Back to Multiple platform build/check report for BioC 3.10
ABCDEFGHIJKLMNO[P]QRSTUVWXYZ

BUILD BIN report for phenopath on merida1

This page was generated on 2020-04-15 12:45:39 -0400 (Wed, 15 Apr 2020).

Package 1256/1823HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
phenopath 1.10.0
Kieran Campbell
Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020)
URL: https://git.bioconductor.org/packages/phenopath
Branch: RELEASE_3_10
Last Commit: 0ff6e18
Last Changed Date: 2019-10-29 13:10:31 -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  OK [ OK ]UNNEEDED, same version exists in internal repository

Summary

Package: phenopath
Version: 1.10.0
Command: rm -rf phenopath.buildbin-libdir && mkdir phenopath.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh phenopath_1.10.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R phenopath.buildbin-libdir
StartedAt: 2020-04-15 08:20:01 -0400 (Wed, 15 Apr 2020)
EndedAt: 2020-04-15 08:20:57 -0400 (Wed, 15 Apr 2020)
EllapsedTime: 55.3 seconds
RetCode: 0
Status:  OK 
PackageFile: phenopath_1.10.0.tgz
PackageFileSize: 1.018 MiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf phenopath.buildbin-libdir && mkdir phenopath.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh phenopath_1.10.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R phenopath.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=phenopath.buildbin-libdir phenopath_1.10.0.tar.gz'
>>>>>>> 

* installing *source* package ‘phenopath’ ...
** 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" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include  -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" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include  -fPIC  -Wall -g -O2  -c cavi.cpp -o cavi.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 phenopath.so RcppExports.o cavi.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.10-bioc/meat/phenopath.buildbin-libdir/00LOCK-phenopath/00new/phenopath/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 (phenopath)


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