Back to Multiple platform build/check report for BioC 3.9 |
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This page was generated on 2019-04-09 13:02:34 -0400 (Tue, 09 Apr 2019).
Package 1407/1703 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
RTopper 1.29.0 Luigi Marchionni
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | OK | |||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | |||||||
celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | [ OK ] | OK | |||||||
merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK |
Package: RTopper |
Version: 1.29.0 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:RTopper.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings RTopper_1.29.0.tar.gz |
StartedAt: 2019-04-09 05:11:38 -0400 (Tue, 09 Apr 2019) |
EndedAt: 2019-04-09 05:13:33 -0400 (Tue, 09 Apr 2019) |
EllapsedTime: 115.6 seconds |
RetCode: 0 |
Status: OK |
CheckDir: RTopper.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:RTopper.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings RTopper_1.29.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.9-bioc/meat/RTopper.Rcheck’ * using R Under development (unstable) (2019-03-18 r76245) * using platform: x86_64-apple-darwin15.6.0 (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘RTopper/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘RTopper’ version ‘1.29.0’ * 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 ‘RTopper’ can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking ‘build’ directory ... OK * checking DESCRIPTION meta-information ... NOTE Package listed in more than one of Depends, Imports, Suggests, Enhances: ‘limma’ A package should be listed in only one of these fields. * checking top-level files ... NOTE File LICENSE is not mentioned in the DESCRIPTION file. * 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 computeScore: no visible global function definition for ‘glm’ computeScore: no visible global function definition for ‘binomial’ computeScore: no visible global function definition for ‘AIC’ convertToDr: no visible binding for global variable ‘data’ myMean : medianM: no visible binding for global variable ‘median’ Undefined global functions or variables: AIC binomial data glm median Consider adding importFrom("stats", "AIC", "binomial", "glm", "median") importFrom("utils", "data") to your NAMESPACE file. * 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 data for ASCII and uncompressed saves ... OK * checking sizes of PDF files under ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU or elapsed time > 5s user system elapsed computeDrStat 21.952 0.989 22.941 convertToDr 6.954 0.047 7.000 * 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: 3 NOTEs See ‘/Users/biocbuild/bbs-3.9-bioc/meat/RTopper.Rcheck/00check.log’ for details.
RTopper.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL RTopper ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library’ * installing *source* package ‘RTopper’ ... ** using staged installation ** R ** data ** 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 (RTopper)
RTopper.Rcheck/RTopper-Ex.timings
name | user | system | elapsed | |
adjustPvalGSE | 0.036 | 0.007 | 0.043 | |
combineGSE | 0.015 | 0.002 | 0.017 | |
computeDrStat | 21.952 | 0.989 | 22.941 | |
convertToDr | 6.954 | 0.047 | 7.000 | |
dat | 0.104 | 0.010 | 0.113 | |
fgsList | 0.015 | 0.002 | 0.017 | |
gseResultsSep | 0.019 | 0.004 | 0.023 | |
intScores | 0.005 | 0.002 | 0.006 | |
pheno | 0.088 | 0.008 | 0.095 | |
runBatchGSE | 0.082 | 0.013 | 0.095 | |
sepScores | 0.013 | 0.002 | 0.015 | |