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This page was generated on 2022-06-24 12:06:52 -0400 (Fri, 24 Jun 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 20.04.4 LTS)x86_644.2.0 (2022-04-22) -- "Vigorous Calisthenics" 4380
palomino3Windows Server 2022 Datacenterx644.2.0 (2022-04-22 ucrt) -- "Vigorous Calisthenics" 4156
merida1macOS 10.14.6 Mojavex86_644.2.0 (2022-04-22) -- "Vigorous Calisthenics" 4221
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

CHECK results for structToolbox on palomino3


To the developers/maintainers of the structToolbox package:
- Please 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 How and When does the builder pull? When will my changes propagate? for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 1947/2140HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
structToolbox 1.8.0  (landing page)
Gavin Rhys Lloyd
Snapshot Date: 2022-06-23 13:55:15 -0400 (Thu, 23 Jun 2022)
git_url: https://git.bioconductor.org/packages/structToolbox
git_branch: RELEASE_3_15
git_last_commit: 29adf97
git_last_commit_date: 2022-04-26 12:02:16 -0400 (Tue, 26 Apr 2022)
nebbiolo1Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino3Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    OK    NA  

Summary

Package: structToolbox
Version: 1.8.0
Command: F:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:structToolbox.install-out.txt --library=F:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings structToolbox_1.8.0.tar.gz
StartedAt: 2022-06-24 05:21:32 -0400 (Fri, 24 Jun 2022)
EndedAt: 2022-06-24 05:30:13 -0400 (Fri, 24 Jun 2022)
EllapsedTime: 521.3 seconds
RetCode: 0
Status:   OK  
CheckDir: structToolbox.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   F:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:structToolbox.install-out.txt --library=F:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings structToolbox_1.8.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'F:/biocbuild/bbs-3.15-bioc/meat/structToolbox.Rcheck'
* using R version 4.2.0 (2022-04-22 ucrt)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'structToolbox/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'structToolbox' version '1.8.0'
* 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 R 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           21.42   0.15   21.61
fold_change               12.72   0.15   12.86
fisher_exact              12.69   0.15   12.85
forward_selection_by_rank  7.62   0.17    7.81
fs_line                    7.47   0.08    7.55
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
  Running 'testthat.R'
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... 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-3.15-bioc\R\bin\R.exe CMD INSTALL structToolbox
###
##############################################################################
##############################################################################


* installing to library 'F:/biocbuild/bbs-3.15-bioc/R/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 version 4.2.0 (2022-04-22 ucrt) -- "Vigorous Calisthenics"
Copyright (C) 2022 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (64-bit)

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 2 | SKIP 0 | PASS 124 ]

[ FAIL 0 | WARN 2 | SKIP 0 | PASS 124 ]
> 
> proc.time()
   user  system elapsed 
 204.54    3.29  210.51 

Example timings

structToolbox.Rcheck/structToolbox-Ex.timings

nameusersystemelapsed
ANOVA0.180.030.22
AUC2.780.032.81
DFA0.270.000.26
DatasetExperiment_boxplot1.450.041.49
DatasetExperiment_dist1.300.041.34
DatasetExperiment_factor_boxplot0.250.000.25
DatasetExperiment_heatmap0.320.030.36
HCA0.080.000.08
HSD0.580.030.67
HSDEM0.590.080.68
MTBLS79_DatasetExperiment000
PCA000
PLSDA0.010.000.02
PLSR0.020.000.01
SVM0.020.000.02
as_data_frame0.230.000.23
autoscale0.070.000.08
balanced_accuracy2.330.012.34
blank_filter0.530.020.55
blank_filter_hist000
bootstrap000
calculate0.020.000.01
chart_plot0.050.000.05
classical_lsq0.290.050.34
compare_dist4.250.174.43
confounders_clsq3.360.053.40
confounders_lsq_barchart3.210.043.25
confounders_lsq_boxplot3.230.053.28
constant_sum_norm0.020.000.02
corr_coef0.350.000.36
dfa_scores_plot0.690.000.69
dratio_filter0.670.010.68
equal_split0.110.000.11
feature_boxplot0.020.000.02
feature_profile0.390.000.39
feature_profile_array0.450.070.51
filter_by_name0.030.000.04
filter_na_count1.380.031.40
filter_smeta0.060.000.06
fisher_exact12.69 0.1512.85
fold_change12.72 0.1512.86
fold_change_int21.42 0.1521.61
fold_change_plot000
forward_selection_by_rank7.620.177.81
fs_line7.470.087.55
glog_opt_plot0.530.020.54
glog_transform0.330.000.33
grid_search_1d4.550.124.67
gs_line000
hca_dendrogram000
kfold_xval3.890.033.92
kfoldxcv_grid4.140.084.25
kfoldxcv_metric000
knn_impute0.020.000.04
kw_p_hist000
kw_rank_sum0.060.000.06
linear_model0.030.000.03
log_transform000
mean_centre000
mean_of_medians0.110.000.11
mixed_effect0.160.000.17
model_apply0.010.000.02
model_predict0.060.000.06
model_reverse0.050.000.05
model_train0.050.000.04
mv_boxplot0.200.000.21
mv_feature_filter0.110.000.11
mv_feature_filter_hist000
mv_histogram0.180.000.19
mv_sample_filter000
mv_sample_filter_hist000
nroot_transform000
ontology_cache000
pairs_filter000
pareto_scale0.050.000.05
pca_biplot0.010.000.02
pca_correlation_plot000
pca_dstat_plot000
pca_loadings_plot0.020.000.01
pca_scores_plot0.480.000.49
pca_scree_plot000
permutation_test0.020.000.01
permutation_test_plot000
permute_sample_order000
pls_regcoeff_plot0.330.000.33
pls_scores_plot0.730.000.73
pls_vip_plot0.330.000.33
plsda_feature_importance_plot0.720.020.85
plsda_predicted_plot0.450.000.45
plsda_roc_plot0.980.031.02
plsr_cook_dist0.020.000.01
plsr_prediction_plot000
plsr_qq_plot000
plsr_residual_hist0.000.010.02
pqn_norm0.450.040.48
pqn_norm_hist000
prop_na000
r_squared000
resample0.020.000.02
resample_chart000
rsd_filter0.020.000.02
rsd_filter_hist000
run0.030.000.03
sb_corr0.020.000.01
scatter_chart0.310.000.32
split_data000
stratified_split0.120.000.12
svm_plot_2d0.710.030.96
tSNE0.000.000.01
tSNE_scatter000
tic_chart0.170.030.20
ttest0.010.000.02
vec_norm000
wilcox_p_hist000
wilcox_test000