| Back to Multiple platform build/check report for BioC 3.15 |
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This page was generated on 2022-10-19 13:23:19 -0400 (Wed, 19 Oct 2022).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 20.04.5 LTS) | x86_64 | 4.2.1 (2022-06-23) -- "Funny-Looking Kid" | 4386 |
| palomino3 | Windows Server 2022 Datacenter | x64 | 4.2.1 (2022-06-23 ucrt) -- "Funny-Looking Kid" | 4138 |
| merida1 | macOS 10.14.6 Mojave | x86_64 | 4.2.1 (2022-06-23) -- "Funny-Looking Kid" | 4205 |
| 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 | ||||
|
To the developers/maintainers of the motifcounter package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/motifcounter.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1233/2140 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| motifcounter 1.20.0 (landing page) Wolfgang Kopp
| nebbiolo1 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | OK | OK | OK |  | ||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | ERROR | OK | |||||||||
| merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: motifcounter |
| Version: 1.20.0 |
| Command: rm -rf motifcounter.buildbin-libdir && mkdir motifcounter.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh motifcounter_1.20.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R motifcounter.buildbin-libdir |
| StartedAt: 2022-10-19 10:44:13 -0400 (Wed, 19 Oct 2022) |
| EndedAt: 2022-10-19 10:44:44 -0400 (Wed, 19 Oct 2022) |
| EllapsedTime: 30.9 seconds |
| RetCode: 0 |
| Status: OK |
| PackageFile: motifcounter_1.20.0.tgz |
| PackageFileSize: 663.1 KiB |
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### Running command:
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### rm -rf motifcounter.buildbin-libdir && mkdir motifcounter.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh motifcounter_1.20.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R motifcounter.buildbin-libdir
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>>>>>>>
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=motifcounter.buildbin-libdir motifcounter_1.20.0.tar.gz'
>>>>>>>
* installing *source* package ‘motifcounter’ ...
** using staged installation
** libs
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -DIN_R -fPIC -Wall -g -O2 -c Rbackground.c -o Rbackground.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -DIN_R -fPIC -Wall -g -O2 -c Rcombinatorial.c -o Rcombinatorial.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -DIN_R -fPIC -Wall -g -O2 -c Rcompoundpoisson.c -o Rcompoundpoisson.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -DIN_R -fPIC -Wall -g -O2 -c Rminmaxscore.c -o Rminmaxscore.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -DIN_R -fPIC -Wall -g -O2 -c Roption.c -o Roption.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -DIN_R -fPIC -Wall -g -O2 -c Roverlap.c -o Roverlap.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -DIN_R -fPIC -Wall -g -O2 -c Rscore1d.c -o Rscore1d.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -DIN_R -fPIC -Wall -g -O2 -c Rsequence.c -o Rsequence.o
Rsequence.c:143:21: warning: unused variable 'noscores' [-Wunused-variable]
int mins, maxs, noscores;
^
1 warning generated.
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -DIN_R -fPIC -Wall -g -O2 -c Rsimulate.c -o Rsimulate.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -DIN_R -fPIC -Wall -g -O2 -c background.c -o background.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -DIN_R -fPIC -Wall -g -O2 -c combinatorial.c -o combinatorial.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -DIN_R -fPIC -Wall -g -O2 -c compoundpoisson.c -o compoundpoisson.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -DIN_R -fPIC -Wall -g -O2 -c markovchain.c -o markovchain.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -DIN_R -fPIC -Wall -g -O2 -c markovchain_single.c -o markovchain_single.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -DIN_R -fPIC -Wall -g -O2 -c matrix.c -o matrix.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -DIN_R -fPIC -Wall -g -O2 -c mdist_register.c -o mdist_register.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -DIN_R -fPIC -Wall -g -O2 -c minmaxscore.c -o minmaxscore.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -DIN_R -fPIC -Wall -g -O2 -c overlap.c -o overlap.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -DIN_R -fPIC -Wall -g -O2 -c score1d.c -o score1d.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -DIN_R -fPIC -Wall -g -O2 -c score2d.c -o score2d.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -DIN_R -fPIC -Wall -g -O2 -c scorefunctions.c -o scorefunctions.o
scorefunctions.c:84:22: warning: unused variable 'cindex' [-Wunused-variable]
int j, i, index, cindex, ds;
^
scorefunctions.c:119:17: warning: unused variable 'cindex' [-Wunused-variable]
int s, index, cindex;
^
scorefunctions.c:159:19: warning: unused variable 'cindex' [-Wunused-variable]
int s, index, cindex;
^
3 warnings generated.
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -DIN_R -fPIC -Wall -g -O2 -c sequence.c -o sequence.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/include -DIN_R -fPIC -Wall -g -O2 -c simulate.c -o simulate.o
clang -mmacosx-version-min=10.13 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o motifcounter.so Rbackground.o Rcombinatorial.o Rcompoundpoisson.o Rminmaxscore.o Roption.o Roverlap.o Rscore1d.o Rsequence.o Rsimulate.o background.o combinatorial.o compoundpoisson.o markovchain.o markovchain_single.o matrix.o mdist_register.o minmaxscore.o overlap.o score1d.o score2d.o scorefunctions.o sequence.o simulate.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.15-bioc/meat/motifcounter.buildbin-libdir/00LOCK-motifcounter/00new/motifcounter/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 (motifcounter)
>>>>>>>
>>>>>>> FIXING LINKS FOR motifcounter.buildbin-libdir/motifcounter/libs/motifcounter.so
>>>>>>>
install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libgcc_s.1.dylib" "motifcounter.buildbin-libdir/motifcounter/libs/motifcounter.so"
install_name_tool -change "/usr/local/lib/libgfortran.5.dylib" "/Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libgfortran.5.dylib" "motifcounter.buildbin-libdir/motifcounter/libs/motifcounter.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libquadmath.0.dylib" "motifcounter.buildbin-libdir/motifcounter/libs/motifcounter.so"