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Package 176/479HostnameOS / ArchBUILDCHECKBUILD BIN
GeneAnswers 1.9.0
Gang Feng , Pan Du and Tian Xia
Snapshot Date: 2011-07-06 19:21:50 -0700 (Wed, 06 Jul 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/GeneAnswers
Last Changed Rev: 56090 / Revision: 56603
Last Changed Date: 2011-06-09 17:02:42 -0700 (Thu, 09 Jun 2011)
wilson2 Linux (openSUSE 11.4) / x86_64  OK [ OK ]
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  OK  OK 
gewurz Windows Server 2008 R2 Enterprise (64-bit) / x64  OK  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise (64-bit) / x64  OK  OK  OK 
pitt Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: GeneAnswers
Version: 1.9.0
Command: /home/biocbuild/bbs-2.9-bioc/R/bin/R CMD check --no-vignettes --timings GeneAnswers_1.9.0.tar.gz
StartedAt: 2011-07-07 00:34:11 -0700 (Thu, 07 Jul 2011)
EndedAt: 2011-07-07 00:42:24 -0700 (Thu, 07 Jul 2011)
EllapsedTime: 493.0 seconds
RetCode: 0
Status:  OK 
CheckDir: GeneAnswers.Rcheck
Warnings: 0

Command output

* using log directory ‘/loc/home/biocbuild/bbs-2.9-bioc/meat/GeneAnswers.Rcheck’
* using R version 2.14.0 Under development (unstable) (2011-06-15 r56138)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘GeneAnswers/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘GeneAnswers’ version ‘1.9.0’
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘GeneAnswers’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 37.7Mb
  sub-directories of 1Mb or more:
    External  32.4Mb
    data       1.5Mb
    doc        3.4Mb
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level 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 name space can be loaded with stated dependencies ... OK
* checking whether the name space can be unloaded cleanly ... OK
* checking for unstated 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 ... NOTE
prepare_Rd: DO.Rd:32-34: Dropping empty section \references
prepare_Rd: geneFunSummarize.Rd:21-23: Dropping empty section \details
prepare_Rd: plotGeneFunSummary.Rd:30-32: Dropping empty section \details
prepare_Rd: plotOntologyGraph.Rd:28-30: Dropping empty section \details
prepare_Rd: saveGeneFunSummary.Rd:18-20: Dropping empty section \details
prepare_Rd: saveGeneFunSummary.Rd:24-26: Dropping empty section \references
prepare_Rd: simplifyGeneFunSummary.Rd:18-20: Dropping empty section \details
* 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 examples ... 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 vignettes ... SKIPPED
* checking PDF version of manual ... OK

GeneAnswers.Rcheck/00install.out:

* installing *source* package ‘GeneAnswers’ ...
** R
** data
** inst
** preparing package for lazy loading
Loading required package: bitops
Loading required package: AnnotationDbi
Loading required package: Biobase

Welcome to Bioconductor

  Vignettes contain introductory material. To view, type
  'browseVignettes()'. To cite Bioconductor, see
  'citation("Biobase")' and for packages 'citation("pkgname")'.

Loading required package: DBI
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   ‘GeneAnswersCWAnnotation.Rnw’ 
   ‘geneAnswers.Rnw’ 
   ‘geneFunctionSummarize.Rnw’ 
** testing if installed package can be loaded

* DONE (GeneAnswers)

GeneAnswers.Rcheck/GeneAnswers-Ex.timings:

nameusersystemelapsed
DO0.4440.0160.464
DOLite0.0160.0040.022
DOLiteTerm0.0080.0000.004
DmIALite0.0440.0040.048
GeneAnswers-class26.909 0.54427.640
GeneAnswers-package22.850 0.15223.013
HsIALite0.1440.0000.150
MmIALite0.0080.0000.010
RnIALite0.0040.0000.007
buildNet20.393 0.21620.628
caBIO.PATHGenes000
caBIO2entrez000
categoryNet000
chartPlots0.0960.0040.105
drawTable1.4280.0081.439
entrez2caBIO000
geneAnnotationHeatmap0.0000.0000.001
geneAnswersBuilder20.734 0.21220.965
geneAnswersChartPlots19.321 0.15619.486
geneAnswersConceptNet20.025 0.21220.245
geneAnswersConceptRelation22.593 0.28022.922
geneAnswersConcepts21.346 0.27221.631
geneAnswersHeatmap19.777 0.22820.007
geneAnswersHomoMapping21.141 0.31221.461
geneAnswersReadable35.331 0.42435.775
geneAnswersSort20.249 0.25220.504
geneConceptNet000
geneFunSummarize8.0800.7648.900
getCategoryList0.3040.0040.323
getCategoryTerms0.0720.0000.072
getConceptTable1.4960.0161.514
getConnectedGraph18.946 0.31619.314
getDOLiteTerms0.0040.0040.008
getGOList11.372 0.18811.642
getHomoGeneIDs0.1640.0040.169
getMultiLayerGraphIDs20.922 0.22021.146
getNextGOIDs0.0480.0000.045
getPATHList0.1080.0040.110
getPATHTerms0.0240.0080.033
getREACTOMEPATHList0.0000.0000.001
getREACTOMEPATHTerms000
getSingleLayerGraphIDs0.0000.0000.001
getSymbols0.0240.0080.033
getTotalGeneNumber0.1880.0040.193
getcaBIOPATHList000
getcaBIOPATHTerms000
groupReport7.7800.0567.862
humanExpr0.0080.0000.008
humanGeneInput0.0040.0000.005
mouseExpr0.0080.0000.009
mouseGeneInput0.0080.0000.005
plotGeneFunSummary2.1720.0642.240
plotGraph8.5850.7369.320
plotOntologyGraph7.0080.6407.648
sampleGroupsData0.0680.0200.091
saveGeneFunSummary1.8640.0961.961
searchEntrez000
simplifyGeneFunSummary1.6240.0001.627
topCategory000
topCategoryGenes000
topDOLITE000
topDOLITEGenes000
topGO0.0000.0000.001
topGOGenes000
topPATH000
topPATHGenes000
topREACTOME.PATH000
topREACTOME.PATHGenes000
topcaBIO.PATH000