Back to Multiple platform build/check report for BioC 3.11 |
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This page was generated on 2020-10-17 11:59:44 -0400 (Sat, 17 Oct 2020).
TO THE DEVELOPERS/MAINTAINERS OF THE structToolbox PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 1753/1905 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
structToolbox 1.0.1 Gavin Rhys Lloyd
| malbec2 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | OK | |||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | NA | |||||||
machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | [ OK ] | OK |
Package: structToolbox |
Version: 1.0.1 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:structToolbox.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings structToolbox_1.0.1.tar.gz |
StartedAt: 2020-10-17 05:43:38 -0400 (Sat, 17 Oct 2020) |
EndedAt: 2020-10-17 05:52:30 -0400 (Sat, 17 Oct 2020) |
EllapsedTime: 531.1 seconds |
RetCode: 0 |
Status: OK |
CheckDir: structToolbox.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:structToolbox.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings structToolbox_1.0.1.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.11-bioc/meat/structToolbox.Rcheck’ * using R version 4.0.3 (2020-10-10) * using platform: x86_64-apple-darwin17.0 (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 ‘1.0.1’ * 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 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 17.168 0.043 17.229 fisher_exact 8.841 0.023 8.870 fs_line 8.023 0.076 8.110 forward_selection_byrank 7.359 0.089 7.457 fold_change 7.046 0.034 7.086 compare_dist 5.634 0.304 5.955 * 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
structToolbox.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL structToolbox ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.0/Resources/library’ * installing *source* package ‘structToolbox’ ... ** using staged installation ** R ** 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)
structToolbox.Rcheck/tests/testthat.Rout
R version 4.0.3 (2020-10-10) -- "Bunny-Wunnies Freak Out" Copyright (C) 2020 The R Foundation for Statistical Computing Platform: x86_64-apple-darwin17.0 (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") ══ testthat results ═══════════════════════════════════════════════════════════ [ OK: 95 | SKIPPED: 0 | WARNINGS: 2 | FAILED: 0 ] > > proc.time() user system elapsed 192.035 1.132 193.345
structToolbox.Rcheck/structToolbox-Ex.timings
name | user | system | elapsed | |
ANOVA | 0.657 | 0.033 | 0.694 | |
AUC | 2.022 | 0.082 | 2.105 | |
DFA | 0.318 | 0.001 | 0.319 | |
DatasetExperiment_boxplot | 0.856 | 0.036 | 0.893 | |
DatasetExperiment_dist | 2.011 | 0.114 | 2.126 | |
DatasetExperiment_factor_barchart | 0.285 | 0.002 | 0.287 | |
DatasetExperiment_heatmap | 0.003 | 0.001 | 0.003 | |
HCA | 0.062 | 0.001 | 0.062 | |
HSD | 0.631 | 0.031 | 0.667 | |
HSDEM | 0.514 | 0.018 | 0.532 | |
MTBLS79_DatasetExperiment | 0.002 | 0.001 | 0.003 | |
PCA | 0.003 | 0.000 | 0.004 | |
PLSDA | 0.002 | 0.000 | 0.003 | |
PLSR | 0.004 | 0.000 | 0.004 | |
SVM | 0.008 | 0.001 | 0.009 | |
as_data_frame | 0.205 | 0.002 | 0.209 | |
autoscale | 0.100 | 0.001 | 0.101 | |
balanced_accuracy | 1.927 | 0.013 | 1.940 | |
blank_filter | 0.543 | 0.014 | 0.558 | |
blank_filter_hist | 0.000 | 0.001 | 0.001 | |
bootstrap | 1.380 | 0.002 | 1.382 | |
calculate | 0.007 | 0.001 | 0.008 | |
chart_plot | 0.034 | 0.002 | 0.035 | |
classical_lsq | 0.237 | 0.000 | 0.238 | |
