| Back to Rapid builds (Linux only) of a subset of BioC 3.21 Report updated every 6 hours |
This page was generated on 2025-03-23 06:24 -0400 (Sun, 23 Mar 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| teran2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" | 869 |
| 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 90/217 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | |||||||
| gcrma 2.79.0 (landing page) Z. Wu
| teran2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | ERROR | |||||||
|
To the developers/maintainers of the gcrma 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: gcrma |
| Version: 2.79.0 |
| Command: /home/rapidbuild/bbs-3.21-bioc-rapid/R/bin/R CMD check --install=check:gcrma.install-out.txt --library=/home/rapidbuild/bbs-3.21-bioc-rapid/R/site-library --timings gcrma_2.79.0.tar.gz |
| StartedAt: 2025-03-23 06:21:08 -0400 (Sun, 23 Mar 2025) |
| EndedAt: 2025-03-23 06:21:13 -0400 (Sun, 23 Mar 2025) |
| EllapsedTime: 4.9 seconds |
| RetCode: 1 |
| Status: ERROR |
| CheckDir: gcrma.Rcheck |
| Warnings: NA |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/rapidbuild/bbs-3.21-bioc-rapid/R/bin/R CMD check --install=check:gcrma.install-out.txt --library=/home/rapidbuild/bbs-3.21-bioc-rapid/R/site-library --timings gcrma_2.79.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/media/volume/teran2_disk/rapidbuild/bbs-3.21-bioc-rapid/meat/gcrma.Rcheck’
* using R Under development (unstable) (2025-01-20 r87609)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* checking for file ‘gcrma/DESCRIPTION’ ... OK
* this is package ‘gcrma’ version ‘2.79.0’
* checking package namespace information ... OK
* checking package dependencies ...Warning: unable to access index for repository https://bioconductor.org/packages/3.20/data/annotation/src/contrib:
download from 'https://bioconductor.org/packages/3.20/data/annotation/src/contrib/PACKAGES' failed
OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘gcrma’ can be installed ... OK
* used C compiler: ‘gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0’
* checking installed package size ... OK
Warning in file.symlink(from, to) :
cannot symlink '/media/volume/teran2_disk/rapidbuild/bbs-3.21-bioc-rapid/R/site-library/rlang' to '/tmp/RtmpMRoczz/RLIBS_1af0303981859b/rlang', reason 'No space left on device'
Error in flink(where, tmplib) :
cannot link from /media/volume/teran2_disk/rapidbuild/bbs-3.21-bioc-rapid/R/site-library/rlang
Execution halted
gcrma.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/rapidbuild/bbs-3.21-bioc-rapid/R/bin/R CMD INSTALL gcrma ### ############################################################################## ############################################################################## * installing to library ‘/media/volume/teran2_disk/rapidbuild/bbs-3.21-bioc-rapid/R/site-library’ * installing *source* package ‘gcrma’ ... ** this is package ‘gcrma’ version ‘2.79.0’ ** using staged installation ** libs using C compiler: ‘gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0’ gcc -I"/home/rapidbuild/bbs-3.21-bioc-rapid/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -Werror=format-security -c baseProfile.c -o baseProfile.o gcc -I"/home/rapidbuild/bbs-3.21-bioc-rapid/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -Werror=format-security -c computeAffinities.c -o computeAffinities.o gcc -I"/home/rapidbuild/bbs-3.21-bioc-rapid/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -Werror=format-security -c postmean.c -o postmean.o gcc -shared -L/usr/local/lib -o gcrma.so baseProfile.o computeAffinities.o postmean.o installing to /media/volume/teran2_disk/rapidbuild/bbs-3.21-bioc-rapid/R/site-library/00LOCK-gcrma/00new/gcrma/libs ** R ** data ** 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 (gcrma)