Back to Rapid builds (Linux only) of a subset of BioC 3.21
Report updated every 6 hours

This page was generated on 2025-04-04 12:34 -0400 (Fri, 04 Apr 2025).

HostnameOSArch (*)R versionInstalled pkgs
teran2Linux (Ubuntu 24.04.1 LTS)x86_64R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" 871
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 181/217HostnameOS / ArchINSTALLBUILDCHECK
S4Arrays 1.7.3  (landing page)
Hervé Pagès
Snapshot Date: 2025-04-04 12:00 -0400 (Fri, 04 Apr 2025)
git_url: https://git.bioconductor.org/packages/S4Arrays
git_branch: devel
git_last_commit: 41a64ff
git_last_commit_date: 2025-02-07 21:02:59 -0400 (Fri, 07 Feb 2025)
teran2Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    ERROR  skipped

BUILD results for S4Arrays on teran2

To the developers/maintainers of the S4Arrays 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.

raw results


Summary

Package: S4Arrays
Version: 1.7.3
Command: /home/rapidbuild/bbs-3.21-bioc-rapid/R/bin/R CMD build --keep-empty-dirs --no-resave-data S4Arrays
StartedAt: 2025-04-04 12:27:57 -0400 (Fri, 04 Apr 2025)
EndedAt: 2025-04-04 12:28:11 -0400 (Fri, 04 Apr 2025)
EllapsedTime: 13.9 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/rapidbuild/bbs-3.21-bioc-rapid/R/bin/R CMD build --keep-empty-dirs --no-resave-data S4Arrays
###
##############################################################################
##############################################################################


* checking for file ‘S4Arrays/DESCRIPTION’ ... OK
* preparing ‘S4Arrays’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
      -----------------------------------
* installing *source* package ‘S4Arrays’ ...
** this is package ‘S4Arrays’ version ‘1.7.3’
** 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'/media/volume/teran2_disk/rapidbuild/bbs-3.21-bioc-rapid/R/site-library/S4Vectors/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security -c R_init_S4Arrays.c -o R_init_S4Arrays.o
gcc -I"/home/rapidbuild/bbs-3.21-bioc-rapid/R/include" -DNDEBUG  -I'/media/volume/teran2_disk/rapidbuild/bbs-3.21-bioc-rapid/R/site-library/S4Vectors/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security -c S4Vectors_stubs.c -o S4Vectors_stubs.o
gcc -I"/home/rapidbuild/bbs-3.21-bioc-rapid/R/include" -DNDEBUG  -I'/media/volume/teran2_disk/rapidbuild/bbs-3.21-bioc-rapid/R/site-library/S4Vectors/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security -c abind.c -o abind.o
gcc -I"/home/rapidbuild/bbs-3.21-bioc-rapid/R/include" -DNDEBUG  -I'/media/volume/teran2_disk/rapidbuild/bbs-3.21-bioc-rapid/R/site-library/S4Vectors/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security -c array_selection.c -o array_selection.o
gcc -I"/home/rapidbuild/bbs-3.21-bioc-rapid/R/include" -DNDEBUG  -I'/media/volume/teran2_disk/rapidbuild/bbs-3.21-bioc-rapid/R/site-library/S4Vectors/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security -c dim_tuning_utils.c -o dim_tuning_utils.o
gcc -I"/home/rapidbuild/bbs-3.21-bioc-rapid/R/include" -DNDEBUG  -I'/media/volume/teran2_disk/rapidbuild/bbs-3.21-bioc-rapid/R/site-library/S4Vectors/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security -c rowsum.c -o rowsum.o
gcc -shared -L/usr/local/lib -o S4Arrays.so R_init_S4Arrays.o S4Vectors_stubs.o abind.o array_selection.o dim_tuning_utils.o rowsum.o
installing to /tmp/RtmpPYBYBA/Rinst2c7d523cd84d8/00LOCK-S4Arrays/00new/S4Arrays/libs
** R
** byte-compile and prepare package for lazy loading
Creating a new generic function for ‘rowsum’ in package ‘S4Arrays’
Creating a new generic function for ‘abind’ in package ‘S4Arrays’
** 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
Error in base::serialize(base::as.list(base::getNamespace("S4Arrays"),  : 
  error writing to connection
Calls: <Anonymous> -> withCallingHandlers -> <Anonymous>
Execution halted
ERROR: loading failed
* removing ‘/tmp/RtmpPYBYBA/Rinst2c7d523cd84d8/S4Arrays’
      -----------------------------------
ERROR: package installation failed