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Package 16/319HostnameOS / ArchBUILDCHECKBUILD BIN
affyPLM 1.20.0
Ben Bolstad
Bioconductor Changelog
Snapshot Date: 2009-10-20 11:27:33 -0700 (Tue, 20 Oct 2009)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_4/madman/Rpacks/affyPLM
Last Changed Rev: 39013 / Revision: 42512
Last Changed Date: 2009-04-20 16:24:12 -0700 (Mon, 20 Apr 2009)
wilson1 Linux (openSUSE 11.1) / x86_64  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  OK  OK 
pitt Mac OS X Tiger (10.4.11) / i386  OK  OK [ OK ]
pelham Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 
Package: affyPLM
Version: 1.20.0
Command: /Users/biocbuild/BBS/utils/build-universal.sh affyPLM_1.20.0.tar.gz /Library/Frameworks/R.framework/Versions/2.9/Resources/bin/R affyPLM.buildbin-libdir
StartedAt: 2009-10-20 19:21:54 -0700 (Tue, 20 Oct 2009)
EndedAt: 2009-10-20 19:22:23 -0700 (Tue, 20 Oct 2009)
EllapsedTime: 28.9 seconds
RetCode: 0
Status: OK
PackageFile: affyPLM_1.20.0.tgz
PackageFileSize: 4.879 MiB

Command output

                INSTALLATION WITH 'R CMD INSTALL --preclean --library=affyPLM.buildbin-libdir affyPLM_1.20.0.tar.gz'

