Back to Multiple platform build/check report for BioC 3.21: simplified long |
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This page was generated on 2024-12-24 11:44 -0500 (Tue, 24 Dec 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" | 4754 |
palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" | 4472 |
lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4426 |
kjohnson3 | macOS 13.7.1 Ventura | arm64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4381 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" | 4373 |
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 245/2274 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
BufferedMatrix 1.71.1 (landing page) Ben Bolstad
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | WARNINGS | OK | |||||||||
kjohnson3 | macOS 13.7.1 Ventura / arm64 | OK | OK | WARNINGS | OK | |||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
To the developers/maintainers of the BufferedMatrix package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/BufferedMatrix.git to reflect on this report. See Troubleshooting Build Report for more information. - 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: BufferedMatrix |
Version: 1.71.1 |
Command: rm -rf BufferedMatrix.buildbin-libdir && mkdir BufferedMatrix.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh BufferedMatrix_1.71.1.tar.gz /Library/Frameworks/R.framework/Resources/bin/R BufferedMatrix.buildbin-libdir |
StartedAt: 2024-12-23 22:21:01 -0500 (Mon, 23 Dec 2024) |
EndedAt: 2024-12-23 22:21:05 -0500 (Mon, 23 Dec 2024) |
EllapsedTime: 4.1 seconds |
RetCode: 0 |
Status: OK |
PackageFile: BufferedMatrix_1.71.1.tgz |
PackageFileSize: 710.4 KiB |
############################################################################## ############################################################################## ### ### Running command: ### ### rm -rf BufferedMatrix.buildbin-libdir && mkdir BufferedMatrix.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh BufferedMatrix_1.71.1.tar.gz /Library/Frameworks/R.framework/Resources/bin/R BufferedMatrix.buildbin-libdir ### ############################################################################## ############################################################################## >>>>>>> >>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=BufferedMatrix.buildbin-libdir BufferedMatrix_1.71.1.tar.gz' >>>>>>> * installing *source* package ‘BufferedMatrix’ ... ** using staged installation ** libs using C compiler: ‘Apple clang version 15.0.0 (clang-1500.1.0.2.5)’ using SDK: ‘MacOSX11.3.sdk’ clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c RBufferedMatrix.c -o RBufferedMatrix.o clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c doubleBufferedMatrix.c -o doubleBufferedMatrix.o doubleBufferedMatrix.c:1580:7: warning: logical not is only applied to the left hand side of this bitwise operator [-Wlogical-not-parentheses] if (!(Matrix->readonly) & setting){ ^ ~ doubleBufferedMatrix.c:1580:7: note: add parentheses after the '!' to evaluate the bitwise operator first if (!(Matrix->readonly) & setting){ ^ ( ) doubleBufferedMatrix.c:1580:7: note: add parentheses around left hand side expression to silence this warning if (!(Matrix->readonly) & setting){ ^ ( ) doubleBufferedMatrix.c:3327:12: warning: unused function 'sort_double' [-Wunused-function] static int sort_double(const double *a1,const double *a2){ ^ 2 warnings generated. clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c doubleBufferedMatrix_C_tests.c -o doubleBufferedMatrix_C_tests.o clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c init_package.c -o init_package.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 BufferedMatrix.so RBufferedMatrix.o doubleBufferedMatrix.o doubleBufferedMatrix_C_tests.o init_package.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Users/biocbuild/bbs-3.21-bioc/meat/BufferedMatrix.buildbin-libdir/00LOCK-BufferedMatrix/00new/BufferedMatrix/libs ** R ** inst ** byte-compile and prepare package for lazy loading Creating a new generic function for ‘rowMeans’ in package ‘BufferedMatrix’ Creating a new generic function for ‘rowSums’ in package ‘BufferedMatrix’ Creating a new generic function for ‘colMeans’ in package ‘BufferedMatrix’ Creating a new generic function for ‘colSums’ in package ‘BufferedMatrix’ Creating a generic function for ‘ncol’ from package ‘base’ in package ‘BufferedMatrix’ Creating a generic function for ‘nrow’ from package ‘base’ in package ‘BufferedMatrix’ ** 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 (BufferedMatrix) >>>>>>> >>>>>>> FIXING PATHS TO DYNAMIC LIBRARIES FOR BufferedMatrix.buildbin-libdir/BufferedMatrix/libs/BufferedMatrix.so >>>>>>> >>>>>>> Paths before fix: BufferedMatrix.buildbin-libdir/BufferedMatrix/libs/BufferedMatrix.so: BufferedMatrix.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 4.5.0) /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/4.5-arm64/Resources/lib/libgcc_s.1.1.dylib" "BufferedMatrix.buildbin-libdir/BufferedMatrix/libs/BufferedMatrix.so" install_name_tool -change "/usr/local/lib/libgfortran.5.dylib" "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/lib/libgfortran.5.dylib" "BufferedMatrix.buildbin-libdir/BufferedMatrix/libs/BufferedMatrix.so" install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/lib/libquadmath.0.dylib" "BufferedMatrix.buildbin-libdir/BufferedMatrix/libs/BufferedMatrix.so" >>>>>>> Paths after fix: BufferedMatrix.buildbin-libdir/BufferedMatrix/libs/BufferedMatrix.so: BufferedMatrix.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 4.5.0) /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)