Back to Multiple platform build/check report for BioC 3.9
ABCDEFGHIJKLMN[O]PQRSTUVWXYZ

BUILD BIN report for OUTRIDER on celaya2

This page was generated on 2019-04-09 13:20:48 -0400 (Tue, 09 Apr 2019).

Package 1134/1703HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
OUTRIDER 1.1.4
Christian Mertes
Snapshot Date: 2019-04-08 17:01:18 -0400 (Mon, 08 Apr 2019)
URL: https://git.bioconductor.org/packages/OUTRIDER
Branch: master
Last Commit: 5245580
Last Changed Date: 2019-03-18 13:51:05 -0400 (Mon, 18 Mar 2019)
malbec2 Linux (Ubuntu 18.04.2 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
celaya2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK [ OK ]UNNEEDED, same version exists in internal repository
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK 

Summary

Package: OUTRIDER
Version: 1.1.4
Command: rm -rf OUTRIDER.buildbin-libdir && mkdir OUTRIDER.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh OUTRIDER_1.1.4.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R OUTRIDER.buildbin-libdir
StartedAt: 2019-04-09 07:29:20 -0400 (Tue, 09 Apr 2019)
EndedAt: 2019-04-09 07:30:50 -0400 (Tue, 09 Apr 2019)
EllapsedTime: 90.3 seconds
RetCode: 0
Status:  OK 
PackageFile: OUTRIDER_1.1.4.tgz
PackageFileSize: 2.215 MiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf OUTRIDER.buildbin-libdir && mkdir OUTRIDER.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh OUTRIDER_1.1.4.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R OUTRIDER.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=OUTRIDER.buildbin-libdir OUTRIDER_1.1.4.tar.gz'
>>>>>>> 

* installing *source* package ‘OUTRIDER’ ...
** using staged installation
** libs
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/RcppArmadillo/include" -I/usr/local/include -fopenmp  -fPIC  -Wall -g -O2  -c RcppExports.cpp -o RcppExports.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/RcppArmadillo/include" -I/usr/local/include -fopenmp  -fPIC  -Wall -g -O2  -c loss_n_gradient_functions.cpp -o loss_n_gradient_functions.o
loss_n_gradient_functions.cpp:41:19: warning: unused variable 'c' [-Wunused-variable]
    double b, ll, c;
                  ^
loss_n_gradient_functions.cpp:68:15: warning: unused variable 'c' [-Wunused-variable]
    double b, c;
              ^
2 warnings generated.
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 OUTRIDER.so RcppExports.o loss_n_gradient_functions.o -fopenmp -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.9-bioc/meat/OUTRIDER.buildbin-libdir/00LOCK-OUTRIDER/00new/OUTRIDER/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 from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (OUTRIDER)


>>>>>>> 
>>>>>>> FIXING LINKS FOR OUTRIDER.buildbin-libdir/OUTRIDER/libs//OUTRIDER.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" "OUTRIDER.buildbin-libdir/OUTRIDER/libs//OUTRIDER.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libgfortran.3.dylib" "OUTRIDER.buildbin-libdir/OUTRIDER/libs//OUTRIDER.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" "OUTRIDER.buildbin-libdir/OUTRIDER/libs//OUTRIDER.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libreadline.dylib" "OUTRIDER.buildbin-libdir/OUTRIDER/libs//OUTRIDER.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libquadmath.0.dylib" "OUTRIDER.buildbin-libdir/OUTRIDER/libs//OUTRIDER.so"
install_name_tool -change "/usr/local/gfortran/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libgfortran.3.dylib" "OUTRIDER.buildbin-libdir/OUTRIDER/libs//OUTRIDER.so"
install_name_tool -change "/usr/local/gfortran/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libquadmath.0.dylib" "OUTRIDER.buildbin-libdir/OUTRIDER/libs//OUTRIDER.so"