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BUILD BIN report for GoogleGenomics on merida2

This page was generated on 2018-10-29 10:46:47 -0400 (Mon, 29 Oct 2018).

Package 660/1642HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
GoogleGenomics 2.3.2
Siddhartha Bagaria
Snapshot Date: 2018-10-28 16:46:29 -0400 (Sun, 28 Oct 2018)
URL: https://git.bioconductor.org/packages/GoogleGenomics
Branch: master
Last Commit: f58dcd3
Last Changed Date: 2018-08-03 09:09:20 -0400 (Fri, 03 Aug 2018)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  OK  OK  WARNINGS UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK  WARNINGS [ OK ]UNNEEDED, same version exists in internal repository

Summary

Package: GoogleGenomics
Version: 2.3.2
Command: rm -rf GoogleGenomics.buildbin-libdir && mkdir GoogleGenomics.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh GoogleGenomics_2.3.2.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R GoogleGenomics.buildbin-libdir
StartedAt: 2018-10-29 05:24:16 -0400 (Mon, 29 Oct 2018)
EndedAt: 2018-10-29 05:25:51 -0400 (Mon, 29 Oct 2018)
EllapsedTime: 95.3 seconds
RetCode: 0
Status:  OK 
PackageFile: GoogleGenomics_2.3.2.tgz
PackageFileSize: 847.5 KiB

Command output

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###
### Running command:
###
###   rm -rf GoogleGenomics.buildbin-libdir && mkdir GoogleGenomics.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh GoogleGenomics_2.3.2.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R GoogleGenomics.buildbin-libdir
###
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=GoogleGenomics.buildbin-libdir GoogleGenomics_2.3.2.tar.gz'
>>>>>>> 

* installing *source* package ‘GoogleGenomics’ ...
checking whether the C++ compiler works... yes
checking for C++ compiler default output file name... a.out
checking for suffix of executables... 
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C++ compiler... yes
checking whether clang++ accepts -g... yes
checking how to run the C++ preprocessor... clang++ -E
checking for pkg-config... 0
checking if ProtoBuf version >= 3.0.0... "yes"
checking for protoc... /usr/local/bin/protoc
checking gRPC... "no"
configure: WARNING: "
gRPC installation could not be found,
or protocol buffer library is not >= 3.0.0.
If your installation is in a non-standard location,
please see installation instructions at
https://github.com/Bioconductor/GoogleGenomics/blob/master/README.rst
"
configure: creating ./config.status
config.status: creating src/Makevars
** libs
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -I.  -I/usr/local/include   -fPIC  -Wall -g -O2 -c init.cc -o init.o
clang++ -std=gnu++11 -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 GoogleGenomics.so init.o -L/usr/local/lib -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.9-bioc/meat/GoogleGenomics.buildbin-libdir/GoogleGenomics/libs
** R
** 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
Configured public API key.
Warning: Package 'GoogleGenomics' is deprecated and will be removed from
  Bioconductor version 3.9
* DONE (GoogleGenomics)


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

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libgcc_s.1.dylib" "GoogleGenomics.buildbin-libdir/GoogleGenomics/libs//GoogleGenomics.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libgfortran.3.dylib" "GoogleGenomics.buildbin-libdir/GoogleGenomics/libs//GoogleGenomics.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libreadline.5.2.dylib" "GoogleGenomics.buildbin-libdir/GoogleGenomics/libs//GoogleGenomics.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libreadline.dylib" "GoogleGenomics.buildbin-libdir/GoogleGenomics/libs//GoogleGenomics.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libquadmath.0.dylib" "GoogleGenomics.buildbin-libdir/GoogleGenomics/libs//GoogleGenomics.so"