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This page was generated on 2021-11-26 15:05:42 -0500 (Fri, 26 Nov 2021).

BUILD BIN results for bambu on machv2

To the developers/maintainers of the bambu package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/bambu.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 110/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
bambu 2.0.1  (landing page)
Ying Chen
Snapshot Date: 2021-11-25 04:15:05 -0500 (Thu, 25 Nov 2021)
git_url: https://git.bioconductor.org/packages/bambu
git_branch: RELEASE_3_14
git_last_commit: 16a6d66
git_last_commit_date: 2021-11-22 21:16:11 -0500 (Mon, 22 Nov 2021)
nebbiolo2Linux (Ubuntu 20.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    ERROR  skippedskipped
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: bambu
Version: 2.0.1
Command: rm -rf bambu.buildbin-libdir && mkdir bambu.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh bambu_2.0.1.tar.gz /Library/Frameworks/R.framework/Resources/bin/R bambu.buildbin-libdir
StartedAt: 2021-11-25 23:25:31 -0500 (Thu, 25 Nov 2021)
EndedAt: 2021-11-25 23:26:40 -0500 (Thu, 25 Nov 2021)
EllapsedTime: 68.5 seconds
RetCode: 0
Status:   OK  
PackageFile: bambu_2.0.1.tgz
PackageFileSize: 2.942 MiB

Command output

##############################################################################
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###
### Running command:
###
###   rm -rf bambu.buildbin-libdir && mkdir bambu.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh bambu_2.0.1.tar.gz /Library/Frameworks/R.framework/Resources/bin/R bambu.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=bambu.buildbin-libdir bambu_2.0.1.tar.gz'
>>>>>>> 

* installing *source* package ‘bambu’ ...
** 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/RcppArmadillo/include' -I/usr/local/include   -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/RcppArmadillo/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c em.cpp -o em.o
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 bambu.so RcppExports.o em.o -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-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.14-bioc/meat/bambu.buildbin-libdir/00LOCK-bambu/00new/bambu/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 (bambu)


>>>>>>> 
>>>>>>> FIXING LINKS FOR bambu.buildbin-libdir/bambu/libs/bambu.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" "bambu.buildbin-libdir/bambu/libs/bambu.so"
install_name_tool -change "/usr/local/lib/libgfortran.5.dylib" "/Library/Frameworks/R.framework/Versions/4.1/Resources/lib/libgfortran.5.dylib" "bambu.buildbin-libdir/bambu/libs/bambu.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.1/Resources/lib/libquadmath.0.dylib" "bambu.buildbin-libdir/bambu/libs/bambu.so"
install_name_tool -change "/usr/local/gfortran/lib/libgfortran.5.dylib" "/Library/Frameworks/R.framework/Versions/4.1/Resources/lib/libgfortran.5.dylib" "bambu.buildbin-libdir/bambu/libs/bambu.so"
install_name_tool -change "/usr/local/gfortran/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.1/Resources/lib/libquadmath.0.dylib" "bambu.buildbin-libdir/bambu/libs/bambu.so"