Back to Rapid builds (Linux only) of a subset of BioC 3.22
Report updated every 6 hours

This page was generated on 2025-07-24 09:37 -0400 (Thu, 24 Jul 2025).

HostnameOSArch (*)R versionInstalled pkgs
teran2Linux (Ubuntu 24.04.1 LTS)x86_644.5.0 (2025-04-11) -- "How About a Twenty-Six" 914
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 102/229HostnameOS / ArchINSTALLBUILDCHECK
GenomicRanges 1.61.1  (landing page)
Hervé Pagès
Snapshot Date: 2025-07-24 06:00 -0400 (Thu, 24 Jul 2025)
git_url: https://git.bioconductor.org/packages/GenomicRanges
git_branch: devel
git_last_commit: 096060d
git_last_commit_date: 2025-06-21 14:59:43 -0400 (Sat, 21 Jun 2025)
teran2Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    OK  

INSTALL results for GenomicRanges on teran2

To the developers/maintainers of the GenomicRanges 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: GenomicRanges
Version: 1.61.1
Command: /home/rapidbuild/bbs-3.22-bioc-rapid/R/bin/R CMD INSTALL GenomicRanges
StartedAt: 2025-07-24 06:12:18 -0400 (Thu, 24 Jul 2025)
EndedAt: 2025-07-24 06:12:33 -0400 (Thu, 24 Jul 2025)
EllapsedTime: 14.2 seconds
RetCode: 0
Status:   OK  

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/rapidbuild/bbs-3.22-bioc-rapid/R/bin/R CMD INSTALL GenomicRanges
###
##############################################################################
##############################################################################


* installing to library ‘/media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library’
* installing *source* package ‘GenomicRanges’ ...
** this is package ‘GenomicRanges’ version ‘1.61.1’
** using staged installation
** libs
using C compiler: ‘gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0’
gcc -std=gnu2x -I"/home/rapidbuild/bbs-3.22-bioc-rapid/R/include" -DNDEBUG  -I'/media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/S4Vectors/include' -I'/media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/IRanges/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security -c IRanges_stubs.c -o IRanges_stubs.o
gcc -std=gnu2x -I"/home/rapidbuild/bbs-3.22-bioc-rapid/R/include" -DNDEBUG  -I'/media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/S4Vectors/include' -I'/media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/IRanges/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security -c R_init_GenomicRanges.c -o R_init_GenomicRanges.o
gcc -std=gnu2x -I"/home/rapidbuild/bbs-3.22-bioc-rapid/R/include" -DNDEBUG  -I'/media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/S4Vectors/include' -I'/media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/IRanges/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security -c S4Vectors_stubs.c -o S4Vectors_stubs.o
gcc -std=gnu2x -I"/home/rapidbuild/bbs-3.22-bioc-rapid/R/include" -DNDEBUG  -I'/media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/S4Vectors/include' -I'/media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/IRanges/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security -c transcript_utils.c -o transcript_utils.o
In function ‘tloc2rloc’,
    inlined from ‘tlocs2rlocs’ at transcript_utils.c:208:26:
transcript_utils.c:143:45: warning: ‘start’ may be used uninitialized [-Wmaybe-uninitialized]
  143 |         return on_minus_strand ? end - tloc : start + tloc;
      |                ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~
transcript_utils.c: In function ‘tlocs2rlocs’:
transcript_utils.c:120:24: note: ‘start’ was declared here
  120 |         int nexons, j, start, end, width;
      |                        ^~~~~
In function ‘tloc2rloc’,
    inlined from ‘tlocs2rlocs’ at transcript_utils.c:208:26:
transcript_utils.c:143:45: warning: ‘end’ may be used uninitialized [-Wmaybe-uninitialized]
  143 |         return on_minus_strand ? end - tloc : start + tloc;
      |                ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~
transcript_utils.c: In function ‘tlocs2rlocs’:
transcript_utils.c:120:31: note: ‘end’ was declared here
  120 |         int nexons, j, start, end, width;
      |                               ^~~
gcc -std=gnu2x -shared -L/usr/local/lib -o GenomicRanges.so IRanges_stubs.o R_init_GenomicRanges.o S4Vectors_stubs.o transcript_utils.o
installing to /media/volume/teran2_disk/rapidbuild/bbs-3.22-bioc-rapid/R/site-library/00LOCK-GenomicRanges/00new/GenomicRanges/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 (GenomicRanges)