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Package 259/389HostnameOS / ArchBUILDCHECKBUILD BIN
oligo 1.12.2
Benilton Carvalho
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/oligo
Last Changed Rev: 48736 / Revision: 49923
Last Changed Date: 2010-08-10 03:10:00 -0700 (Tue, 10 Aug 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: oligo
Version: 1.12.2
Command: chmod a+r oligo -R && D:\biocbld\bbs-2.6-bioc\R\bin\R.exe CMD build oligo
StartedAt: 2010-10-04 13:46:34 -0700 (Mon, 04 Oct 2010)
EndedAt: 2010-10-04 13:46:49 -0700 (Mon, 04 Oct 2010)
EllapsedTime: 15.4 seconds
RetCode: 0
Status:  OK  
PackageFile: oligo_1.12.2.tar.gz
PackageFileSize: 2.316 MiB

Command output

* checking for file 'oligo/DESCRIPTION' ... OK
* preparing 'oligo':
* checking DESCRIPTION meta-information ... OK
* cleaning src
make: Nothing to be done for `clean'.
* installing the package to re-build vignettes
* installing *source* package 'oligo' ...
** libs
  making DLL ...
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.6-bioc/R/include"   -I"D:/biocbld/bbs-2.6-bioc/R/library/preprocessCore/include"      -O2 -Wall  -std=gnu99 -c ParserXYS.c -o ParserXYS.o
ParserXYS.c: In function 'read_one_xys':
ParserXYS.c:105: warning: unused variable 'token'
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.6-bioc/R/include"   -I"D:/biocbld/bbs-2.6-bioc/R/library/preprocessCore/include"      -O2 -Wall  -std=gnu99 -c baseProfile.c -o baseProfile.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.6-bioc/R/include"   -I"D:/biocbld/bbs-2.6-bioc/R/library/preprocessCore/include"      -O2 -Wall  -std=gnu99 -c basecontent.c -o basecontent.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.6-bioc/R/include"   -I"D:/biocbld/bbs-2.6-bioc/R/library/preprocessCore/include"      -O2 -Wall  -std=gnu99 -c chipbackground.c -o chipbackground.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.6-bioc/R/include"   -I"D:/biocbld/bbs-2.6-bioc/R/library/preprocessCore/include"      -O2 -Wall  -std=gnu99 -c rma2.c -o rma2.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.6-bioc/R/include"   -I"D:/biocbld/bbs-2.6-bioc/R/library/preprocessCore/include"      -O2 -Wall  -std=gnu99 -c rma_common.c -o rma_common.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.6-bioc/R/include"   -I"D:/biocbld/bbs-2.6-bioc/R/library/preprocessCore/include"      -O2 -Wall  -std=gnu99 -c trimmed.c -o trimmed.o
x86_64-w64-mingw32-gcc -shared -s -static-libgcc -o oligo.dll tmp.def ParserXYS.o baseProfile.o basecontent.o chipbackground.o rma2.o rma_common.o trimmed.o -lRzlib -LD:/biocbld/bbs-2.6-bioc/R/bin -lR
installing to D:/biocbld/bbs-2.6-bioc/tmpdir/Rinst500489459/oligo/libs/x64
  ... done
** R
** inst
** preparing package for lazy loading
Loading required package: Biobase

Welcome to Bioconductor

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

================================================================================
Welcome to oligoClasses version 1.10.0
================================================================================
Large dataset support for 'oligo/crlmm': Disabled
     - Load 'ff'
================================================================================
Parallel computing support for 'oligo/crlmm': Disabled
     - Load 'ff'
     - Load 'snow'
     - Use options(cluster=makeCluster(...))
================================================================================
in method for 'backgroundCorrect' with signature '"ff_matrix"': no definition for class "ff_matrix"
in method for 'normalize' with signature '"ff_matrix"': no definition for class "ff_matrix"
in method for 'normalizeToTarget' with signature '"ff_matrix"': no definition for class "ff_matrix"
in method for 'summarize' with signature '"ff_matrix"': no definition for class "ff_matrix"
Creating a new generic function for "boxplot" in "oligo"
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded
================================================================================
Welcome to oligo version 1.12.2
================================================================================

* DONE (oligo)
* creating vignettes ... OK
* cleaning src
make: Nothing to be done for `clean'.
* removing junk files
* checking for LF line-endings in source and make files
* checking for empty or unneeded directories
* building 'oligo_1.12.2.tar.gz'