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BioC 3.5: BUILD BIN report for openCyto on veracruz2

This page was generated on 2017-08-16 13:31:24 -0400 (Wed, 16 Aug 2017).

Package 926/1382HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
openCyto 1.14.0
Mike Jiang
Snapshot Date: 2017-08-15 17:17:57 -0400 (Tue, 15 Aug 2017)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_5/madman/Rpacks/openCyto
Last Changed Rev: 129126 / Revision: 131943
Last Changed Date: 2017-04-24 15:25:24 -0400 (Mon, 24 Apr 2017)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
veracruz2 OS X 10.11.6 El Capitan / x86_64  OK  OK  WARNINGS [ OK ]UNNEEDED, same version exists in internal repository

Summary

Package: openCyto
Version: 1.14.0
Command: rm -rf openCyto.buildbin-libdir && mkdir openCyto.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh openCyto_1.14.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R openCyto.buildbin-libdir
StartedAt: 2017-08-16 10:49:41 -0400 (Wed, 16 Aug 2017)
EndedAt: 2017-08-16 10:50:15 -0400 (Wed, 16 Aug 2017)
EllapsedTime: 34.5 seconds
RetCode: 0
Status:  OK 
PackageFile: openCyto_1.14.0.tgz
PackageFileSize: 2.278 MiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf openCyto.buildbin-libdir && mkdir openCyto.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh openCyto_1.14.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R openCyto.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=openCyto.buildbin-libdir openCyto_1.14.0.tar.gz'
>>>>>>> 

* installing *source* package ‘openCyto’ ...
** libs
clang++  -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.4/Resources/library/Rcpp/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c RcppExports.cpp -o RcppExports.o
clang++  -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.4/Resources/library/Rcpp/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c misc.cpp -o misc.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.4/Resources/library/Rcpp/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c unlockNamespace.c -o unlockNamespace.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 openCyto.so RcppExports.o misc.o unlockNamespace.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.5-bioc/meat/openCyto.buildbin-libdir/openCyto/libs
** R
** 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
** 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
* DONE (openCyto)


>>>>>>> 
>>>>>>> FIXING LINKS FOR openCyto.buildbin-libdir/openCyto/libs//openCyto.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" "openCyto.buildbin-libdir/openCyto/libs//openCyto.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libgfortran.3.dylib" "openCyto.buildbin-libdir/openCyto/libs//openCyto.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" "openCyto.buildbin-libdir/openCyto/libs//openCyto.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libreadline.dylib" "openCyto.buildbin-libdir/openCyto/libs//openCyto.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libquadmath.0.dylib" "openCyto.buildbin-libdir/openCyto/libs//openCyto.so"