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This page was generated on 2021-10-15 15:06:37 -0400 (Fri, 15 Oct 2021).
To the developers/maintainers of the GOexpress package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/GOexpress.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 785/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
GOexpress 1.26.0 (landing page) Kevin Rue-Albrecht
| nebbiolo1 | Linux (Ubuntu 20.04.2 LTS) / x86_64 | OK | OK | OK | |||||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||||
machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |||||||||
Package: GOexpress |
Version: 1.26.0 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:GOexpress.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings GOexpress_1.26.0.tar.gz |
StartedAt: 2021-10-14 19:39:30 -0400 (Thu, 14 Oct 2021) |
EndedAt: 2021-10-14 19:42:24 -0400 (Thu, 14 Oct 2021) |
EllapsedTime: 173.6 seconds |
RetCode: 0 |
Status: OK |
CheckDir: GOexpress.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:GOexpress.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings GOexpress_1.26.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.13-bioc/meat/GOexpress.Rcheck’ * using R version 4.1.1 (2021-08-10) * using platform: x86_64-apple-darwin17.0 (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘GOexpress/DESCRIPTION’ ... OK * this is package ‘GOexpress’ version ‘1.26.0’ * 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 ... NOTE Found the following hidden files and directories: .git_fetch_output.txt .git_merge_output.txt .travis.yml These were most likely included in error. See section ‘Package structure’ in the ‘Writing R Extensions’ manual. * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘GOexpress’ 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 ... NOTE GO_analyse: no visible binding for global variable ‘microarray2dataset’ GO_analyse: no visible binding for global variable ‘prefix2dataset’ mart_from_ensembl: no visible binding for global variable ‘prefix2dataset’ Undefined global functions or variables: microarray2dataset prefix2dataset * 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 contents of ‘data’ directory ... OK * checking data for non-ASCII characters ... OK * checking LazyData ... OK * checking data for ASCII and uncompressed saves ... OK * checking sizes of PDF files under ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... 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: 2 NOTEs See ‘/Users/biocbuild/bbs-3.13-bioc/meat/GOexpress.Rcheck/00check.log’ for details.
GOexpress.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL GOexpress ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.1/Resources/library’ * installing *source* package ‘GOexpress’ ... ** using staged installation ** R ** data *** moving datasets to lazyload DB ** 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 (GOexpress)
GOexpress.Rcheck/GOexpress-Ex.timings
name | user | system | elapsed | |
AlvMac | 0.268 | 0.022 | 0.289 | |
AlvMac_GOgenes | 0.433 | 0.009 | 0.443 | |
AlvMac_allGO | 0.034 | 0.004 | 0.039 | |
AlvMac_allgenes | 0.016 | 0.002 | 0.018 | |
AlvMac_results | 0.186 | 0.011 | 0.198 | |
AlvMac_results.pVal | 2.059 | 2.444 | 4.648 | |
GO_analyse | 3.857 | 0.141 | 4.000 | |
GOexpress-package | 0.003 | 0.005 | 0.009 | |
cluster_GO | 0.158 | 0.005 | 0.163 | |
expression_plot | 2.677 | 0.117 | 2.798 | |
expression_plot_symbol | 1.096 | 0.011 | 1.109 | |
expression_profiles | 0.738 | 0.007 | 0.747 | |
expression_profiles_symbol | 1.208 | 0.010 | 1.220 | |
heatmap_GO | 0.720 | 0.014 | 0.755 | |
hist_scores | 0.886 | 0.006 | 0.894 | |
list_genes | 0.146 | 0.002 | 0.149 | |
microarray2dataset | 0.014 | 0.014 | 0.028 | |
pValue_GO | 0.000 | 0.001 | 0.001 | |
plot_design | 0.216 | 0.007 | 0.224 | |
prefix2dataset | 0.013 | 0.004 | 0.018 | |
quantiles_scores | 0.236 | 0.010 | 0.246 | |
rerank | 0.328 | 0.004 | 0.333 | |
subEset | 0.062 | 0.002 | 0.064 | |
subset_scores | 0.283 | 0.018 | 0.301 | |
table_genes | 0.168 | 0.005 | 0.173 | |