Jitao David Zhang
| Snapshot Date: 2024-11-24 13:40 -0500 (Sun, 24 Nov 2024) |
| git_url: https://git.bioconductor.org/packages/rqubic |
| git_branch: devel |
| git_last_commit: 0a9a982 |
| git_last_commit_date: 2024-10-29 09:38:00 -0500 (Tue, 29 Oct 2024) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2024-11-25 11:39 -0500 (Mon, 25 Nov 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" | 4748 |
| palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" | 4459 |
| lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4349 |
| 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 1783/2272 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| rqubic 1.53.0 (landing page) Jitao David Zhang
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | | ||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
|
To the developers/maintainers of the rqubic package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/rqubic.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: rqubic |
| Version: 1.53.0 |
| Command: rm -rf rqubic.buildbin-libdir && mkdir rqubic.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh rqubic_1.53.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R rqubic.buildbin-libdir |
| StartedAt: 2024-11-25 04:19:56 -0500 (Mon, 25 Nov 2024) |
| EndedAt: 2024-11-25 04:20:15 -0500 (Mon, 25 Nov 2024) |
| EllapsedTime: 19.3 seconds |
| RetCode: 0 |
| Status: OK |
| PackageFile: rqubic_1.53.0.tgz |
| PackageFileSize: 432.9 KiB |
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### Running command:
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### rm -rf rqubic.buildbin-libdir && mkdir rqubic.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh rqubic_1.53.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R rqubic.buildbin-libdir
###
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>>>>>>>
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=rqubic.buildbin-libdir rqubic_1.53.0.tar.gz'
>>>>>>>
* installing *source* package ‘rqubic’ ...
** using staged installation
** libs
using C compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’
using SDK: ‘MacOSX11.3.sdk’
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c bicluster.c -o bicluster.o
bicluster.c:354:15: warning: using the result of an assignment as a condition without parentheses [-Wparentheses]
if (flag=ss) (*m_cnt)++;
~~~~^~~
bicluster.c:354:15: note: place parentheses around the assignment to silence this warning
if (flag=ss) (*m_cnt)++;
^
( )
bicluster.c:354:15: note: use '==' to turn this assignment into an equality comparison
if (flag=ss) (*m_cnt)++;
^
==
1 warning generated.
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c discretize.c -o discretize.o
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c fib.c -o fib.o
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c graph.c -o graph.o
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c rqubic.c -o rqubic.o
clang -arch x86_64 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/x86_64/lib -o rqubic.so bicluster.o discretize.o fib.o graph.o rqubic.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.21-bioc/meat/rqubic.buildbin-libdir/00LOCK-rqubic/00new/rqubic/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 (rqubic)
>>>>>>>
>>>>>>> FIXING PATHS TO DYNAMIC LIBRARIES FOR rqubic.buildbin-libdir/rqubic/libs/rqubic.so
>>>>>>>
>>>>>>> Paths before fix:
rqubic.buildbin-libdir/rqubic/libs/rqubic.so:
rqubic.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 4.5.0)
/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-x86_64/Resources/lib/libgcc_s.1.1.dylib" "rqubic.buildbin-libdir/rqubic/libs/rqubic.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" "rqubic.buildbin-libdir/rqubic/libs/rqubic.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" "rqubic.buildbin-libdir/rqubic/libs/rqubic.so"
>>>>>>> Paths after fix:
rqubic.buildbin-libdir/rqubic/libs/rqubic.so:
rqubic.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 4.5.0)
/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)