Xiuwen Zheng
| Snapshot Date: 2021-10-14 04:50:12 -0400 (Thu, 14 Oct 2021) |
| git_url: https://git.bioconductor.org/packages/SeqArray |
| git_branch: RELEASE_3_13 |
| git_last_commit: 8fa3c99 |
| git_last_commit_date: 2021-05-19 11:58:07 -0400 (Wed, 19 May 2021) |
| Back to Multiple platform build/check report for BioC 3.13 |
|
This page was generated on 2021-10-15 15:06:52 -0400 (Fri, 15 Oct 2021).
|
To the developers/maintainers of the SeqArray package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/SeqArray.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. |
| Package 1731/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| SeqArray 1.32.0 (landing page) Xiuwen Zheng
| nebbiolo1 | Linux (Ubuntu 20.04.2 LTS) / x86_64 | OK | OK | OK | | ||||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: SeqArray |
| Version: 1.32.0 |
| Command: rm -rf SeqArray.buildbin-libdir && mkdir SeqArray.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh SeqArray_1.32.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R SeqArray.buildbin-libdir |
| StartedAt: 2021-10-15 03:57:28 -0400 (Fri, 15 Oct 2021) |
| EndedAt: 2021-10-15 03:58:33 -0400 (Fri, 15 Oct 2021) |
| EllapsedTime: 64.5 seconds |
| RetCode: 0 |
| Status: OK |
| PackageFile: SeqArray_1.32.0.tgz |
| PackageFileSize: 3.826 MiB |
############################################################################## ############################################################################## ### ### Running command: ### ### rm -rf SeqArray.buildbin-libdir && mkdir SeqArray.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh SeqArray_1.32.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R SeqArray.buildbin-libdir ### ############################################################################## ############################################################################## >>>>>>> >>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=SeqArray.buildbin-libdir SeqArray_1.32.0.tar.gz' >>>>>>> * installing *source* package ‘SeqArray’ ... ** using staged installation ** libs clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/gdsfmt/include' -I/usr/local/include -fPIC -Wall -g -O2 -c ConvGDS2VCF.cpp -o ConvGDS2VCF.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/gdsfmt/include' -I/usr/local/include -fPIC -Wall -g -O2 -c ConvToGDS.cpp -o ConvToGDS.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/gdsfmt/include' -I/usr/local/include -fPIC -Wall -g -O2 -c ConvVCF2GDS.cpp -o ConvVCF2GDS.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/gdsfmt/include' -I/usr/local/include -fPIC -Wall -g -O2 -c FileMerge.cpp -o FileMerge.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/gdsfmt/include' -I/usr/local/include -fPIC -Wall -g -O2 -c GetData.cpp -o GetData.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/gdsfmt/include' -I/usr/local/include -fPIC -Wall -g -O2 -c Index.cpp -o Index.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/gdsfmt/include' -I/usr/local/include -fPIC -Wall -g -O2 -c LinkSNPRelate.cpp -o LinkSNPRelate.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/gdsfmt/include' -I/usr/local/include -fPIC -Wall -g -O2 -c Methods.cpp -o Methods.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/gdsfmt/include' -I/usr/local/include -fPIC -Wall -g -O2 -c R_SeqArray.c -o R_SeqArray.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/gdsfmt/include' -I/usr/local/include -fPIC -Wall -g -O2 -c ReadBySample.cpp -o ReadBySample.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/gdsfmt/include' -I/usr/local/include -fPIC -Wall -g -O2 -c ReadByUnit.cpp -o ReadByUnit.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/gdsfmt/include' -I/usr/local/include -fPIC -Wall -g -O2 -c ReadByVariant.cpp -o ReadByVariant.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/gdsfmt/include' -I/usr/local/include -fPIC -Wall -g -O2 -c SeqArray.cpp -o SeqArray.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/gdsfmt/include' -I/usr/local/include -fPIC -Wall -g -O2 -c pkg_test.cpp -o pkg_test.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/gdsfmt/include' -I/usr/local/include -fPIC -Wall -g -O2 -c samtools_ext.c -o samtools_ext.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/gdsfmt/include' -I/usr/local/include -fPIC -Wall -g -O2 -c vectorization.c -o vectorization.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 SeqArray.so ConvGDS2VCF.o ConvToGDS.o ConvVCF2GDS.o FileMerge.o GetData.o Index.o LinkSNPRelate.o Methods.o R_SeqArray.o ReadBySample.o ReadByUnit.o ReadByVariant.o SeqArray.o pkg_test.o samtools_ext.o vectorization.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Users/biocbuild/bbs-3.13-bioc/meat/SeqArray.buildbin-libdir/00LOCK-SeqArray/00new/SeqArray/libs ** R ** data ** 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 (SeqArray) >>>>>>> >>>>>>> FIXING LINKS FOR SeqArray.buildbin-libdir/SeqArray/libs/SeqArray.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" "SeqArray.buildbin-libdir/SeqArray/libs/SeqArray.so" install_name_tool -change "/usr/local/lib/libgfortran.5.dylib" "/Library/Frameworks/R.framework/Versions/4.1/Resources/lib/libgfortran.5.dylib" "SeqArray.buildbin-libdir/SeqArray/libs/SeqArray.so" install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.1/Resources/lib/libquadmath.0.dylib" "SeqArray.buildbin-libdir/SeqArray/libs/SeqArray.so"