| Back to Multiple platform build/check report for BioC 3.18: simplified long |
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This page was generated on 2023-11-02 11:40:57 -0400 (Thu, 02 Nov 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 22.04.2 LTS) | x86_64 | 4.3.1 (2023-06-16) -- "Beagle Scouts" | 4729 |
| palomino4 | Windows Server 2022 Datacenter | x64 | 4.3.1 (2023-06-16 ucrt) -- "Beagle Scouts" | 4463 |
| lconway | macOS 12.6.5 Monterey | x86_64 | 4.3.1 Patched (2023-06-17 r84564) -- "Beagle Scouts" | 4478 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.3.1 (2023-06-16) -- "Beagle Scouts" | 4464 |
| 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 1311/2266 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| motifcounter 1.26.0 (landing page) Wolfgang Kopp
| nebbiolo2 | Linux (Ubuntu 22.04.2 LTS) / x86_64 | OK | OK | OK |  | ||||||||
| palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| lconway | macOS 12.6.5 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson1 | macOS 13.6.1 Ventura / arm64 | see weekly results here | ||||||||||||
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | ERROR | ||||||||||
|
To the developers/maintainers of the motifcounter package: - 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 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. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
| Package: motifcounter |
| Version: 1.26.0 |
| Command: /home/biocbuild/R/R-4.3.1/bin/R CMD INSTALL motifcounter |
| StartedAt: 2023-11-01 20:11:15 -0000 (Wed, 01 Nov 2023) |
| EndedAt: 2023-11-01 20:11:32 -0000 (Wed, 01 Nov 2023) |
| EllapsedTime: 17.5 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### /home/biocbuild/R/R-4.3.1/bin/R CMD INSTALL motifcounter
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* installing to library ‘/home/biocbuild/R/R-4.3.1/site-library’
* installing *source* package ‘motifcounter’ ...
** using staged installation
** libs
using C compiler: ‘gcc (GCC) 10.3.1’
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -c Rbackground.c -o Rbackground.o
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -c Rcombinatorial.c -o Rcombinatorial.o
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -c Rcompoundpoisson.c -o Rcompoundpoisson.o
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -c Rminmaxscore.c -o Rminmaxscore.o
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -c Roption.c -o Roption.o
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -c Roverlap.c -o Roverlap.o
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -c Rscore1d.c -o Rscore1d.o
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -c Rsequence.c -o Rsequence.o
Rsequence.c: In function ‘RscoreHistogram’:
Rsequence.c:143:21: warning: unused variable ‘noscores’ [-Wunused-variable]
143 | int mins, maxs, noscores;
| ^~~~~~~~
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -c Rsimulate.c -o Rsimulate.o
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -c background.c -o background.o
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -c combinatorial.c -o combinatorial.o
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -c compoundpoisson.c -o compoundpoisson.o
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -c markovchain.c -o markovchain.o
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -c markovchain_single.c -o markovchain_single.o
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -c matrix.c -o matrix.o
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -c mdist_register.c -o mdist_register.o
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -c minmaxscore.c -o minmaxscore.o
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -c overlap.c -o overlap.o
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -c score1d.c -o score1d.o
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -c score2d.c -o score2d.o
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -c scorefunctions.c -o scorefunctions.o
scorefunctions.c: In function ‘getPositionWeights’:
scorefunctions.c:84:22: warning: unused variable ‘cindex’ [-Wunused-variable]
84 | int j, i, index, cindex, ds;
| ^~~~~~
scorefunctions.c: In function ‘hitSequence’:
scorefunctions.c:119:17: warning: unused variable ‘cindex’ [-Wunused-variable]
119 | int s, index, cindex;
| ^~~~~~
scorefunctions.c: In function ‘scoreSequence’:
scorefunctions.c:159:19: warning: unused variable ‘cindex’ [-Wunused-variable]
159 | int s, index, cindex;
| ^~~~~~
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -c sequence.c -o sequence.o
gcc -I"/home/biocbuild/R/R-4.3.1/include" -DNDEBUG -I/usr/local/include -fopenmp -DIN_R -fPIC -g -O2 -Wall -c simulate.c -o simulate.o
gcc -shared -L/home/biocbuild/R/R-4.3.1/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 -fopenmp -L/home/biocbuild/R/R-4.3.1/lib -lR
installing to /home/biocbuild/R/R-4.3.1/site-library/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)