Back to the "Multiple platform build/check report" A  B  C  D  E  F  G  H  I  J  K  L  M  N  O  P  Q [R] S  T  U  V  W  X  Y  Z 

BioC 2.13: CHECK report for rBiopaxParser on zin1

This page was generated on 2014-04-05 09:48:33 -0700 (Sat, 05 Apr 2014).

Package 576/750HostnameOS / ArchBUILDCHECKBUILD BIN
rBiopaxParser 1.2.0
Frank Kramer
Snapshot Date: 2014-04-04 16:20:29 -0700 (Fri, 04 Apr 2014)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_13/madman/Rpacks/rBiopaxParser
Last Changed Rev: 81642 / Revision: 88450
Last Changed Date: 2013-10-14 14:29:21 -0700 (Mon, 14 Oct 2013)
zin1 Linux (Ubuntu 12.04.4 LTS) / x86_64  OK [ OK ]
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK 

Summary

Package: rBiopaxParser
Version: 1.2.0
Command: /home/biocbuild/bbs-2.13-bioc/R/bin/R CMD check --no-vignettes --timings rBiopaxParser_1.2.0.tar.gz
StartedAt: 2014-04-05 03:22:43 -0700 (Sat, 05 Apr 2014)
EndedAt: 2014-04-05 03:23:17 -0700 (Sat, 05 Apr 2014)
EllapsedTime: 33.2 seconds
RetCode: 0
Status:  OK 
CheckDir: rBiopaxParser.Rcheck
Warnings: 0

Command output

* using log directory ‘/home/biocbuild/bbs-2.13-bioc/meat/rBiopaxParser.Rcheck’
* using R version 3.0.3 (2014-03-06)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘rBiopaxParser/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘rBiopaxParser’ version ‘1.2.0’
* 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 ‘rBiopaxParser’ can be installed ... [1s/1s] 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking for old-style vignette sources ... NOTE
Vignette sources only in ‘inst/doc’:
  ‘rBiopaxParserVignette.Rnw’
A ‘vignettes’ directory will be required as from R 3.1.0
* checking examples ... [13s/13s] OK
* checking for unstated dependencies in tests ... OK
* checking tests ...
  Running ‘runTests.R’ [1s/1s]
 [1s/1s] 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

NOTE: There was 1 note.
See
  ‘/home/biocbuild/bbs-2.13-bioc/meat/rBiopaxParser.Rcheck/00check.log’
for details.

rBiopaxParser.Rcheck/00install.out:

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

rBiopaxParser.Rcheck/rBiopaxParser-Ex.timings:

nameusersystemelapsed
addBiochemicalReaction0.3200.0120.331
addBiopaxInstance0.0560.0000.056
addBiopaxInstances0.0840.0000.084
addControl0.3880.0000.387
addPathway0.4160.0120.432
addPathwayComponents0.4880.0000.490
addPhysicalEntity0.1000.0000.099
addPhysicalEntityParticipant0.240.000.24
addPropertiesToBiopaxInstance0.1000.0040.103
biopax0.0080.0000.011
calcGraphOverlap1.2480.0081.257
colorGraphNodes1.4520.0161.468
combineNodes0.0040.0000.004
createBiopax0.0000.0000.003
diffGraphs1.0760.0041.083
downloadBiopaxData0.0040.0000.002
getClassProperties0.0080.0000.011
getInstanceClass0.0040.0000.004
getInstanceProperty0.0080.0040.011
getReferencedIDs0.0120.0000.013
getReferencingIDs0.0160.0000.013
getSubClasses0.0040.0000.003
getSuperClasses0.0000.0000.002
getXrefAnnotations0.0440.0000.044
intersectGraphs1.0440.0001.051
listComplexComponents0.0080.0000.010
listInstances0.0200.0000.022
listInteractionComponents0.0120.0000.012
listPathwayComponents0.0080.0000.010
listPathways0.0080.0000.009
pathway2AdjacancyMatrix0.4640.0040.469
pathway2Geneset0.0920.0040.096
pathway2RegulatoryGraph0.7360.0000.736
plotRegulatoryGraph0.7440.0040.749
print.biopax0.0120.0000.009
rBiopaxParser-package0.0040.0000.002
readBiopax0.0040.0000.002
removeNodes1.1560.0001.160
selectInstances0.1080.0040.112
splitComplex0.0280.0000.028
uniteGraphs1.8560.0041.865
writeBiopax0.0040.0000.004