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BioC 3.0: CHECK report for EnrichmentBrowser on perceval

This page was generated on 2015-04-10 10:00:22 -0700 (Fri, 10 Apr 2015).

Package 275/933HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
EnrichmentBrowser 1.0.3
Ludwig Geistlinger
Snapshot Date: 2015-04-09 16:20:12 -0700 (Thu, 09 Apr 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_0/madman/Rpacks/EnrichmentBrowser
Last Changed Rev: 99740 / Revision: 102249
Last Changed Date: 2015-02-24 01:15:02 -0800 (Tue, 24 Feb 2015)
zin1 Linux (Ubuntu 12.04.4 LTS) / x86_64  NotNeeded  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK  OK  OK 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  OK [ OK ] OK 
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK  OK 

Summary

Package: EnrichmentBrowser
Version: 1.0.3
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch EnrichmentBrowser_1.0.3.tar.gz
StartedAt: 2015-04-10 01:06:46 -0700 (Fri, 10 Apr 2015)
EndedAt: 2015-04-10 01:12:37 -0700 (Fri, 10 Apr 2015)
EllapsedTime: 351.7 seconds
RetCode: 0
Status:  OK 
CheckDir: EnrichmentBrowser.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch EnrichmentBrowser_1.0.3.tar.gz
###
##############################################################################
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* using log directory ‘/Users/biocbuild/bbs-3.0-bioc/meat/EnrichmentBrowser.Rcheck’
* using R version 3.1.3 (2015-03-09)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘EnrichmentBrowser/DESCRIPTION’ ... OK
* this is package ‘EnrichmentBrowser’ version ‘1.0.3’
* 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 ‘EnrichmentBrowser’ can be installed ... [23s/27s] 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 loading without being on the library search path ... 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 ... [93s/110s] OK
Examples with CPU or elapsed time > 5s
                        user system elapsed
ebrowser              19.490  0.524  24.624
ggea.graph            11.004  0.134  11.452
comb.ea.results       10.711  0.157  12.936
nbea                  10.067  0.141  10.963
get.kegg.genesets      8.804  0.084   9.185
compile.grn.from.kegg  7.879  0.075   8.644
plots                  7.078  0.281  13.152
* 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

EnrichmentBrowser.Rcheck/00install.out:

* installing *source* package ‘EnrichmentBrowser’ ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (EnrichmentBrowser)

EnrichmentBrowser.Rcheck/EnrichmentBrowser-Ex.timings:

nameusersystemelapsed
comb.ea.results10.711 0.15712.936
compile.grn.from.kegg7.8790.0758.644
de.ana1.2650.0191.286
download.kegg.pathways0.0010.0000.000
ea.browse2.2250.0704.567
ebrowser19.490 0.52424.624
get.kegg.genesets8.8040.0849.185
ggea.graph11.004 0.13411.452
nbea10.067 0.14110.963
plots 7.078 0.28113.152
probe.2.gene.eset0.9550.0350.993
read.eset0.6680.0250.700
sbea1.0280.0301.057