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BUILD BIN report for triplex on merida2

This page was generated on 2019-04-09 13:28:08 -0400 (Tue, 09 Apr 2019).

Package 1641/1703HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
triplex 1.23.0
Jiri Hon
Snapshot Date: 2019-04-08 17:01:18 -0400 (Mon, 08 Apr 2019)
URL: https://git.bioconductor.org/packages/triplex
Branch: master
Last Commit: 3bce49e
Last Changed Date: 2018-10-30 11:54:31 -0400 (Tue, 30 Oct 2018)
malbec2 Linux (Ubuntu 18.04.2 LTS) / x86_64  OK  ERROR  skipped 
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
celaya2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK [ OK ]

Summary

Package: triplex
Version: 1.23.0
Command: rm -rf triplex.buildbin-libdir && mkdir triplex.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh triplex_1.23.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R triplex.buildbin-libdir
StartedAt: 2019-04-09 06:41:56 -0400 (Tue, 09 Apr 2019)
EndedAt: 2019-04-09 06:43:11 -0400 (Tue, 09 Apr 2019)
EllapsedTime: 75.9 seconds
RetCode: 0
Status:  OK 
PackageFile: triplex_1.23.0.tgz
PackageFileSize: 810.8 KiB

Command output

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###
### Running command:
###
###   rm -rf triplex.buildbin-libdir && mkdir triplex.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh triplex_1.23.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R triplex.buildbin-libdir
###
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=triplex.buildbin-libdir triplex_1.23.0.tar.gz'
>>>>>>> 

* installing *source* package ‘triplex’ ...
** libs
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/XVector/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Biostrings/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c Biostrings_stubs.c -o Biostrings_stubs.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/XVector/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Biostrings/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c IRanges_stubs.c -o IRanges_stubs.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/XVector/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Biostrings/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c R_init_triplex.c -o R_init_triplex.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/XVector/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Biostrings/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c XVector_stubs.c -o XVector_stubs.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/XVector/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Biostrings/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c align.c -o align.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/XVector/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Biostrings/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c align_interface.c -o align_interface.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/XVector/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Biostrings/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c dl_list.c -o dl_list.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/XVector/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Biostrings/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c interval.c -o interval.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/XVector/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Biostrings/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c libtriplex.c -o libtriplex.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/XVector/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Biostrings/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c progress.c -o progress.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/XVector/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Biostrings/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c search.c -o search.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/XVector/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Biostrings/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c search_interface.c -o search_interface.o
clang -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 triplex.so Biostrings_stubs.o IRanges_stubs.o R_init_triplex.o XVector_stubs.o align.o align_interface.o dl_list.o interval.o libtriplex.o progress.o search.o search_interface.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.9-bioc/meat/triplex.buildbin-libdir/triplex/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (triplex)


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