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BioC 3.6: BUILD BIN report for DOQTL on veracruz1

This page was generated on 2017-08-16 13:45:32 -0400 (Wed, 16 Aug 2017).

Package 369/1410HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
DOQTL 1.13.0
Daniel Gatti
Snapshot Date: 2017-08-15 17:18:21 -0400 (Tue, 15 Aug 2017)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/DOQTL
Last Changed Rev: 129129 / Revision: 131943
Last Changed Date: 2017-04-24 15:50:57 -0400 (Mon, 24 Apr 2017)
malbec1 Linux (Ubuntu 16.04.1 LTS) / x86_64  NotNeeded  OK  WARNINGS UNNEEDED, same version exists in internal repository
tokay1 Windows Server 2012 R2 Standard / x64  NotNeeded  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository
veracruz1 OS X 10.11.6 El Capitan / x86_64  NotNeeded  OK  WARNINGS [ OK ]UNNEEDED, same version exists in internal repository

Summary

Package: DOQTL
Version: 1.13.0
Command: rm -rf DOQTL.buildbin-libdir && mkdir DOQTL.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh DOQTL_1.13.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R DOQTL.buildbin-libdir
StartedAt: 2017-08-16 10:12:15 -0400 (Wed, 16 Aug 2017)
EndedAt: 2017-08-16 10:12:50 -0400 (Wed, 16 Aug 2017)
EllapsedTime: 34.7 seconds
RetCode: 0
Status:  OK 
PackageFile: DOQTL_1.13.0.tgz
PackageFileSize: 3.998 MiB

Command output

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###
### Running command:
###
###   rm -rf DOQTL.buildbin-libdir && mkdir DOQTL.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh DOQTL_1.13.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R DOQTL.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=DOQTL.buildbin-libdir DOQTL_1.13.0.tar.gz'
>>>>>>> 

* installing *source* package ‘DOQTL’ ...
** libs
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c DOrec.c -o DOrec.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c DOstep.c -o DOstep.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c DOstep_Rwrappers.c -o DOstep_Rwrappers.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c addlog.c -o addlog.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c emission_prob.c -o emission_prob.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c emission_prob2.c -o emission_prob2.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c filter.smooth.allele.c -o filter.smooth.allele.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c filter.smooth.intensity.c -o filter.smooth.intensity.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c init.c -o init.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c kinship.c -o kinship.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c ri4hap.c -o ri4hap.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c transition.c -o transition.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c update.alleles.c -o update.alleles.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c update.c -o update.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c viterbi.c -o viterbi.o
clang -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o DOQTL.so DOrec.o DOstep.o DOstep_Rwrappers.o addlog.o emission_prob.o emission_prob2.o filter.smooth.allele.o filter.smooth.intensity.o init.o kinship.o ri4hap.o transition.o update.alleles.o update.o viterbi.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.6-bioc/meat/DOQTL.buildbin-libdir/DOQTL/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (DOQTL)


>>>>>>> 
>>>>>>> FIXING LINKS FOR DOQTL.buildbin-libdir/DOQTL/libs//DOQTL.so
>>>>>>> 

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libgcc_s.1.dylib" "DOQTL.buildbin-libdir/DOQTL/libs//DOQTL.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libgfortran.3.dylib" "DOQTL.buildbin-libdir/DOQTL/libs//DOQTL.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libreadline.5.2.dylib" "DOQTL.buildbin-libdir/DOQTL/libs//DOQTL.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libreadline.dylib" "DOQTL.buildbin-libdir/DOQTL/libs//DOQTL.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libquadmath.0.dylib" "DOQTL.buildbin-libdir/DOQTL/libs//DOQTL.so"