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

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### Running command:
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###   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"