Back to Multiple platform build/check report for BioC 3.15 |
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This page was generated on 2022-03-18 11:08:48 -0400 (Fri, 18 Mar 2022).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | R Under development (unstable) (2022-02-17 r81757) -- "Unsuffered Consequences" | 4334 |
riesling1 | Windows Server 2019 Standard | x64 | R Under development (unstable) (2021-11-21 r81221) -- "Unsuffered Consequences" | 4097 |
palomino3 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2022-02-17 r81757 ucrt) -- "Unsuffered Consequences" | 4083 |
merida1 | macOS 10.14.6 Mojave | x86_64 | R Under development (unstable) (2022-03-02 r81842) -- "Unsuffered Consequences" | 4134 |
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 |
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? here for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 1902/2090 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
structToolbox 1.7.2 (landing page) Gavin Rhys Lloyd
| nebbiolo1 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | OK | |||||||||
riesling1 | Windows Server 2019 Standard / x64 | OK | OK | OK | OK | |||||||||
palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |||||||||
Package: structToolbox |
Version: 1.7.2 |
Command: D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:structToolbox.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings structToolbox_1.7.2.tar.gz |
StartedAt: 2022-03-17 20:24:31 -0400 (Thu, 17 Mar 2022) |
EndedAt: 2022-03-17 20:30:49 -0400 (Thu, 17 Mar 2022) |
EllapsedTime: 378.2 seconds |
RetCode: 0 |
Status: OK |
CheckDir: structToolbox.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:structToolbox.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings structToolbox_1.7.2.tar.gz ### ############################################################################## ############################################################################## * using log directory 'D:/biocbuild/bbs-3.15-bioc/meat/structToolbox.Rcheck' * using R Under development (unstable) (2021-11-21 r81221) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'structToolbox/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'structToolbox' version '1.7.2' * 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 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 14.94 0.01 14.95 fold_change 7.75 0.05 7.80 fisher_exact 7.62 0.00 7.63 fs_line 6.23 0.18 6.41 * 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: ### ### D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL structToolbox ### ############################################################################## ############################################################################## * installing to library 'D:/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 converting help for package 'structToolbox' finding HTML links ... done ANOVA html AUC html DFA html DatasetExperiment_boxplot html DatasetExperiment_dist html DatasetExperiment_factor_boxplot html DatasetExperiment_heatmap html HCA html HSD html HSDEM html MTBLS79_DatasetExperiment html PCA html PLSDA html PLSR html SVM html as_data_frame html autoscale html balanced_accuracy html blank_filter