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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 12:07 -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

Package2132/2361HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
STADyUM 1.0.2  (landing page)
Rebecca Hassett
Snapshot Date: 2025-12-11 13:45 -0500 (Thu, 11 Dec 2025)
git_url: https://git.bioconductor.org/packages/STADyUM
git_branch: RELEASE_3_22
git_last_commit: 40b561d
git_last_commit_date: 2025-12-04 12:01:37 -0500 (Thu, 04 Dec 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 STADyUM on merida1

To the developers/maintainers of the STADyUM package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/STADyUM.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: STADyUM
Version: 1.0.2
Command: rm -rf STADyUM.buildbin-libdir && mkdir STADyUM.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh STADyUM_1.0.2.tar.gz /Library/Frameworks/R.framework/Resources/bin/R STADyUM.buildbin-libdir
StartedAt: 2025-12-12 15:53:32 -0500 (Fri, 12 Dec 2025)
EndedAt: 2025-12-12 15:55:12 -0500 (Fri, 12 Dec 2025)
EllapsedTime: 99.5 seconds
RetCode: 0
Status:  OK  
PackageFile: STADyUM_1.0.2.tgz
PackageFileSize: 3.153MiB

Command output

################################################################################################################################################################## Running command:######   rm -rf STADyUM.buildbin-libdir && mkdir STADyUM.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh STADyUM_1.0.2.tar.gz /Library/Frameworks/R.framework/Resources/bin/R STADyUM.buildbin-libdir###############################################################################################################################################################>>>>>>> >>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=STADyUM.buildbin-libdir STADyUM_1.0.2.tar.gz'>>>>>>> * installing *source* package ‘STADyUM’ ...** this is package ‘STADyUM’ version ‘1.0.2’** using staged installation** libsusing C++ compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’using SDK: ‘MacOSX11.3.1.sdk’clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/Rcpp/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c RcppExports.cpp -o RcppExports.oclang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/Rcpp/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c simPol.cpp -o simPol.oclang++ -arch x86_64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/x86_64/lib -o STADyUM.so RcppExports.o simPol.o -F/Library/Frameworks/R.framework/.. -framework Rinstalling to /Users/biocbuild/bbs-3.22-bioc/meat/STADyUM.buildbin-libdir/00LOCK-STADyUM/00new/STADyUM/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 (STADyUM)>>>>>>> >>>>>>> FIXING PATHS TO DYNAMIC LIBRARIES FOR STADyUM.buildbin-libdir/STADyUM/libs/STADyUM.so>>>>>>> >>>>>>> Paths before fix:STADyUM.buildbin-libdir/STADyUM/libs/STADyUM.so:STADyUM.so (compatibility version 0.0.0, current version 0.0.0)/Library/Frameworks/R.framework/Versions/4.5-x86_64/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-x86_64/Resources/lib/libgcc_s.1.1.dylib" "STADyUM.buildbin-libdir/STADyUM/libs/STADyUM.so"install_name_tool -change "/usr/local/lib/libgfortran.5.dylib" "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/lib/libgfortran.5.dylib" "STADyUM.buildbin-libdir/STADyUM/libs/STADyUM.so"install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/lib/libquadmath.0.dylib" "STADyUM.buildbin-libdir/STADyUM/libs/STADyUM.so">>>>>>> Paths after fix:STADyUM.buildbin-libdir/STADyUM/libs/STADyUM.so:STADyUM.so (compatibility version 0.0.0, current version 0.0.0)/Library/Frameworks/R.framework/Versions/4.5-x86_64/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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