| Back to Rapid builds (Linux only) of a subset of BioC 3.23 Report updated every 6 hours |
This page was generated on 2025-12-08 09:34 -0500 (Mon, 08 Dec 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| teran2 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | R Under development (unstable) (2025-10-28 r88973) -- "Unsuffered Consequences" | 925 |
| 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 117/230 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | |||||||
| gwascat 2.43.0 (landing page) VJ Carey
| teran2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | ERROR | |||||||
|
To the developers/maintainers of the gwascat 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: gwascat |
| Version: 2.43.0 |
| Command: /home/rapidbuild/bbs-3.23-bioc-rapid/R/bin/R CMD check --install=check:gwascat.install-out.txt --library=/home/rapidbuild/bbs-3.23-bioc-rapid/R/site-library --timings gwascat_2.43.0.tar.gz |
| StartedAt: 2025-12-08 08:32:57 -0500 (Mon, 08 Dec 2025) |
| EndedAt: 2025-12-08 08:33:02 -0500 (Mon, 08 Dec 2025) |
| EllapsedTime: 5.0 seconds |
| RetCode: 1 |
| Status: ERROR |
| CheckDir: gwascat.Rcheck |
| Warnings: NA |
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### Running command:
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### /home/rapidbuild/bbs-3.23-bioc-rapid/R/bin/R CMD check --install=check:gwascat.install-out.txt --library=/home/rapidbuild/bbs-3.23-bioc-rapid/R/site-library --timings gwascat_2.43.0.tar.gz
###
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* using log directory ‘/media/volume/teran2_disk/rapidbuild/bbs-3.23-bioc-rapid/meat/gwascat.Rcheck’
* using R Under development (unstable) (2025-10-28 r88973)
* 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 24.04.3 LTS
* using session charset: UTF-8
* checking for file ‘gwascat/DESCRIPTION’ ... OK
* this is package ‘gwascat’ version ‘2.43.0’
* package encoding: UTF-8
* checking CRAN incoming feasibility ... NOTE
Maintainer: ‘VJ Carey <stvjc@channing.harvard.edu>’
Unknown, possibly misspelled, fields in DESCRIPTION:
‘git_url’ ‘git_branch’ ‘git_last_commit’ ‘git_last_commit_date’
No Authors@R field in DESCRIPTION.
Please add one, modifying
Authors@R: person(given = "VJ",
family = "Carey",
role = c("aut", "cre"),
email = "stvjc@channing.harvard.edu")
as necessary.
The Title field should be in title case. Current version is:
‘representing and modeling data in the EMBL-EBI GWAS catalog’
In title case that is:
‘Representing and Modeling Data in the EMBL-EBI GWAS Catalog’
Size of tarball: 35610970 bytes
* checking package namespace information ... OK
* checking package dependencies ...Warning: unable to access index for repository https://bioconductor.org/packages/3.22/bioc/src/contrib:
download from 'https://bioconductor.org/packages/3.22/bioc/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 ‘gwascat’ can be installed ... OK
* checking installed package size ... INFO
installed size is 34.0Mb
sub-directories of 1Mb or more:
data 10.1Mb
legacy 15.6Mb
obo 3.1Mb
olddata 2.2Mb
tab 1.1Mb
Warning in file.symlink(from, to) :
cannot symlink '/media/volume/teran2_disk/rapidbuild/bbs-3.23-bioc-rapid/R/site-library/rmarkdown' to '/tmp/Rtmp1qZhwa/RLIBS_f176c1648ccf0/rmarkdown', reason 'No space left on device'
Error in flink(where, tmplib) :
cannot link from /media/volume/teran2_disk/rapidbuild/bbs-3.23-bioc-rapid/R/site-library/rmarkdown
Execution halted
gwascat.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/rapidbuild/bbs-3.23-bioc-rapid/R/bin/R CMD INSTALL gwascat ### ############################################################################## ############################################################################## * installing to library ‘/media/volume/teran2_disk/rapidbuild/bbs-3.23-bioc-rapid/R/site-library’ * installing *source* package ‘gwascat’ ... ** this is package ‘gwascat’ version ‘2.43.0’ ** using staged installation ** 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 ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (gwascat)