html blank_filter_hist html bootstrap html calculate html chart_plot html classical_lsq html compare_dist html confounders_clsq html confounders_lsq_barchart html confounders_lsq_boxplot html constant_sum_norm html corr_coef html dfa_scores_plot html dratio_filter html equal_split html feature_boxplot html feature_profile html feature_profile_array html filter_by_name html filter_na_count html filter_smeta html fisher_exact html fold_change html fold_change_int html fold_change_plot html forward_selection_by_rank html fs_line html glog_opt_plot html glog_transform html grid_search_1d html gs_line html hca_dendrogram html kfold_xval html kfoldxcv_grid html kfoldxcv_metric html knn_impute html kw_p_hist html kw_rank_sum html linear_model html log_transform html mean_centre html mean_of_medians html mixed_effect html model_apply html model_predict html model_reverse html model_train html mv_boxplot html mv_feature_filter html mv_feature_filter_hist html mv_histogram html mv_sample_filter html mv_sample_filter_hist html nroot_transform html ontology_cache html pairs_filter html pareto_scale html pca_biplot html pca_correlation_plot html pca_dstat_plot html pca_loadings_plot html pca_scores_plot html pca_scree_plot html permutation_test html permutation_test_plot html permute_sample_order html pls_regcoeff_plot html pls_scores_plot html pls_vip_plot html plsda_feature_importance_plot html plsda_predicted_plot html plsda_roc_plot html plsr_cook_dist html plsr_prediction_plot html plsr_qq_plot html plsr_residual_hist html pqn_norm html pqn_norm_hist html prop_na html r_squared html resample html resample_chart html rsd_filter html rsd_filter_hist html run html sb_corr html scatter_chart html split_data html stratified_split html structToolbox html svm_plot_2d html tSNE html tSNE_scatter html tic_chart html ttest html vec_norm html wilcox_p_hist html wilcox_test html ** 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) Making 'packages.html' ... done
structToolbox.Rcheck/tests/testthat.Rout
R Under development (unstable) (2021-11-21 r81221) -- "Unsuffered Consequences" Copyright (C) 2021 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 150.10 1.73 151.84
structToolbox.Rcheck/structToolbox-Ex.timings
name | user | system | elapsed | |
ANOVA | 0.13 | 0.00 | 0.13 | |
AUC | 1.28 | 0.08 | 1.36 | |
DFA | 0.14 | 0.00 | 0.14 | |
DatasetExperiment_boxplot | 1.04 | 0.02 | 1.06 | |
DatasetExperiment_dist | 0.9 | 0.1 | 1.0 | |
DatasetExperiment_factor_boxplot | 0.12 | 0.00 | 0.12 | |
DatasetExperiment_heatmap | 0.20 | 0.00 | 0.21 | |
HCA | 0.05 | 0.02 | 0.06 | |
HSD | 0.29 | 0.09 | 0.35 | |
HSDEM | 0.82 | 0.05 | 0.86 | |
MTBLS79_DatasetExperiment | 0 | 0 | 0 | |
PCA | 0 | 0 | 0 | |
PLSDA | 0.01 | 0.00 | 0.02 | |
PLSR | 0.02 | 0.00 | 0.02 | |
SVM | 0 | 0 | 0 | |
as_data_frame | 0.07 | 0.00 | 0.07 | |
autoscale | 0.03 | 0.00 | 0.03 | |
balanced_accuracy | 1.49 | 0.03 | 1.52 | |
blank_filter | 0.25 | 0.00 | 0.25 | |
blank_filter_hist | 0 | 0 | 0 | |
bootstrap | 0.01 | 0.00 | 0.01 | |
calculate | 0 | 0 | 0 | |
chart_plot | 0.02 | 0.00 | 0.02 | |
classical_lsq | 0.2 | 0.0 | 0.2 | |
compare_dist | 3.53 | 0.41 | 3.94 | |
confounders_clsq | 2.10 | 0.01 | 2.11 | |
