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Package 419/436HostnameOS / ArchBUILDCHECKBUILD BIN
topGO 2.3.1
Adrian Alexa
Snapshot Date: 2011-02-24 11:26:35 -0800 (Thu, 24 Feb 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/topGO
Last Changed Rev: 50445 / Revision: 53255
Last Changed Date: 2010-10-25 14:29:23 -0700 (Mon, 25 Oct 2010)
lamb2 Linux (openSUSE 11.2) / 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 
petty Mac OS X Snow Leopard (10.6.4) / i386  OK [ OK ] OK 

Summary

Package: topGO
Version: 2.3.1
Command: /Library/Frameworks/R.framework/Versions/2.13/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch topGO_2.3.1.tar.gz
StartedAt: 2011-02-24 17:05:52 -0800 (Thu, 24 Feb 2011)
EndedAt: 2011-02-24 17:07:37 -0800 (Thu, 24 Feb 2011)
EllapsedTime: 104.4 seconds
RetCode: 0
Status:  OK 
CheckDir: topGO.Rcheck
Warnings: 0

Command output

* using log directory '/Users/biocbuild/bbs-2.8-bioc/meat/topGO.Rcheck'
* using R version 2.13.0 Under development (unstable) (2011-01-10 r53950)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'topGO/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'topGO' version '2.3.1'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'topGO' can be installed ... OK
* 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 ... NOTE
GOSumTest,classicScore: no visible binding for global variable
  '.PERMSUM.MAT'
GOSumTest,classicScore: no visible binding for global variable
  '.PERMSUM.LOOKUP'
* 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 data for non-ASCII characters ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK

topGO.Rcheck/00install.out:

* installing *source* package 'topGO' ...
** R
** data
** inst
** preparing package for lazy loading

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: AnnotationDbi
Loading required package: DBI
Package SparseM (0.86) loaded.
	   To cite, see citation("SparseM")


Attaching package: 'SparseM'

The following object(s) are masked from 'package:base':

    backsolve

Creating a new generic function for "print" in "topGO"
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

groupGOTerms: 	GOBPTerm, GOMFTerm, GOCCTerm environments built.

* DONE (topGO)

topGO.Rcheck/topGO-Ex.timings:

nameusersystemelapsed
GOdata0.1480.0020.149
annFUN1.3040.0721.377
classicCount-class0.0010.0000.000
classicExpr-class0.0010.0010.002
classicScore-class0.0070.0000.006
dagFunctions000
diagnosticMethods0.5670.0030.571
elimExpr-class0.0010.0010.002
elimScore-class000
geneList0.0030.0010.004
getPvalues4.1290.1854.314
getSigGroups5.9840.0266.011
groupGOTerms0.4650.0080.474
inducedGraph0.0680.0000.070
parentChild-class0.0020.0000.002
printGraph-methods0.0000.0010.001
topGOdata-class6.4990.1306.629
topGOresult-class0.0430.0010.044