_data_frame0.0370.0000.043
autoscale0.0210.0010.022
balanced_accuracy0.5230.0050.544
blank_filter0.1200.0060.126
blank_filter_hist0.0000.0000.001
bootstrap0.0050.0000.005
calculate0.0020.0000.002
chart_plot0.0080.0000.008
classical_lsq0.1000.0010.101
compare_dist1.5980.0981.792
confounders_clsq0.8300.0050.879
confounders_lsq_barchart0.8680.0050.920
confounders_lsq_boxplot0.8700.0050.910
constant_sum_norm0.0050.0000.004
corr_coef0.0850.0020.091
dfa_scores_plot0.2160.0020.233
dratio_filter0.0810.0030.085
equal_split0.0350.0000.036
feature_boxplot0.0090.0000.009
feature_profile0.1130.0040.118
feature_profile_array0.1340.0010.142
filter_by_name0.0090.0000.009
filter_na_count0.3580.0270.390
filter_smeta0.0250.0010.030
fisher_exact2.7950.0132.910
fold_change3.2650.0093.346
fold_change_int4.6140.0124.657
fold_change_plot0.0030.0000.004
forward_selection_by_rank2.0430.0632.119
fs_line1.7270.0391.766
glog_opt_plot0.1330.0000.134
glog_transform0.0830.0000.083
grid_search_1d1.1080.0611.171
gs_line000
hca_dendrogram000
kfold_xval0.9550.0060.962
kfoldxcv_grid1.0230.0071.029
kfoldxcv_metric000
knn_impute0.0040.0000.004
kw_p_hist000
kw_rank_sum0.0230.0000.024
linear_model0.0080.0000.008
log_transform0.0040.0000.004
mean_centre0.0010.0000.001
mean_of_medians0.0380.0010.038
mixed_effect0.0510.0000.051
model_apply0.0070.0000.006
model_predict0.0150.0000.015
model_reverse0.0120.0000.012
model_train0.0130.0000.014
mv_boxplot0.0820.0020.084
mv_feature_filter0.0330.0000.033
mv_feature_filter_hist0.0010.0000.000
mv_histogram0.0850.0020.088
mv_sample_filter0.0050.0000.005
mv_sample_filter_hist000
nroot_transform0.0040.0000.004
ontology_cache0.0000.0000.001
pairs_filter0.0050.0000.005
pareto_scale0.0160.0010.016
pca_biplot0.0060.0000.005
pca_correlation_plot0.0030.0000.003
pca_dstat_plot0.0040.0000.004
pca_loadings_plot0.0040.0000.004
pca_scores_plot0.1520.0040.156
pca_scree_plot0.0040.0000.003
permutation_test0.0050.0000.004
permutation_test_plot0.0010.0000.001
permute_sample_order0.0040.0000.004
pls_regcoeff_plot0.0960.0010.097
pls_scores_plot0.1940.0010.195
pls_vip_plot0.1250.0050.131
plsda_feature_importance_plot0.1840.0030.189
plsda_predicted_plot0.1270.0020.128
plsda_roc_plot0.3360.0050.342
plsr_cook_dist0.0040.0000.004
plsr_prediction_plot0.0030.0000.003
plsr_qq_plot0.0030.0000.004
plsr_residual_hist0.0030.0000.003
pqn_norm0.0920.0000.093
pqn_norm_hist0.0010.0000.000
prop_na0.0050.0000.006
r_squared000
resample0.0070.0000.007
resample_chart0.0010.0000.001
rsd_filter0.0050.0000.006
rsd_filter_hist000
run0.0080.0010.008
sb_corr0.010.000.01
scatter_chart0.1000.0010.101
split_data0.0050.0000.004
stratified_split0.0320.0000.033
svm_plot_2d0.1990.0060.205
tSNE0.0090.0010.009
tSNE_scatter0.0040.0000.004
tic_chart0.0600.0010.061
ttest0.0060.0000.007
vec_norm000
wilcox_p_hist0.0010.0000.001
wilcox_test0.0070.0000.007