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This page was generated on 2021-09-17 15:06:42 -0400 (Fri, 17 Sep 2021).

BUILD BIN results for martini on machv2

To the developers/maintainers of the martini package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/martini.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 1034/2041HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
martini 1.12.0  (landing page)
Hector Climente-Gonzalez
Snapshot Date: 2021-09-16 04:50:11 -0400 (Thu, 16 Sep 2021)
git_url: https://git.bioconductor.org/packages/martini
git_branch: RELEASE_3_13
git_last_commit: 21f22dd
git_last_commit_date: 2021-06-29 09:35:34 -0400 (Tue, 29 Jun 2021)
nebbiolo1Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: martini
Version: 1.12.0
Command: rm -rf martini.buildbin-libdir && mkdir martini.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh martini_1.12.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R martini.buildbin-libdir
StartedAt: 2021-09-17 03:05:57 -0400 (Fri, 17 Sep 2021)
EndedAt: 2021-09-17 03:07:00 -0400 (Fri, 17 Sep 2021)
EllapsedTime: 63.4 seconds
RetCode: 0
Status:   OK  
PackageFile: martini_1.12.0.tgz
PackageFileSize: 666.1 KiB

Command output

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###
### Running command:
###
###   rm -rf martini.buildbin-libdir && mkdir martini.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh martini_1.12.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R martini.buildbin-libdir
###
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=martini.buildbin-libdir martini_1.12.0.tar.gz'
>>>>>>> 

* installing *source* package ‘martini’ ...
** using staged installation
** libs
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/RcppEigen/include' -I/usr/local/include  -std=c++11  -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -U_FORTIFY_SOURCE -DBGZF_CACHE -I./lib `/Library/Frameworks/R.framework/Resources/bin/Rscript -e "Rcpp:::CxxFlags()"` -DEIGEN_PERMANENTLY_DISABLE_STUPID_WARNINGS  -fPIC  -Wall -g -O2  -c RcppExports.cpp -o RcppExports.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/RcppEigen/include' -I/usr/local/include  -std=c++11  -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -U_FORTIFY_SOURCE -DBGZF_CACHE -I./lib `/Library/Frameworks/R.framework/Resources/bin/Rscript -e "Rcpp:::CxxFlags()"` -DEIGEN_PERMANENTLY_DISABLE_STUPID_WARNINGS  -fPIC  -Wall -g -O2  -c mincut.cpp -o mincut.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/RcppEigen/include' -I/usr/local/include  -std=c++11  -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -U_FORTIFY_SOURCE -DBGZF_CACHE -I./lib `/Library/Frameworks/R.framework/Resources/bin/Rscript -e "Rcpp:::CxxFlags()"` -DEIGEN_PERMANENTLY_DISABLE_STUPID_WARNINGS  -fPIC  -Wall -g -O2  -c lib/maxflow/maxflow.cpp -o lib/maxflow/maxflow.o
ar -crus libmaxflow.a lib/maxflow/maxflow.o
cp -r lib/maxflow "/Users/biocbuild/bbs-3.13-bioc/meat/martini.buildbin-libdir/00LOCK-martini/00new/martini/include"
mkdir -p "/Users/biocbuild/bbs-3.13-bioc/meat/martini.buildbin-libdir/00LOCK-martini/00new/martini/usrlib"
cp libmaxflow.a "/Users/biocbuild/bbs-3.13-bioc/meat/martini.buildbin-libdir/00LOCK-martini/00new/martini/usrlib"
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -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 martini.so RcppExports.o mincut.o -pthread /Users/biocbuild/bbs-3.13-bioc/meat/martini.buildbin-libdir/00LOCK-martini/00new/martini/usrlib/libmaxflow.a -pthread -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.13-bioc/meat/martini.buildbin-libdir/00LOCK-martini/00new/martini/libs
** R
** data
*** moving datasets to lazyload DB
** 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 (martini)


>>>>>>> 
>>>>>>> FIXING LINKS FOR martini.buildbin-libdir/martini/libs/martini.so
>>>>>>> 

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/4.1/Resources/lib/libgcc_s.1.dylib" "martini.buildbin-libdir/martini/libs/martini.so"
install_name_tool -change "/usr/local/lib/libgfortran.5.dylib" "/Library/Frameworks/R.framework/Versions/4.1/Resources/lib/libgfortran.5.dylib" "martini.buildbin-libdir/martini/libs/martini.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.1/Resources/lib/libquadmath.0.dylib" "martini.buildbin-libdir/martini/libs/martini.so"