Back to Multiple platform build/check report for BioC 3.11 |
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This page was generated on 2020-10-17 11:58:25 -0400 (Sat, 17 Oct 2020).
TO THE DEVELOPERS/MAINTAINERS OF THE eegc PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 530/1905 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
eegc 1.14.0 Xiaoyuan Zhou
| malbec2 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | WARNINGS | |||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | |||||||
machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | [ WARNINGS ] | OK |
Package: eegc |
Version: 1.14.0 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:eegc.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings eegc_1.14.0.tar.gz |
StartedAt: 2020-10-17 00:48:18 -0400 (Sat, 17 Oct 2020) |
EndedAt: 2020-10-17 00:59:42 -0400 (Sat, 17 Oct 2020) |
EllapsedTime: 684.3 seconds |
RetCode: 0 |
Status: WARNINGS |
CheckDir: eegc.Rcheck |
Warnings: 1 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:eegc.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings eegc_1.14.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.11-bioc/meat/eegc.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 ‘eegc/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘eegc’ version ‘1.14.0’ * 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 ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘eegc’ can be installed ... OK * checking installed package size ... NOTE installed size is 11.6Mb sub-directories of 1Mb or more: data 11.0Mb * 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 categorizeGene : <anonymous>: no visible global function definition for ‘quantile’ densityPlot: no visible binding for global variable ‘density’ densityPlot: no visible global function definition for ‘lines’ densityPlot: no visible global function definition for ‘axis’ densityPlot: no visible global function definition for ‘adjustcolor’ densityPlot: no visible global function definition for ‘legend’ densityPlot : <anonymous>: no visible global function definition for ‘quantile’ densityPlot: no visible global function definition for ‘text’ densityPlot: no visible global function definition for ‘dev.copy2pdf’ diffGene: no visible global function definition for ‘model.matrix’ diffGene: no visible binding for global variable ‘treat’ diffGene: no visible binding for global variable ‘control’ diffGene: no visible global function definition for ‘results’ diffGene: no visible global function definition for ‘p.adjust’ dotPercentage: no visible global function definition for ‘lines’ dotPercentage: no visible global function definition for ‘axis’ dotPercentage: no visible global function definition for ‘text’ dotPercentage: no visible global function definition for ‘par’ enrichment : enrichment : <anonymous>: no visible global function definition for ‘phyper’ enrichment : enrichment: no visible global function definition for ‘p.adjust’ grnPlot: no visible global function definition for ‘title’ grnPlot: no visible global function definition for ‘legend’ markerScatter: no visible global function definition for ‘colorRampPalette’ markerScatter: no visible global function definition for ‘points’ markerScatter: no visible global function definition for ‘lm’ markerScatter: no visible global function definition for ‘abline’ markerScatter: no visible global function definition for ‘text’ markerScatter: no visible global function definition for ‘legend’ Undefined global functions or variables: abline adjustcolor axis colorRampPalette control density dev.copy2pdf legend lines lm model.matrix p.adjust par phyper points quantile results text title treat Consider adding importFrom("grDevices", "adjustcolor", "colorRampPalette", "dev.copy2pdf") importFrom("graphics", "abline", "axis", "legend", "lines", "par", "points", "text", "title") importFrom("stats", "density", "lm", "model.matrix", "p.adjust", "phyper", "quantile") to your NAMESPACE file. * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd cross-references ... WARNING Missing link or links in documentation object 'barplotEnrich.Rd': ‘[DOSE]{barplot.enrichResult}’ See section 'Cross-references' in the 'Writing R Extensions' manual. * 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 data for ASCII and uncompressed saves ... OK * checking sizes of PDF files under ‘inst/doc’ ... OK * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed functionEnrich 338.195 16.875 361.545 * checking for unstated dependencies in vignettes ... NOTE '::' or ':::' import not declared from: ‘BiocStyle’ * 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: 1 WARNING, 3 NOTEs See ‘/Users/biocbuild/bbs-3.11-bioc/meat/eegc.Rcheck/00check.log’ for details.
eegc.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL eegc ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.0/Resources/library’ * installing *source* package ‘eegc’ ... ** 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 ‘eegc.Rnw’ ** 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 (eegc)
eegc.Rcheck/eegc-Ex.timings
name | user | system | elapsed | |
barplotEnrich | 0.000 | 0.000 | 0.001 | |
categorizeGene | 0.117 | 0.013 | 0.130 | |
densityPlot | 0.005 | 0.002 | 0.008 | |
diffGene | 1.209 | 0.039 | 1.249 | |
dotPercentage | 0.001 | 0.002 | 0.003 | |
enrichment | 2.471 | 0.109 | 2.588 | |
functionEnrich | 338.195 | 16.875 | 361.545 | |
grnPlot | 0.000 | 0.000 | 0.001 | |
heatmapPlot | 0.602 | 0.006 | 0.609 | |
markerScatter | 0.452 | 0.012 | 0.465 | |
networkAnalyze | 0.195 | 0.004 | 0.201 | |