compare_dist | 5.634 | 0.304 | 5.955 | |
confounders_clsq | 3.403 | 0.007 | 3.412 | |
confounders_lsq_barchart | 3.208 | 0.008 | 3.219 | |
confounders_lsq_boxplot | 3.180 | 0.009 | 3.194 | |
constant_sum_norm | 0.002 | 0.000 | 0.002 | |
corr_coef | 0.231 | 0.002 | 0.232 | |
dfa_scores_plot | 0.763 | 0.003 | 0.766 | |
dratio_filter | 1.279 | 0.028 | 1.310 | |
feature_boxplot | 0.015 | 0.001 | 0.015 | |
feature_profile | 0.745 | 0.014 | 0.760 | |
filter_by_name | 0.03 | 0.00 | 0.03 | |
filter_na_count | 1.414 | 0.049 | 1.469 | |
filter_smeta | 0.079 | 0.000 | 0.079 | |
fisher_exact | 8.841 | 0.023 | 8.870 | |
fold_change | 7.046 | 0.034 | 7.086 | |
fold_change_int | 17.168 | 0.043 | 17.229 | |
fold_change_plot | 0.002 | 0.001 | 0.002 | |
forward_selection_byrank | 7.359 | 0.089 | 7.457 | |
fs_line | 8.023 | 0.076 | 8.110 | |
glog_opt_plot | 0.801 | 0.007 | 0.810 | |
glog_transform | 0.473 | 0.004 | 0.478 | |
grid_search_1d | 4.889 | 0.104 | 4.997 | |
gs_line | 0.001 | 0.000 | 0.001 | |
hca_dendrogram | 0.001 | 0.000 | 0.001 | |
kfold_xval | 3.115 | 0.010 | 3.132 | |
kfoldxcv_grid | 3.611 | 0.011 | 3.629 | |
kfoldxcv_metric | 0.002 | 0.000 | 0.002 | |
knn_impute | 0.003 | 0.000 | 0.003 | |
kw_p_hist | 0.001 | 0.000 | 0.001 | |
kw_rank_sum | 0.091 | 0.000 | 0.091 | |
linear_model | 0.022 | 0.000 | 0.022 | |
log_transform | 0.003 | 0.000 | 0.003 | |
mean_centre | 0.001 | 0.000 | 0.000 | |
mean_of_medians | 0.121 | 0.001 | 0.122 | |
mixed_effect | 0.230 | 0.000 | 0.231 | |
model_apply | 0.031 | 0.000 | 0.031 | |
model_predict | 0.074 | 0.001 | 0.075 | |
model_reverse | 0.030 | 0.001 | 0.031 | |
model_train | 0.070 | 0.001 | 0.071 | |
mv_boxplot | 0.450 | 0.007 | 0.459 | |
mv_feature_filter | 0.180 | 0.001 | 0.180 | |
mv_feature_filter_hist | 0.001 | 0.001 | 0.001 | |
mv_histogram | 0.399 | 0.002 | 0.401 | |
mv_sample_filter | 0.004 | 0.000 | 0.004 | |
mv_sample_filter_hist | 0.001 | 0.001 | 0.002 | |
nroot_transform | 0.003 | 0.000 | 0.004 | |
pairs_filter | 0.004 | 0.000 | 0.004 | |
pareto_scale | 0.087 | 0.000 | 0.088 | |
pca_biplot_plot | 0.006 | 0.000 | 0.006 | |
pca_correlation_plot | 0.003 | 0.001 | 0.003 | |
pca_dstat_plot | 0.003 | 0.000 | 0.004 | |
pca_loadings_plot | 0.003 | 0.000 | 0.004 | |
pca_scores_plot | 0.570 | 0.004 | 0.577 | |
pca_scree_plot | 0.001 | 0.000 | 0.002 | |
permutation_test | 0.003 | 0.000 | 0.003 | |
permutation_test_plot | 0.001 | 0.000 | 0.002 | |
permute_sample_order | 0.002 | 0.000 | 0.002 | |
plsda_predicted_plot | 0.520 | 0.005 | 0.526 | |
plsda_regcoeff_plot | 0.338 | 0.002 | 0.341 | |
plsda_roc_plot | 0.805 | 0.003 | 0.808 | |
plsda_scores_plot | 0.533 | 0.003 | 0.537 | |
plsda_vip_plot | 0.335 | 0.002 | 0.337 | |
plsr_cook_dist | 0.001 | 0.000 | 0.002 | |
plsr_prediction_plot | 0.001 | 0.000 | 0.001 | |
plsr_qq_plot | 0.001 | 0.000 | 0.001 | |
plsr_residual_hist | 0.000 | 0.000 | 0.001 | |
pqn_norm | 1.066 | 0.004 | 1.072 | |
pqn_norm_hist | 0.001 | 0.001 | 0.001 | |
prop_na | 0.006 | 0.000 | 0.006 | |
r_squared | 0.001 | 0.000 | 0.002 | |
rsd_filter | 0.005 | 0.000 | 0.006 | |
rsd_filter_hist | 0.001 | 0.000 | 0.001 | |
run | 0.035 | 0.000 | 0.035 | |
sb_corr | 0.009 | 0.000 | 0.010 | |
split_data | 0.003 | 0.001 | 0.003 | |
stratified_split | 0.145 | 0.001 | 0.146 | |
svm_plot_2d | 0.860 | 0.008 | 0.870 | |
tSNE | 0.002 | 0.001 | 0.002 | |
tSNE_scatter | 0.001 | 0.000 | 0.002 | |
ttest | 0.007 | 0.000 | 0.006 | |
vec_norm | 0.001 | 0.000 | 0.001 | |
wilcox_p_hist | 0.000 | 0.000 | 0.001 | |
wilcox_test | 0.004 | 0.000 | 0.005 | |