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This page was generated on 2025-12-12 01:01 -0500 (Fri, 12 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" | 926 |
| 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 191/230 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | |||||||
| S4Arrays 1.11.1 (landing page) Hervé Pagès
| teran2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | ERROR | skipped | |||||||
|
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. |
| Package: S4Arrays |
| Version: 1.11.1 |
| Command: /home/rapidbuild/bbs-3.23-bioc-rapid/R/bin/R CMD build --keep-empty-dirs --no-resave-data S4Arrays |
| StartedAt: 2025-12-12 00:37:57 -0500 (Fri, 12 Dec 2025) |
| EndedAt: 2025-12-12 00:38:07 -0500 (Fri, 12 Dec 2025) |
| EllapsedTime: 9.9 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### /home/rapidbuild/bbs-3.23-bioc-rapid/R/bin/R CMD build --keep-empty-dirs --no-resave-data S4Arrays
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* checking for file ‘S4Arrays/DESCRIPTION’ ... OK
* preparing ‘S4Arrays’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package (it is needed to build vignettes)
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* installing *source* package ‘S4Arrays’ ...
** this is package ‘S4Arrays’ version ‘1.11.1’
** 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-3.23-bioc-rapid/R/include" -DNDEBUG -I'/media/volume/teran2_disk/rapidbuild/bbs-3.23-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 -std=gnu2x -I"/home/rapidbuild/bbs-3.23-bioc-rapid/R/include" -DNDEBUG -I'/media/volume/teran2_disk/rapidbuild/bbs-3.23-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 -std=gnu2x -I"/home/rapidbuild/bbs-3.23-bioc-rapid/R/include" -DNDEBUG -I'/media/volume/teran2_disk/rapidbuild/bbs-3.23-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 -std=gnu2x -I"/home/rapidbuild/bbs-3.23-bioc-rapid/R/include" -DNDEBUG -I'/media/volume/teran2_disk/rapidbuild/bbs-3.23-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 -std=gnu2x -I"/home/rapidbuild/bbs-3.23-bioc-rapid/R/include" -DNDEBUG -I'/media/volume/teran2_disk/rapidbuild/bbs-3.23-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 -std=gnu2x -I"/home/rapidbuild/bbs-3.23-bioc-rapid/R/include" -DNDEBUG -I'/media/volume/teran2_disk/rapidbuild/bbs-3.23-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 -std=gnu2x -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/RtmpnCwpX1/Rinst3f741d7a25dfbc/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
Warning in get(".requireCachedGenerics", where) :
internal error 1 in R_decompress1 with libdeflate
Error: package or namespace load failed for ‘S4Arrays’ in get(".requireCachedGenerics", where):
lazy-load database '/tmp/RtmpnCwpX1/Rinst3f741d7a25dfbc/00LOCK-S4Arrays/00new/S4Arrays/R/S4Arrays.rdb' is corrupt
Error: loading failed
Execution halted
ERROR: loading failed
* removing ‘/tmp/RtmpnCwpX1/Rinst3f741d7a25dfbc/S4Arrays’
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ERROR: package installation failed