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Package 49/419HostnameOS / ArchBUILDCHECKBUILD BIN
Biobase 2.10.0
Biocore Team c/o BioC user list
Snapshot Date: 2011-04-06 23:24:01 -0700 (Wed, 06 Apr 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_7/madman/Rpacks/Biobase
Last Changed Rev: 50293 / Revision: 54588
Last Changed Date: 2010-10-17 22:34:23 -0700 (Sun, 17 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 

Summary

Package: Biobase
Version: 2.10.0
Command: E:\biocbld\bbs-2.7-bioc\R\bin\R.exe CMD check --no-vignettes --timings Biobase_2.10.0.tar.gz
StartedAt: 2011-04-07 06:11:47 -0700 (Thu, 07 Apr 2011)
EndedAt: 2011-04-07 06:13:24 -0700 (Thu, 07 Apr 2011)
EllapsedTime: 97.6 seconds
RetCode: 0
Status:  OK  
CheckDir: Biobase.Rcheck
Warnings: 0

Command output

* using log directory 'E:/biocbld/bbs-2.7-bioc/meat/Biobase.Rcheck'
* using R version 2.12.2 (2011-02-25)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'Biobase/DESCRIPTION' ... OK
* this is package 'Biobase' version '2.10.0'
* 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 for unstated dependencies in examples ... 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) and $(LAPACK_LIBS) ... OK
* checking examples ... OK
* checking for unstated dependencies in tests ... 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:

* installing *source* package 'Biobase' ...
** libs
gcc -I"E:/biocbld/BBS-2˜1.7-B/R/include"         -O3 -Wall  -std=gnu99 -c Rinit.c -o Rinit.o
gcc -I"E:/biocbld/BBS-2˜1.7-B/R/include"         -O3 -Wall  -std=gnu99 -c anyMissing.c -o anyMissing.o
gcc -I"E:/biocbld/BBS-2˜1.7-B/R/include"         -O3 -Wall  -std=gnu99 -c envir.c -o envir.o
gcc -I"E:/biocbld/BBS-2˜1.7-B/R/include"         -O3 -Wall  -std=gnu99 -c matchpt.c -o matchpt.o
gcc -I"E:/biocbld/BBS-2˜1.7-B/R/include"         -O3 -Wall  -std=gnu99 -c rowMedians.c -o rowMedians.o
gcc -I"E:/biocbld/BBS-2˜1.7-B/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˜1.7-B/R/bin/i386 -lR
installing to E:/biocbld/bbs-2.7-bioc/meat/Biobase.Rcheck/Biobase/libs/i386
** 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
Aggregate0.010.000.01
ScalarObject-class0.050.000.05
addVig2Menu000
anyMissing000
biocReposList000
cache000
channel0.250.000.25
channelNames0.040.000.06
class.AnnotatedDataFrame0.050.000.05
class.ExpressionSet0.440.000.44
class.MultiSet0.060.000.06
class.NChannelSet0.350.000.34
class.Versioned0.150.000.16
class.VersionedBiobase0.060.000.06
class.Versions0.040.000.03
class.VersionsNull000
class.container000
class.eSet0.200.000.21
classVersion000
combine0.140.000.14
contents000
copyEnv000
copySubstitute0.010.000.01
createPackage0.020.000.02
data.aaMap0.020.000.01
data.geneData0.030.000.03
data.reporter000
data.sample.ExpressionSet0.030.000.03
data.sample.MultiSet000
dumpPackTxt0.000.010.06
esApply3.60.03.6
getPkgVigs0.030.020.04
isCurrent0.080.000.08
isUnique000
isVersioned0.030.000.03
lcSuffix000
listLen000
makeDataPackage0.090.010.11
matchpt0.020.000.02
multiassign000
note000
openPDF000
openVignette000
package.version000
read.AnnotatedDataFrame0.030.000.03
read.MIAME000
readExpressionSet0.170.000.17
reverseSplit000
rowMedians0.080.000.08
rowQ0.050.000.05
selectChannels0.110.000.11
selectSome000
strbreak000
subListExtract1.730.031.76
testBioCConnection0.000.000.02
updateObject0.250.000.25
updateOldESet000
validMsg000