Hervé Pagès
| Snapshot Date: 2024-03-26 09:00:03 -0400 (Tue, 26 Mar 2024) |
| git_url: https://git.bioconductor.org/packages/S4Arrays |
| git_branch: RELEASE_3_18 |
| git_last_commit: 59b8f4e |
| git_last_commit_date: 2024-03-03 17:58:57 -0400 (Sun, 03 Mar 2024) |
| Back to Mac ARM64 build report for BioC 3.18 |
|
This page was generated on 2024-03-28 11:32:30 -0400 (Thu, 28 Mar 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kjohnson1 | macOS 13.6.1 Ventura | arm64 | 4.3.3 (2024-02-29) -- "Angel Food Cake" | 4376 |
| 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 | ||||
| Package 1831/2266 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| S4Arrays 1.2.1 (landing page) Hervé Pagès
| kjohnson1 | macOS 13.6.1 Ventura / arm64 | OK | OK | OK | OK | | |||||||
|
To the developers/maintainers of the S4Arrays package: - Use the following Renviron 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. See Renviron.bioc for more information. |
| Package: S4Arrays |
| Version: 1.2.1 |
| Command: rm -rf S4Arrays.buildbin-libdir && mkdir S4Arrays.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh S4Arrays_1.2.1.tar.gz /Library/Frameworks/R.framework/Resources/bin/R S4Arrays.buildbin-libdir |
| StartedAt: 2024-03-28 09:51:02 -0400 (Thu, 28 Mar 2024) |
| EndedAt: 2024-03-28 09:51:25 -0400 (Thu, 28 Mar 2024) |
| EllapsedTime: 22.5 seconds |
| RetCode: 0 |
| Status: OK |
| PackageFile: S4Arrays_1.2.1.tgz |
| PackageFileSize: 723.2 KiB |
############################################################################## ############################################################################## ### ### Running command: ### ### rm -rf S4Arrays.buildbin-libdir && mkdir S4Arrays.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh S4Arrays_1.2.1.tar.gz /Library/Frameworks/R.framework/Resources/bin/R S4Arrays.buildbin-libdir ### ############################################################################## ############################################################################## >>>>>>> >>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=S4Arrays.buildbin-libdir S4Arrays_1.2.1.tar.gz' >>>>>>> * installing *source* package ‘S4Arrays’ ... ** using staged installation ** libs using C compiler: ‘Apple clang version 15.0.0 (clang-1500.0.40.1)’ using SDK: ‘MacOSX11.3.sdk’ clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/S4Vectors/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c R_init_S4Arrays.c -o R_init_S4Arrays.o clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/S4Vectors/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c S4Vectors_stubs.c -o S4Vectors_stubs.o clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/S4Vectors/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c abind.c -o abind.o clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/S4Vectors/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c array_selection.c -o array_selection.o clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/S4Vectors/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c dim_tuning_utils.c -o dim_tuning_utils.o clang -arch arm64 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o S4Arrays.so R_init_S4Arrays.o S4Vectors_stubs.o abind.o array_selection.o dim_tuning_utils.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Users/biocbuild/bbs-3.18-bioc-mac-arm64/meat/S4Arrays.buildbin-libdir/00LOCK-S4Arrays/00new/S4Arrays/libs ** R ** inst ** byte-compile and prepare package for lazy loading Creating a new generic function for ‘rowsum’ in package ‘S4Arrays’ Creating a new generic function for ‘abind’ in package ‘S4Arrays’ ** 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 (S4Arrays) >>>>>>> >>>>>>> FIXING PATHS TO DYNAMIC LIBRARIES FOR S4Arrays.buildbin-libdir/S4Arrays/libs/S4Arrays.so >>>>>>> >>>>>>> Paths before fix: S4Arrays.buildbin-libdir/S4Arrays/libs/S4Arrays.so: S4Arrays.so (compatibility version 0.0.0, current version 0.0.0) /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib/libR.dylib (compatibility version 4.3.0, current version 4.3.3) /System/Library/Frameworks/CoreFoundation.framework/Versions/A/CoreFoundation (compatibility version 150.0.0, current version 1775.118.101) /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/4.3-arm64/Resources/lib/libgcc_s.1.1.dylib" "S4Arrays.buildbin-libdir/S4Arrays/libs/S4Arrays.so" install_name_tool -change "/usr/local/lib/libgfortran.5.dylib" "/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib/libgfortran.5.dylib" "S4Arrays.buildbin-libdir/S4Arrays/libs/S4Arrays.so" install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib/libquadmath.0.dylib" "S4Arrays.buildbin-libdir/S4Arrays/libs/S4Arrays.so" >>>>>>> Paths after fix: S4Arrays.buildbin-libdir/S4Arrays/libs/S4Arrays.so: S4Arrays.so (compatibility version 0.0.0, current version 0.0.0) /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib/libR.dylib (compatibility version 4.3.0, current version 4.3.3) /System/Library/Frameworks/CoreFoundation.framework/Versions/A/CoreFoundation (compatibility version 150.0.0, current version 1775.118.101) /usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current version 1292.100.5)