PWMEnrich 3.6.1
Robert Stojnic
| Snapshot Date: 2014-10-07 17:20:37 -0700 (Tue, 07 Oct 2014) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_14/madman/Rpacks/PWMEnrich | | Last Changed Rev: 92141 / Revision: 95116 | | Last Changed Date: 2014-07-03 08:13:42 -0700 (Thu, 03 Jul 2014) |
| zin2 | Linux (Ubuntu 12.04.4 LTS) / x86_64 | OK | OK | OK | |
| moscato2 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | OK | OK | OK | OK |
| petty | Mac OS X Snow Leopard (10.6.8) / x86_64 | OK | OK | [ OK ] | OK |
| morelia | Mac OS X Mavericks (10.9.5) / x86_64 | OK | OK | OK | OK |
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### Running command:
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### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch PWMEnrich_3.6.1.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-2.14-bioc/meat/PWMEnrich.Rcheck’
* using R version 3.1.1 (2014-07-10)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘PWMEnrich/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘PWMEnrich’ version ‘3.6.1’
* 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 ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘PWMEnrich’ can be installed ... [17s/18s] 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 sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [98s/99s] OK
Examples with CPU or elapsed time > 5s
user system
motifScores 12.654 0.057
motifEnrichment 12.255 0.029
PFMtoPWM 11.165 0.618
motifDiffEnrichment 8.275 0.017
sequenceReport-commaMotifEnrichmentResults-method 7.841 0.106
groupReport-commaMotifEnrichmentResults-method 7.289 0.065
plotTopMotifsGroup-commaMotifEnrichmentResults-method 6.641 0.022
plotTopMotifsSequence-commaMotifEnrichmentResults-method 6.538 0.024
motifRankingForGroup-commaMotifEnrichmentResults-method 6.096 0.013
motifRankingForSequence-commaMotifEnrichmentResults-method 6.055 0.016
elapsed
motifScores 12.797
motifEnrichment 12.476
PFMtoPWM 12.184
motifDiffEnrichment 8.361
sequenceReport-commaMotifEnrichmentResults-method 8.038
groupReport-commaMotifEnrichmentResults-method 7.472
plotTopMotifsGroup-commaMotifEnrichmentResults-method 6.758
plotTopMotifsSequence-commaMotifEnrichmentResults-method 6.625
motifRankingForGroup-commaMotifEnrichmentResults-method 6.135
motifRankingForSequence-commaMotifEnrichmentResults-method 6.104
* checking for unstated dependencies in tests ... OK
* checking tests ...
Running ‘test-all.R’ [17s/17s]
[17s/18s] 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