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Back toMultiple platform build/check report for BioC 3.22:   simplified   long
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This page was generated on 2025-12-15 12:08 -0500 (Mon, 15 Dec 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble"4882
merida1macOS 12.7.6 Montereyx86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble"4673
kjohnson1macOS 13.7.5 Venturaarm644.5.2 Patched (2025-11-04 r88984) -- "[Not] Part in a Rumble"4607
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six"4671
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package1854/2361HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
RSeqAn 1.30.0  (landing page)
August Guang
Snapshot Date: 2025-12-11 13:45 -0500 (Thu, 11 Dec 2025)
git_url: https://git.bioconductor.org/packages/RSeqAn
git_branch: RELEASE_3_22
git_last_commit: 67ea6d9
git_last_commit_date: 2025-10-29 10:44:51 -0500 (Wed, 29 Oct 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 12.7.6 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.7.5 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    OK    OK  

BUILD BIN results for RSeqAn on kjohnson1

To the developers/maintainers of the RSeqAn package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/RSeqAn.git to reflect on this report. SeeTroubleshooting Build Report for more information.
- Use the followingRenviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. SeeRenviron.bioc for more information.

raw results


Summary

Package: RSeqAn
Version: 1.30.0
Command: rm -rf RSeqAn.buildbin-libdir && mkdir RSeqAn.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh RSeqAn_1.30.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R RSeqAn.buildbin-libdir
StartedAt: 2025-12-14 12:07:55 -0500 (Sun, 14 Dec 2025)
EndedAt: 2025-12-14 12:08:13 -0500 (Sun, 14 Dec 2025)
EllapsedTime: 17.8 seconds
RetCode: 0
Status:  OK  
PackageFile: RSeqAn_1.30.0.tgz
PackageFileSize: 1.713MiB

Command output

################################################################################################################################################################## Running command:######   rm -rf RSeqAn.buildbin-libdir && mkdir RSeqAn.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh RSeqAn_1.30.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R RSeqAn.buildbin-libdir###############################################################################################################################################################>>>>>>> >>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=RSeqAn.buildbin-libdir RSeqAn_1.30.0.tar.gz'>>>>>>> * installing *source* package ‘RSeqAn’ ...** this is package ‘RSeqAn’ version ‘1.30.0’** using staged installation** libsusing C++ compiler: ‘Apple clang version 15.0.0 (clang-1500.0.40.1)’using C++14using SDK: ‘MacOSX11.3.1.sdk’clang++ -arch arm64 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c RcppExports.cpp -o RcppExports.oclang++ -arch arm64 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c charstring.cpp -o charstring.oclang++ -arch arm64 -std=gnu++14 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o RSeqAn.so RcppExports.o charstring.o -F/Library/Frameworks/R.framework/.. -framework Rinstalling to /Users/biocbuild/bbs-3.22-bioc/meat/RSeqAn.buildbin-libdir/00LOCK-RSeqAn/00new/RSeqAn/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 (RSeqAn)>>>>>>> >>>>>>> FIXING PATHS TO DYNAMIC LIBRARIES FOR RSeqAn.buildbin-libdir/RSeqAn/libs/RSeqAn.so>>>>>>> >>>>>>> Paths before fix:RSeqAn.buildbin-libdir/RSeqAn/libs/RSeqAn.so:RSeqAn.so (compatibility version 0.0.0, current version 0.0.0)/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/lib/libR.dylib (compatibility version 4.5.0, current version 4.5.2)/usr/lib/libc++.1.dylib (compatibility version 1.0.0, current version 905.6.0)/usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current version 1292.100.5)>>>>>>> Fix with install_name_tool:install_name_tool -change "/usr/local/lib/libgcc_s.1.1.dylib" "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/lib/libgcc_s.1.1.dylib" "RSeqAn.buildbin-libdir/RSeqAn/libs/RSeqAn.so"install_name_tool -change "/usr/local/lib/libgfortran.5.dylib" "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/lib/libgfortran.5.dylib" "RSeqAn.buildbin-libdir/RSeqAn/libs/RSeqAn.so"install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/lib/libquadmath.0.dylib" "RSeqAn.buildbin-libdir/RSeqAn/libs/RSeqAn.so">>>>>>> Paths after fix:RSeqAn.buildbin-libdir/RSeqAn/libs/RSeqAn.so:RSeqAn.so (compatibility version 0.0.0, current version 0.0.0)/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/lib/libR.dylib (compatibility version 4.5.0, current version 4.5.2)/usr/lib/libc++.1.dylib (compatibility version 1.0.0, current version 905.6.0)/usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current version 1292.100.5)
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