Back to Multiple platform build/check report for BioC 3.8 |
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This page was generated on 2019-04-16 12:00:58 -0400 (Tue, 16 Apr 2019).
Package 785/1649 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
InterMineR 1.4.1 InterMine Team
| malbec1 | Linux (Ubuntu 16.04.6 LTS) / x86_64 | OK | OK | OK | |||||||
merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | [ OK ] | OK |
Package: InterMineR |
Version: 1.4.1 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:InterMineR.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings InterMineR_1.4.1.tar.gz |
StartedAt: 2019-04-16 00:43:45 -0400 (Tue, 16 Apr 2019) |
EndedAt: 2019-04-16 00:48:35 -0400 (Tue, 16 Apr 2019) |
EllapsedTime: 289.2 seconds |
RetCode: 0 |
Status: OK |
CheckDir: InterMineR.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:InterMineR.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings InterMineR_1.4.1.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.8-bioc/meat/InterMineR.Rcheck’ * using R version 3.5.3 (2019-03-11) * using platform: x86_64-apple-darwin15.6.0 (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘InterMineR/DESCRIPTION’ ... OK * this is package ‘InterMineR’ version ‘1.4.1’ * 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: .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 ‘InterMineR’ 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 ... 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 convertToGeneAnswers: no visible binding for global variable ‘geneExpProfile’ convertToRangedSummarizedExperiment: no visible global function definition for ‘reshape’ doEnrichment: no visible global function definition for ‘URLencode’ listDatasets: no visible binding for global variable ‘child_name’ runQuery,ANY-InterMineR: no visible global function definition for ‘URLencode’ runQuery,ANY-list: no visible global function definition for ‘URLencode’ Undefined global functions or variables: URLencode child_name geneExpProfile reshape Consider adding importFrom("stats", "reshape") importFrom("utils", "URLencode") 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 files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU or elapsed time > 5s user system elapsed convertToGeneAnswers 17.460 0.288 26.932 simplifyResult 13.911 1.026 15.926 runQuery 5.580 0.410 7.126 doEnrichment 5.557 0.077 47.736 listDatasets 4.735 0.436 6.658 convertToRangedSummarizedExperiment 3.771 0.037 7.844 * 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-3.8-bioc/meat/InterMineR.Rcheck/00check.log’ for details.
InterMineR.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL InterMineR ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/3.5/Resources/library’ * installing *source* package ‘InterMineR’ ... ** 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 * DONE (InterMineR)
InterMineR.Rcheck/InterMineR-Ex.timings
name | user | system | elapsed | |
InterMineR-methods | 0.558 | 0.011 | 1.060 | |
PL_DiabetesGenes | 0.003 | 0.001 | 0.004 | |
PL_FlyTF_site_specific_TFs | 0.001 | 0.000 | 0.002 | |
convertToGRanges | 0.829 | 0.080 | 1.379 | |
convertToGeneAnswers | 17.460 | 0.288 | 26.932 | |
convertToRangedSummarizedExperiment | 3.771 | 0.037 | 7.844 | |
doEnrichment | 5.557 | 0.077 | 47.736 | |
getDatasets | 0.112 | 0.002 | 1.233 | |
getGeneIds | 0.413 | 0.006 | 3.117 | |
getModel | 1.409 | 0.029 | 2.147 | |
getRelease | 0.022 | 0.002 | 0.321 | |
getTemplateQuery | 0.025 | 0.002 | 0.342 | |
getTemplates | 0.032 | 0.003 | 0.338 | |
getVersion | 0.023 | 0.002 | 0.344 | |
getWidgets | 0.054 | 0.005 | 0.641 | |
initInterMine | 0.013 | 0.002 | 0.207 | |
listDatasets | 4.735 | 0.436 | 6.658 | |
listMines | 0.015 | 0.002 | 0.213 | |
newQuery | 0.000 | 0.000 | 0.001 | |
runQuery | 5.580 | 0.410 | 7.126 | |
setConstraints | 0.038 | 0.004 | 0.538 | |
setQuery | 0.041 | 0.006 | 0.528 | |
simplifyResult | 13.911 | 1.026 | 15.926 | |
summary | 0.030 | 0.003 | 0.330 | |