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

BUILD BIN results for bcSeq on machv2

To the developers/maintainers of the bcSeq package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/bcSeq.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 130/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
bcSeq 1.16.0  (landing page)
Jiaxing Lin
Snapshot Date: 2021-11-25 04:15:05 -0500 (Thu, 25 Nov 2021)
git_url: https://git.bioconductor.org/packages/bcSeq
git_branch: RELEASE_3_14
git_last_commit: 7c51411
git_last_commit_date: 2021-10-26 12:40:11 -0500 (Tue, 26 Oct 2021)
nebbiolo2Linux (Ubuntu 20.04.3 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    WARNINGS    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: bcSeq
Version: 1.16.0
Command: rm -rf bcSeq.buildbin-libdir && mkdir bcSeq.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh bcSeq_1.16.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R bcSeq.buildbin-libdir
StartedAt: 2021-11-25 23:27:16 -0500 (Thu, 25 Nov 2021)
EndedAt: 2021-11-25 23:28:33 -0500 (Thu, 25 Nov 2021)
EllapsedTime: 77.3 seconds
RetCode: 0
Status:   OK  
PackageFile: bcSeq_1.16.0.tgz
PackageFileSize: 353.5 KiB

Command output

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###
### Running command:
###
###   rm -rf bcSeq.buildbin-libdir && mkdir bcSeq.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh bcSeq_1.16.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R bcSeq.buildbin-libdir
###
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=bcSeq.buildbin-libdir bcSeq_1.16.0.tar.gz'
>>>>>>> 

* installing *source* package ‘bcSeq’ ...
** using staged installation
** libs
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -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/Matrix/include' -I/usr/local/include  -pthread -fPIC  -Wall -g -O2  -c CRISPR_matching.cpp -o CRISPR_matching.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -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/Matrix/include' -I/usr/local/include  -pthread -fPIC  -Wall -g -O2  -c RcppExports.cpp -o RcppExports.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -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/Matrix/include' -I/usr/local/include  -pthread -fPIC  -Wall -g -O2  -c Trie_edit.cpp -o Trie_edit.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -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/Matrix/include' -I/usr/local/include  -pthread -fPIC  -Wall -g -O2  -c Trie_hamming.cpp -o Trie_hamming.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -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/Matrix/include' -I/usr/local/include  -pthread -fPIC  -Wall -g -O2  -c Trie_util.cpp -o Trie_util.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -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/Matrix/include' -I/usr/local/include  -pthread -fPIC  -Wall -g -O2  -c alignment.cpp -o alignment.o
clang -mmacosx-version-min=10.13 -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/Matrix/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c init.c -o init.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -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/Matrix/include' -I/usr/local/include  -pthread -fPIC  -Wall -g -O2  -c trimRead.cpp -o trimRead.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -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/Matrix/include' -I/usr/local/include  -pthread -fPIC  -Wall -g -O2  -c uniqueBar.cpp -o uniqueBar.o
clang++ -mmacosx-version-min=10.13 -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 bcSeq.so CRISPR_matching.o RcppExports.o Trie_edit.o Trie_hamming.o Trie_util.o alignment.o init.o trimRead.o uniqueBar.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.14-bioc/meat/bcSeq.buildbin-libdir/00LOCK-bcSeq/00new/bcSeq/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 (bcSeq)


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