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BioC 3.6: BUILD BIN report for GoogleGenomics on veracruz1

This page was generated on 2017-08-16 13:46:59 -0400 (Wed, 16 Aug 2017).

Package 580/1410HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
GoogleGenomics 1.99.1
Siddhartha Bagaria
Snapshot Date: 2017-08-15 17:18:21 -0400 (Tue, 15 Aug 2017)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/GoogleGenomics
Last Changed Rev: 131696 / Revision: 131943
Last Changed Date: 2017-08-01 14:21:18 -0400 (Tue, 01 Aug 2017)
malbec1 Linux (Ubuntu 16.04.1 LTS) / x86_64  NotNeeded  OK  ERROR 
tokay1 Windows Server 2012 R2 Standard / x64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository
veracruz1 OS X 10.11.6 El Capitan / x86_64  NotNeeded  OK  ERROR [ OK ]

Summary

Package: GoogleGenomics
Version: 1.99.1
Command: rm -rf GoogleGenomics.buildbin-libdir && mkdir GoogleGenomics.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh GoogleGenomics_1.99.1.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R GoogleGenomics.buildbin-libdir
StartedAt: 2017-08-16 10:30:44 -0400 (Wed, 16 Aug 2017)
EndedAt: 2017-08-16 10:31:04 -0400 (Wed, 16 Aug 2017)
EllapsedTime: 19.9 seconds
RetCode: 0
Status:  OK 
PackageFile: GoogleGenomics_1.99.1.tgz
PackageFileSize: 188.4 KiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf GoogleGenomics.buildbin-libdir && mkdir GoogleGenomics.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh GoogleGenomics_1.99.1.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R GoogleGenomics.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=GoogleGenomics.buildbin-libdir GoogleGenomics_1.99.1.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... "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-3.6-bioc/meat/GoogleGenomics.buildbin-libdir/GoogleGenomics/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
Configured public API key.
* 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/3.4/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/3.4/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/3.4/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/3.4/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/3.4/Resources/lib/libquadmath.0.dylib" "GoogleGenomics.buildbin-libdir/GoogleGenomics/libs//GoogleGenomics.so"