confounders_lsq_barchart | 2.26 | 0.00 | 2.26 | |
confounders_lsq_boxplot | 2.55 | 0.00 | 2.55 | |
constant_sum_norm | 0.01 | 0.00 | 0.02 | |
corr_coef | 0.27 | 0.00 | 0.26 | |
dfa_scores_plot | 0.58 | 0.00 | 0.58 | |
dratio_filter | 0.67 | 0.00 | 0.68 | |
equal_split | 0.13 | 0.00 | 0.12 | |
feature_boxplot | 0.02 | 0.00 | 0.01 | |
feature_profile | 0.46 | 0.00 | 0.47 | |
feature_profile_array | 0.57 | 0.03 | 0.60 | |
filter_by_name | 0.03 | 0.00 | 0.03 | |
filter_na_count | 1.19 | 0.08 | 1.26 | |
filter_smeta | 0.03 | 0.00 | 0.03 | |
fisher_exact | 7.62 | 0.00 | 7.63 | |
fold_change | 7.75 | 0.05 | 7.80 | |
fold_change_int | 14.94 | 0.01 | 14.95 | |
fold_change_plot | 0 | 0 | 0 | |
forward_selection_by_rank | 4.69 | 0.20 | 4.89 | |
fs_line | 6.23 | 0.18 | 6.41 | |
glog_opt_plot | 0.53 | 0.00 | 0.53 | |
glog_transform | 0.31 | 0.00 | 0.31 | |
grid_search_1d | 3.33 | 0.20 | 3.53 | |
gs_line | 0 | 0 | 0 | |
hca_dendrogram | 0 | 0 | 0 | |
kfold_xval | 2.19 | 0.02 | 2.20 | |
kfoldxcv_grid | 2.41 | 0.00 | 2.41 | |
kfoldxcv_metric | 0 | 0 | 0 | |
knn_impute | 0.01 | 0.00 | 0.02 | |
kw_p_hist | 0 | 0 | 0 | |
kw_rank_sum | 0.05 | 0.00 | 0.04 | |
linear_model | 0.01 | 0.00 | 0.02 | |
log_transform | 0 | 0 | 0 | |
mean_centre | 0 | 0 | 0 | |
mean_of_medians | 0.08 | 0.00 | 0.08 | |
mixed_effect | 0.14 | 0.00 | 0.14 | |
model_apply | 0.01 | 0.00 | 0.02 | |
model_predict | 0.05 | 0.00 | 0.04 | |
model_reverse | 0.03 | 0.00 | 0.04 | |
model_train | 0.03 | 0.00 | 0.03 | |
mv_boxplot | 0.19 | 0.00 | 0.18 | |
mv_feature_filter | 0.08 | 0.00 | 0.08 | |
mv_feature_filter_hist | 0 | 0 | 0 | |
mv_histogram | 0.16 | 0.00 | 0.16 | |
mv_sample_filter | 0 | 0 | 0 | |
mv_sample_filter_hist | 0 | 0 | 0 | |
nroot_transform | 0 | 0 | 0 | |
ontology_cache | 0 | 0 | 0 | |
pairs_filter | 0 | 0 | 0 | |
pareto_scale | 0.04 | 0.00 | 0.05 | |
pca_biplot | 0.02 | 0.00 | 0.02 | |
pca_correlation_plot | 0 | 0 | 0 | |
pca_dstat_plot | 0.01 | 0.00 | 0.01 | |
pca_loadings_plot | 0 | 0 | 0 | |
pca_scores_plot | 0.41 | 0.00 | 0.41 | |
pca_scree_plot | 0 | 0 | 0 | |
permutation_test | 0 | 0 | 0 | |
permutation_test_plot | 0 | 0 | 0 | |
permute_sample_order | 0.02 | 0.00 | 0.01 | |
pls_regcoeff_plot | 0.21 | 0.00 | 0.22 | |
pls_scores_plot | 0.55 | 0.00 | 0.55 | |
pls_vip_plot | 0.25 | 0.00 | 0.25 | |
plsda_feature_importance_plot | 0.41 | 0.00 | 0.41 | |
plsda_predicted_plot | 0.31 | 0.00 | 0.31 | |
plsda_roc_plot | 0.71 | 0.00 | 0.72 | |
plsr_cook_dist | 0 | 0 | 0 | |
plsr_prediction_plot | 0 | 0 | 0 | |
plsr_qq_plot | 0 | 0 | 0 | |
plsr_residual_hist | 0.02 | 0.00 | 0.02 | |
pqn_norm | 0.23 | 0.00 | 0.23 | |
pqn_norm_hist | 0 | 0 | 0 | |
prop_na | 0.02 | 0.00 | 0.02 | |
r_squared | 0 | 0 | 0 | |
resample | 0 | 0 | 0 | |
resample_chart | 0 | 0 | 0 | |
rsd_filter | 0.02 | 0.00 | 0.01 | |
rsd_filter_hist | 0 | 0 | 0 | |
run | 0.01 | 0.00 | 0.02 | |
sb_corr | 0.02 | 0.00 | 0.02 | |
scatter_chart | 0.22 | 0.00 | 0.21 | |
split_data | 0.01 | 0.00 | 0.02 | |
stratified_split | 0.08 | 0.00 | 0.08 | |
svm_plot_2d | 0.5 | 0.0 | 0.5 | |
tSNE | 0.02 | 0.00 | 0.01 | |
tSNE_scatter | 0 | 0 | 0 | |
tic_chart | 0.15 | 0.00 | 0.16 | |
ttest | 0.02 | 0.00 | 0.02 | |
vec_norm | 0 | 0 | 0 | |
wilcox_p_hist | 0 | 0 | 0 | |
wilcox_test | 0 | 0 | 0 | |