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Package 46/389HostnameOS / ArchBUILDCHECKBUILD BIN
Biobase 2.8.0
Biocore Team c/o BioC user list
Snapshot Date: 2010-10-04 11:22:20 -0700 (Mon, 04 Oct 2010)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_6/madman/Rpacks/Biobase
Last Changed Rev: 46401 / Revision: 49923
Last Changed Date: 2010-04-22 11:21:23 -0700 (Thu, 22 Apr 2010)
wilson1 Linux (openSUSE 11.1) / 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: Biobase
Version: 2.8.0
Command: E:\biocbld\bbs-2.6-bioc\R\bin\R.exe CMD check --no-vignettes --timings Biobase_2.8.0.tar.gz
StartedAt: 2010-10-04 17:01:24 -0700 (Mon, 04 Oct 2010)
EndedAt: 2010-10-04 17:03:07 -0700 (Mon, 04 Oct 2010)
EllapsedTime: 103.0 seconds
RetCode: 0
Status:  OK  
CheckDir: Biobase.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory 'E:/biocbld/bbs-2.6-bioc/meat/Biobase.Rcheck'
* using R version 2.11.1 (2010-05-31)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'Biobase/DESCRIPTION' ... OK
* this is package 'Biobase' version '2.8.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'Biobase' can be installed ... OK
* 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 ... NOTE
cache: no visible binding for global variable 'cache_old'
* 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 data for non-ASCII characters ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable use of $BLAS_LIBS ... OK
* checking examples ... OK
* checking tests ...
  Running 'test-rowMedians.R'
 OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK

Biobase.Rcheck/00install.out:

* install options are ' --no-html'

* installing *source* package 'Biobase' ...
** libs
  making DLL ...
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include"         -O3 -Wall  -std=gnu99 -c Rinit.c -o Rinit.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include"         -O3 -Wall  -std=gnu99 -c anyMissing.c -o anyMissing.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include"         -O3 -Wall  -std=gnu99 -c envir.c -o envir.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include"         -O3 -Wall  -std=gnu99 -c matchpt.c -o matchpt.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include"         -O3 -Wall  -std=gnu99 -c rowMedians.c -o rowMedians.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include"         -O3 -Wall  -std=gnu99 -c sublist_extract.c -o sublist_extract.o
gcc -shared -s -static-libgcc -o Biobase.dll tmp.def Rinit.o anyMissing.o envir.o matchpt.o rowMedians.o sublist_extract.o -LE:/biocbld/bbs-2.6-bioc/R/bin -lR
installing to E:/biocbld/bbs-2.6-bioc/meat/Biobase.Rcheck/Biobase/libs
  ... done
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (Biobase)

Biobase.Rcheck/Biobase-Ex.timings:

nameusersystemelapsed
Aggregate0.010.000.02
ScalarObject-class0.020.000.01
addVig2Menu000
anyMissing000
biocReposList000
cache0.000.020.01
channel0.240.020.25
channelNames0.060.000.06
class.AnnotatedDataFrame0.060.000.06
class.ExpressionSet0.500.020.52
class.MultiSet0.060.000.06
class.NChannelSet0.400.000.39
class.Versioned0.120.000.12
class.VersionedBiobase0.060.000.06
class.Versions0.010.010.03
class.VersionsNull000
class.container0.020.000.02
class.eSet0.220.000.22
classVersion000
combine0.090.000.10
contents000
copyEnv000
copySubstitute0.020.020.05
createPackage0.000.010.03
data.aaMap000
data.geneData0.030.020.05
data.reporter0.010.000.02
data.sample.ExpressionSet0.020.000.01
data.sample.MultiSet0.020.000.02
dumpPackTxt0.000.000.06
esApply2.730.022.75
getPkgVigs0.050.010.06
isCurrent0.080.000.08
isUnique000
isVersioned0.030.000.03
lcSuffix000
listLen000
makeDataPackage0.110.000.10
matchpt000
multiassign000
note000
openPDF000
openVignette000
package.version000
read.AnnotatedDataFrame0.020.000.01
read.MIAME000
readExpressionSet0.140.020.15
reverseSplit000
rowMedians0.040.000.05
rowQ0.040.000.03
selectChannels0.110.000.11
selectSome000
strbreak000
subListExtract1.850.001.86
testBioCConnection0.000.000.03
updateObject0.330.000.33
updateOldESet000
validMsg000