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BioC 3.5: BUILD BIN report for LINC on toluca2

This page was generated on 2017-04-23 14:42:06 -0400 (Sun, 23 Apr 2017).

Package 714/1377HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
LINC 1.3.2
Manuel Goepferich
Snapshot Date: 2017-04-22 17:18:01 -0400 (Sat, 22 Apr 2017)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/LINC
Last Changed Rev: 127491 / Revision: 129046
Last Changed Date: 2017-03-18 12:04:25 -0400 (Sat, 18 Mar 2017)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository
toluca2 Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK [ OK ]
veracruz2 OS X 10.11.6 El Capitan / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: LINC
Version: 1.3.2
Command: rm -rf LINC.buildbin-libdir && mkdir LINC.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh LINC_1.3.2.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R LINC.buildbin-libdir
StartedAt: 2017-04-23 12:16:20 -0400 (Sun, 23 Apr 2017)
EndedAt: 2017-04-23 12:16:59 -0400 (Sun, 23 Apr 2017)
EllapsedTime: 38.9 seconds
RetCode: 0
Status:  OK 
PackageFile: LINC_1.3.2.tgz
PackageFileSize: 4.861 MiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf LINC.buildbin-libdir && mkdir LINC.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh LINC_1.3.2.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R LINC.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=LINC.buildbin-libdir LINC_1.3.2.tar.gz'
>>>>>>> 

* installing *source* package ‘LINC’ ...
** 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 -I/usr/local/include/freetype2 -I/opt/X11/include   -fPIC  -Wall -mtune=core2 -g -O2  -c Cppspear.cpp -o Cppspear.o
Cppspear.cpp:78:14: warning: unused variable 'qspear' [-Wunused-variable]
      double qspear;double nfraction;
             ^
1 warning generated.
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 -I/usr/local/include/freetype2 -I/opt/X11/include   -fPIC  -Wall -mtune=core2 -g -O2  -c LINC_init.c -o LINC_init.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 -I/usr/local/include/freetype2 -I/opt/X11/include   -fPIC  -Wall -mtune=core2 -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 -I/usr/local/include/freetype2 -I/opt/X11/include   -fPIC  -Wall -mtune=core2 -g -O2  -c docdd.cpp -o docdd.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 -I/usr/local/include/freetype2 -I/opt/X11/include   -fPIC  -Wall -mtune=core2 -g -O2  -c doesd.cpp -o doesd.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 LINC.so Cppspear.o LINC_init.o RcppExports.o docdd.o doesd.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.5-bioc/meat/LINC.buildbin-libdir/LINC/libs
** R
** data
** inst
** preparing package for lazy loading
Creating a new generic function for ‘history’ in package ‘LINC’
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (LINC)


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