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Package 170/462HostnameOS / ArchBUILDCHECKBUILD BIN
GeneAnswers 1.9.0
Gang Feng , Pan Du and Tian Xia
Snapshot Date: 2011-05-09 07:20:56 -0700 (Mon, 09 May 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/GeneAnswers
Last Changed Rev: 54802 / Revision: 55359
Last Changed Date: 2011-04-13 15:36:43 -0700 (Wed, 13 Apr 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 
pelham Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: GeneAnswers
Version: 1.9.0
Command: E:\biocbld\bbs-2.9-bioc\R\bin\R.exe CMD check --no-vignettes --timings GeneAnswers_1.9.0.tar.gz
StartedAt: 2011-05-09 13:34:21 -0700 (Mon, 09 May 2011)
EndedAt: 2011-05-09 13:42:50 -0700 (Mon, 09 May 2011)
EllapsedTime: 508.8 seconds
RetCode: 0
Status:  OK  
CheckDir: GeneAnswers.Rcheck
Warnings: 0

Command output

* using log directory 'E:/biocbld/bbs-2.9-bioc/meat/GeneAnswers.Rcheck'
* using R version 2.14.0 Under development (unstable) (2011-04-17 r55484)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* 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 37.9Mb
  sub-directories of 1Mb or more:
    data       1.5Mb
    doc        3.6Mb
    External  32.4Mb
* checking package directory ... OK
* checking for portable file names ... 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
DO0.710.000.70
DOLite0.030.000.03
DOLiteTerm000
DmIALite0.080.000.08
GeneAnswers-class24.53 0.6335.33
GeneAnswers-package20.69 0.2821.00
HsIALite0.250.000.25
MmIALite0.020.000.01
RnIALite000
buildNet20.50 0.1420.86
caBIO.PATHGenes000
caBIO2entrez000
categoryNet000
chartPlots0.010.030.22
drawTable1.860.031.97
entrez2caBIO000
geneAnnotationHeatmap000
geneAnswersBuilder21.14 0.1421.31
geneAnswersChartPlots20.70 0.1620.95
geneAnswersConceptNet20.83 0.1621.10
geneAnswersConceptRelation20.32 0.2320.59
geneAnswersConcepts21.04 0.1421.27
geneAnswersHeatmap20.69 0.1620.95
geneAnswersHomoMapping20.59 0.1420.94
geneAnswersReadable30.91 0.4531.83
geneAnswersSort20.92 0.2421.28
geneConceptNet000
geneFunSummarize6.770.237.01
getCategoryList0.230.030.41
getCategoryTerms0.080.000.11
getConceptTable1.870.001.89
getConnectedGraph18.27 0.1718.51
getDOLiteTerms000
getGOList10.82 0.2723.19
getHomoGeneIDs0.140.030.33
getMultiLayerGraphIDs19.16 0.0619.53
getNextGOIDs0.030.020.04
getPATHList0.140.000.14
getPATHTerms0.030.000.04
getREACTOMEPATHList000
getREACTOMEPATHTerms000
getSingleLayerGraphIDs000
getSymbols0.040.000.06
getTotalGeneNumber0.210.000.30
getcaBIOPATHList000
getcaBIOPATHTerms000
groupReport7.180.447.79
humanExpr0.000.010.02
humanGeneInput000
mouseExpr0.010.000.01
mouseGeneInput000
plotGeneFunSummary1.470.021.49
plotGraph7.140.197.33
plotOntologyGraph5.810.206.01
sampleGroupsData0.030.030.06
saveGeneFunSummary1.390.021.41
searchEntrez000
simplifyGeneFunSummary1.490.011.51
topCategory000
topCategoryGenes000
topDOLITE000
topDOLITEGenes0.010.000.02
topGO000
topGOGenes000
topPATH000
topPATHGenes000
topREACTOME.PATH000
topREACTOME.PATHGenes000
topcaBIO.PATH000