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BioC 3.3: BUILD BIN report for LVSmiRNA on oaxaca

This page was generated on 2016-10-13 12:57:25 -0700 (Thu, 13 Oct 2016).

Package 643/1210HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
LVSmiRNA 1.22.0
Stefano Calza
Snapshot Date: 2016-10-12 17:20:15 -0700 (Wed, 12 Oct 2016)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_3/madman/Rpacks/LVSmiRNA
Last Changed Rev: 117079 / Revision: 122332
Last Changed Date: 2016-05-03 14:20:18 -0700 (Tue, 03 May 2016)
zin2 Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK [ OK ]UNNEEDED, same version exists in internal repository

Summary

Package: LVSmiRNA
Version: 1.22.0
Command: rm -rf LVSmiRNA.buildbin-libdir && mkdir LVSmiRNA.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh LVSmiRNA_1.22.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R LVSmiRNA.buildbin-libdir
StartedAt: 2016-10-13 07:44:30 -0700 (Thu, 13 Oct 2016)
EndedAt: 2016-10-13 07:44:39 -0700 (Thu, 13 Oct 2016)
EllapsedTime: 9.4 seconds
RetCode: 0
Status:  OK 
PackageFile: LVSmiRNA_1.22.0.tgz
PackageFileSize: 551.1 KiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf LVSmiRNA.buildbin-libdir && mkdir LVSmiRNA.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh LVSmiRNA_1.22.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R LVSmiRNA.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=LVSmiRNA.buildbin-libdir LVSmiRNA_1.22.0.tar.gz'
>>>>>>> 

* installing *source* package ‘LVSmiRNA’ ...
** libs
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c basic_fns.c -o basic_fns.o
basic_fns.c:146:7: warning: unused variable 'i' [-Wunused-variable]
  int i;
      ^
1 warning generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c init.c -o init.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c lvs_rlm.c -o lvs_rlm.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 LVSmiRNA.so basic_fns.o init.o lvs_rlm.o -L/usr/local/lib/gcc/x86_64-apple-darwin13.0.0/4.8.2 -lgfortran -lquadmath -lm -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.3-bioc/meat/LVSmiRNA.buildbin-libdir/LVSmiRNA/libs
** R
** data
** inst
** preparing package for lazy loading
No methods found in "BiocGenerics" for requests: as.vector, unlist
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
No methods found in "BiocGenerics" for requests: as.vector, unlist
* DONE (LVSmiRNA)


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

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.3/Resources/lib/libgcc_s.1.dylib" "LVSmiRNA.buildbin-libdir/LVSmiRNA/libs//LVSmiRNA.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.3/Resources/lib/libgfortran.3.dylib" "LVSmiRNA.buildbin-libdir/LVSmiRNA/libs//LVSmiRNA.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.3/Resources/lib/libreadline.5.2.dylib" "LVSmiRNA.buildbin-libdir/LVSmiRNA/libs//LVSmiRNA.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.3/Resources/lib/libreadline.dylib" "LVSmiRNA.buildbin-libdir/LVSmiRNA/libs//LVSmiRNA.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.3/Resources/lib/libquadmath.0.dylib" "LVSmiRNA.buildbin-libdir/LVSmiRNA/libs//LVSmiRNA.so"