Back to Multiple platform build/check report for BioC 3.10
AB[C]DEFGHIJKLMNOPQRSTUVWXYZ

BUILD BIN report for cisPath on merida1

This page was generated on 2020-04-15 12:38:30 -0400 (Wed, 15 Apr 2020).

Package 294/1823HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
cisPath 1.26.0
Likun Wang
Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020)
URL: https://git.bioconductor.org/packages/cisPath
Branch: RELEASE_3_10
Last Commit: bde430e
Last Changed Date: 2019-10-29 13:08:37 -0400 (Tue, 29 Oct 2019)
malbec1 Linux (Ubuntu 18.04.4 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay1 Windows Server 2012 R2 Standard / x64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
merida1 OS X 10.11.6 El Capitan / x86_64  OK  OK  WARNINGS [ OK ]UNNEEDED, same version exists in internal repository

Summary

Package: cisPath
Version: 1.26.0
Command: rm -rf cisPath.buildbin-libdir && mkdir cisPath.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh cisPath_1.26.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R cisPath.buildbin-libdir
StartedAt: 2020-04-15 07:06:40 -0400 (Wed, 15 Apr 2020)
EndedAt: 2020-04-15 07:07:41 -0400 (Wed, 15 Apr 2020)
EllapsedTime: 60.9 seconds
RetCode: 0
Status:  OK 
PackageFile: cisPath_1.26.0.tgz
PackageFileSize: 1019 KiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf cisPath.buildbin-libdir && mkdir cisPath.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh cisPath_1.26.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R cisPath.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=cisPath.buildbin-libdir cisPath_1.26.0.tar.gz'
>>>>>>> 

* installing *source* package ‘cisPath’ ...
** using staged installation
** libs
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include  -fPIC  -Wall -g -O2  -c cisPath.cpp -o cisPath.o
cisPath.cpp:945:14: warning: explicitly assigning value of variable of type 'std::__1::string' (aka 'basic_string<char, char_traits<char>, allocator<char> >') to itself [-Wself-assign-overloaded]
        Name = Name;
        ~~~~ ^ ~~~~
1 warning 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 cisPath.so cisPath.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.10-bioc/meat/cisPath.buildbin-libdir/00LOCK-cisPath/00new/cisPath/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 (cisPath)


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