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BioC 3.2: BUILD BIN report for flowType on oaxaca

This page was generated on 2016-04-20 11:19:57 -0700 (Wed, 20 Apr 2016).

Package 371/1103HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
flowType 2.8.2
Nima Aghaeepour
Snapshot Date: 2016-04-19 16:20:12 -0700 (Tue, 19 Apr 2016)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_2/madman/Rpacks/flowType
Last Changed Rev: 115141 / Revision: 116569
Last Changed Date: 2016-03-22 13:08:54 -0700 (Tue, 22 Mar 2016)
zin1 Linux (Ubuntu 14.04.2 LTS) / x86_64  OK  OK  WARNINGS UNNEEDED, same version exists in internal repository
moscato1 Windows Server 2008 R2 Standard (64-bit) / x64  OK  ERROR  skipped  skipped 
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  WARNINGS [ OK ]UNNEEDED, same version exists in internal repository

Summary

Package: flowType
Version: 2.8.2
Command: rm -rf flowType.buildbin-libdir && mkdir flowType.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh flowType_2.8.2.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R flowType.buildbin-libdir
StartedAt: 2016-04-20 05:59:21 -0700 (Wed, 20 Apr 2016)
EndedAt: 2016-04-20 05:59:45 -0700 (Wed, 20 Apr 2016)
EllapsedTime: 24.1 seconds
RetCode: 0
Status:  OK 
PackageFile: flowType_2.8.2.tgz
PackageFileSize: 1.109 MiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf flowType.buildbin-libdir && mkdir flowType.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh flowType_2.8.2.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R flowType.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=flowType.buildbin-libdir flowType_2.8.2.tar.gz'
>>>>>>> 

* installing *source* package ‘flowType’ ...
** libs
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.2/Resources/library/Rcpp/include" -I"/Library/Frameworks/R.framework/Versions/3.2/Resources/library/BH/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c countsAndMeans.cpp -o countsAndMeans.o
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.2/Resources/library/Rcpp/include" -I"/Library/Frameworks/R.framework/Versions/3.2/Resources/library/BH/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c flowType.cpp -o flowType.o
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.2/Resources/library/Rcpp/include" -I"/Library/Frameworks/R.framework/Versions/3.2/Resources/library/BH/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c numberGenerator.cpp -o numberGenerator.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 flowType.so countsAndMeans.o flowType.o numberGenerator.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.2-bioc/meat/flowType.buildbin-libdir/flowType/libs
** R
** data
** inst
** preparing package for lazy loading
Warning in rgl.init(initValue, onlyNULL) :
  RGL: GLX extension missing on server
Warning: 'rgl_init' failed, running with rgl.useNULL = TRUE
Creating a generic function for ‘summary’ from package ‘base’ in package ‘flowType’
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
Warning in rgl.init(initValue, onlyNULL) :
  RGL: GLX extension missing on server
Warning: 'rgl_init' failed, running with rgl.useNULL = TRUE
Warning: Package 'flowType' is deprecated and will be removed from Bioconductor
  version 3.3
* DONE (flowType)


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

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libgcc_s.1.dylib" "flowType.buildbin-libdir/flowType/libs//flowType.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libgfortran.3.dylib" "flowType.buildbin-libdir/flowType/libs//flowType.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libreadline.5.2.dylib" "flowType.buildbin-libdir/flowType/libs//flowType.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libreadline.dylib" "flowType.buildbin-libdir/flowType/libs//flowType.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libquadmath.0.dylib" "flowType.buildbin-libdir/flowType/libs//flowType.so"