* Installing *source* package ‘affyPLM’ ...
** libs
** arch - i386
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c LESN.c -o LESN.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c PLM_avg_log.c -o PLM_avg_log.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c PLM_biweight.c -o PLM_biweight.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c PLM_log_avg.c -o PLM_log_avg.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c PLM_medianPM.c -o PLM_medianPM.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c PLM_median_logPM.c -o PLM_median_logPM.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c PLM_medianpolish.c -o PLM_medianpolish.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c PLM_modelmatrix.c -o PLM_modelmatrix.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c SCAB.c -o SCAB.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c chipbackground.c -o chipbackground.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c common_types.c -o common_types.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c do_PLMrlm.c -o do_PLMrlm.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c do_PLMrma.c -o do_PLMrma.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c do_PLMthreestep.c -o do_PLMthreestep.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c idealmismatch.c -o idealmismatch.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c lm_threestep.c -o lm_threestep.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c matrix_functions.c -o matrix_functions.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c nthLargestPM.c -o nthLargestPM.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c preprocess.c -o preprocess.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c psi_fns.c -o psi_fns.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c qnorm_probeset.c -o qnorm_probeset.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c read_rmaexpress.c -o read_rmaexpress.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c rlm_PLM.c -o rlm_PLM.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c rlm_threestep.c -o rlm_threestep.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c rmaPLM_pseudo.c -o rmaPLM_pseudo.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c rma_PLM.c -o rma_PLM.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c rma_common.c -o rma_common.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c scaling.c -o scaling.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c threestep.c -o threestep.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c threestep_PLM.c -o threestep_PLM.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c threestep_common.c -o threestep_common.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c threestep_summary.c -o threestep_summary.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c threestep_summary_methods.c -o threestep_summary_methods.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -mtune=core2 -g -O2 -c transfns.c -o transfns.o
gcc -arch i386 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -mmacosx-version-min=10.4 -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o affyPLM.so LESN.o PLM_avg_log.o PLM_biweight.o PLM_log_avg.o PLM_medianPM.o PLM_median_logPM.o PLM_medianpolish.o PLM_modelmatrix.o SCAB.o chipbackground.o common_types.o do_PLMrlm.o do_PLMrma.o do_PLMthreestep.o idealmismatch.o lm_threestep.o matrix_functions.o nthLargestPM.o preprocess.o psi_fns.o qnorm_probeset.o read_rmaexpress.o rlm_PLM.o rlm_threestep.o rmaPLM_pseudo.o rma_PLM.o rma_common.o scaling.o threestep.o threestep_PLM.o threestep_common.o threestep_summary.o threestep_summary_methods.o transfns.o -lgfortran -L/Library/Frameworks/R.framework/Versions/2.9/Resources/lib/i386 -lRlapack -L/Library/Frameworks/R.framework/Versions/2.9/Resources/lib/i386 -lRblas -lz -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
** arch - ppc
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c LESN.c -o LESN.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c PLM_avg_log.c -o PLM_avg_log.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c PLM_biweight.c -o PLM_biweight.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c PLM_log_avg.c -o PLM_log_avg.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c PLM_medianPM.c -o PLM_medianPM.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c PLM_median_logPM.c -o PLM_median_logPM.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c PLM_medianpolish.c -o PLM_medianpolish.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c PLM_modelmatrix.c -o PLM_modelmatrix.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c SCAB.c -o SCAB.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c chipbackground.c -o chipbackground.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c common_types.c -o common_types.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c do_PLMrlm.c -o do_PLMrlm.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c do_PLMrma.c -o do_PLMrma.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c do_PLMthreestep.c -o do_PLMthreestep.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c idealmismatch.c -o idealmismatch.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c lm_threestep.c -o lm_threestep.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c matrix_functions.c -o matrix_functions.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c nthLargestPM.c -o nthLargestPM.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c preprocess.c -o preprocess.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c psi_fns.c -o psi_fns.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c qnorm_probeset.c -o qnorm_probeset.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c read_rmaexpress.c -o read_rmaexpress.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c rlm_PLM.c -o rlm_PLM.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c rlm_threestep.c -o rlm_threestep.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c rmaPLM_pseudo.c -o rmaPLM_pseudo.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c rma_PLM.c -o rma_PLM.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c rma_common.c -o rma_common.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c scaling.c -o scaling.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c threestep.c -o threestep.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c threestep_PLM.c -o threestep_PLM.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c threestep_common.c -o threestep_common.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c threestep_summary.c -o threestep_summary.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c threestep_summary_methods.c -o threestep_summary_methods.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.9/Resources/library/preprocessCore/include"   -fPIC  -g -O2 -c transfns.c -o transfns.o
gcc -arch ppc -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -mmacosx-version-min=10.4 -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o affyPLM.so LESN.o PLM_avg_log.o PLM_biweight.o PLM_log_avg.o PLM_medianPM.o PLM_median_logPM.o PLM_medianpolish.o PLM_modelmatrix.o SCAB.o chipbackground.o common_types.o do_PLMrlm.o do_PLMrma.o do_PLMthreestep.o idealmismatch.o lm_threestep.o matrix_functions.o nthLargestPM.o preprocess.o psi_fns.o qnorm_probeset.o read_rmaexpress.o rlm_PLM.o rlm_threestep.o rmaPLM_pseudo.o rma_PLM.o rma_common.o scaling.o threestep.o threestep_PLM.o threestep_common.o threestep_summary.o threestep_summary_methods.o transfns.o -lgfortran -lSystemStubs -L/Library/Frameworks/R.framework/Versions/2.9/Resources/lib/ppc -lRlapack -L/Library/Frameworks/R.framework/Versions/2.9/Resources/lib/ppc -lRblas -lz -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
** 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)'.

Loading required package: Biostrings
Loading required package: IRanges

Attaching package: 'IRanges'


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

	 cbind,
	 duplicated,
	 order,
	 pmax,
	 pmax.int,
	 pmin,
	 pmin.int,
	 rank,
	 rbind,
	 rep.int,
	 sapply,
	 sort,
	 table,
	 unique 

** help
*** installing help indices
 >>> Building/Updating help pages for package 'affyPLM'
     Formats: text html latex example 
Note: removing empty section \usage in file 'MAplot.Rd'
  MAplot                            text    html    latex
Note: removing empty section \examples in file 'PLMset-class.Rd'
  PLMset-class                      text    html    latex
  PLMset2exprSet                    text    html    latex   example
  ReadRMAExpress                    text    html    latex
  affyPLM-internal                  text    html    latex
  bg.correct.LESN                   text    html    latex   example
  fitPLM                            text    html    latex   example
  normalize.exprSet                 text    html    latex   example
  normalize.quantiles.probeset      text    html    latex
  normalize.scaling                 text    html    latex   example
  preprocess                        text    html    latex   example
Note: removing empty section \examples in file 'pseudo.Rd'
  pseudo                            text    html    latex
  rmaPLM                            text    html    latex   example
  threestep                         text    html    latex   example
  threestepPLM                      text    html    latex   example
** building package indices ...
* DONE (affyPLM)