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| Package 13/234 | Hostname | OS | Arch | BUILD | CHECK | BUILD BIN |
| affyPLM 1.14.0 Ben Bolstad Last Changed Date: 2007-10-02 17:41:09 -0700 Last Changed Rev: 27709 | lamb1 | Linux (SUSE 10.1) | x86_64 | OK | OK | |
| wellington | Linux (SUSE 9.2) | i686 | OK | OK | ||
| liverpool | Windows Server 2003 R2 (32-bit) | x64 | OK | OK | OK | |
| pitt | Mac OS X (10.4.10) | i386 | [ OK ] | OK | OK |
| Package: affyPLM |
| Version: 1.14.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build affyPLM |
| RetCode: 0 |
| Time: 341.1 seconds |
| Status: OK |
| PackageFile: affyPLM_1.14.0.tar.gz |
* checking for file 'affyPLM/DESCRIPTION' ... OK
* preparing 'affyPLM':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* checking whether 'INDEX' is up-to-date ... NO
* use '--force' to overwrite the existing 'INDEX'
* installing the package to re-build vignettes
* Installing *source* package 'affyPLM' ...
** libs
** arch - i386
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c LESN.c -o LESN.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c PLM_avg_log.c -o PLM_avg_log.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c PLM_biweight.c -o PLM_biweight.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c PLM_log_avg.c -o PLM_log_avg.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c PLM_medianPM.c -o PLM_medianPM.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c PLM_median_logPM.c -o PLM_median_logPM.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c PLM_medianpolish.c -o PLM_medianpolish.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c PLM_modelmatrix.c -o PLM_modelmatrix.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c SCAB.c -o SCAB.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c chipbackground.c -o chipbackground.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c common_types.c -o common_types.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c do_PLMrlm.c -o do_PLMrlm.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c do_PLMrma.c -o do_PLMrma.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c do_PLMthreestep.c -o do_PLMthreestep.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c idealmismatch.c -o idealmismatch.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c lm_threestep.c -o lm_threestep.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c matrix_functions.c -o matrix_functions.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c nthLargestPM.c -o nthLargestPM.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c preprocess.c -o preprocess.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c psi_fns.c -o psi_fns.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c qnorm_probeset.c -o qnorm_probeset.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c read_rmaexpress.c -o read_rmaexpress.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c rlm_PLM.c -o rlm_PLM.o
rlm_PLM.c:99: warning: 'rlmPLM_alloc_space' defined but not used
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c rlm_threestep.c -o rlm_threestep.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c rmaPLM_pseudo.c -o rmaPLM_pseudo.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c rma_PLM.c -o rma_PLM.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c rma_background2.c -o rma_background2.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c rma_common.c -o rma_common.o
rma_common.c: In function 'median':
rma_common.c:60: warning: unused variable 'i'
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c scaling.c -o scaling.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c threestep.c -o threestep.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c threestep_PLM.c -o threestep_PLM.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c threestep_common.c -o threestep_common.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c threestep_summary.c -o threestep_summary.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c threestep_summary_methods.c -o threestep_summary_methods.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c transfns.c -o transfns.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -march=nocona -c weightedkerneldensity.c -o weightedkerneldensity.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -dynamiclib -Wl,-macosx_version_min -Wl,10.3 -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_background2.o rma_common.o scaling.o threestep.o threestep_PLM.o threestep_common.o threestep_summary.o threestep_summary_methods.o transfns.o weightedkerneldensity.o -L/usr/local/lib/gcc/i686-apple-darwin8/4.2.1 -lgfortran -lgcc_s.10.4 -L/Library/Frameworks/R.framework/Resources/lib/i386 -lRlapack -L/Library/Frameworks/R.framework/Resources/lib/i386 -lRblas -F/Library/Frameworks/R.framework/.. -framework R
** arch - ppc
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c LESN.c -o LESN.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c PLM_avg_log.c -o PLM_avg_log.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c PLM_biweight.c -o PLM_biweight.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c PLM_log_avg.c -o PLM_log_avg.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c PLM_medianPM.c -o PLM_medianPM.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c PLM_median_logPM.c -o PLM_median_logPM.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c PLM_medianpolish.c -o PLM_medianpolish.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c PLM_modelmatrix.c -o PLM_modelmatrix.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c SCAB.c -o SCAB.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c chipbackground.c -o chipbackground.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c common_types.c -o common_types.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c do_PLMrlm.c -o do_PLMrlm.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c do_PLMrma.c -o do_PLMrma.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c do_PLMthreestep.c -o do_PLMthreestep.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c idealmismatch.c -o idealmismatch.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c lm_threestep.c -o lm_threestep.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c matrix_functions.c -o matrix_functions.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c nthLargestPM.c -o nthLargestPM.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c preprocess.c -o preprocess.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c psi_fns.c -o psi_fns.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c qnorm_probeset.c -o qnorm_probeset.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c read_rmaexpress.c -o read_rmaexpress.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c rlm_PLM.c -o rlm_PLM.o
rlm_PLM.c:99: warning: 'rlmPLM_alloc_space' defined but not used
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c rlm_threestep.c -o rlm_threestep.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c rmaPLM_pseudo.c -o rmaPLM_pseudo.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c rma_PLM.c -o rma_PLM.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c rma_background2.c -o rma_background2.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c rma_common.c -o rma_common.o
rma_common.c: In function 'median':
rma_common.c:60: warning: unused variable 'i'
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c scaling.c -o scaling.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c threestep.c -o threestep.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c threestep_PLM.c -o threestep_PLM.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c threestep_common.c -o threestep_common.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c threestep_summary.c -o threestep_summary.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c threestep_summary_methods.c -o threestep_summary_methods.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c transfns.c -o transfns.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/preprocessCore/include" -fPIC -g -O2 -Wall -c weightedkerneldensity.c -o weightedkerneldensity.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -dynamiclib -Wl,-macosx_version_min -Wl,10.3 -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_background2.o rma_common.o scaling.o threestep.o threestep_PLM.o threestep_common.o threestep_summary.o threestep_summary_methods.o transfns.o weightedkerneldensity.o -L/usr/local/lib/gcc/powerpc-apple-darwin8/4.2.1 -lgfortran -lgcc_s.10.4 -lSystemStubs -L/Library/Frameworks/R.framework/Resources/lib/ppc -lRlapack -L/Library/Frameworks/R.framework/Resources/lib/ppc -lRblas -F/Library/Frameworks/R.framework/.. -framework R
** R
** inst
** preparing package for lazy loading
Loading required package: affy
Loading required package: Biobase
Loading required package: tools
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: affyio
Loading required package: preprocessCore
Loading required package: gcrma
Loading required package: matchprobes
Loading required package: splines
Creating a new generic function for "weights" in "affyPLM"
Creating a new generic function for "summary" in "affyPLM"
Creating a new generic function for "resid" in "affyPLM"
Creating a new generic function for "residuals" in "affyPLM"
** help
>>> Building/Updating help pages for package 'affyPLM'
Formats: text html latex example
MAplot text html latex
PLMset-class text html latex example
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
pseudo text html latex example
rmaPLM text html latex example
threestep text html latex example
threestepPLM text html latex example
** building package indices ...
* DONE (affyPLM)
* creating vignettes ... OK
* cleaning src
* removing junk files
* checking for LF line-endings in source and make files
* checking for empty or unneeded directories
* building 'affyPLM_1.14.0.tar.gz'