| Back to Rapid builds (Linux only) of a subset of BioC 3.21 Report updated every 6 hours |
This page was generated on 2025-01-05 09:32 -0500 (Sun, 05 Jan 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| teran2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2024-12-18 r87448) -- "Unsuffered Consequences" | 862 |
| 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 42/216 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | |||||||
| biovizBase 1.55.0 (landing page) Michael Lawrence
| teran2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | WARNINGS | |||||||
|
To the developers/maintainers of the biovizBase 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: biovizBase |
| Version: 1.55.0 |
| Command: /home/rapidbuild/bbs-3.21-bioc-rapid/R/bin/R CMD INSTALL biovizBase |
| StartedAt: 2025-01-05 06:23:51 -0500 (Sun, 05 Jan 2025) |
| EndedAt: 2025-01-05 06:24:29 -0500 (Sun, 05 Jan 2025) |
| EllapsedTime: 37.2 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### /home/rapidbuild/bbs-3.21-bioc-rapid/R/bin/R CMD INSTALL biovizBase
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* installing to library ‘/media/volume/teran2_disk/rapidbuild/bbs-3.21-bioc-rapid/R/site-library’
* installing *source* package ‘biovizBase’ ...
** 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 R_init_biovizBase.c -o R_init_biovizBase.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 bin_offsets.c -o bin_offsets.o
bin_offsets.c: In function ‘scan_bam_bin_offsets’:
bin_offsets.c:57:15: warning: pointer targets in passing argument 1 of ‘strncmp’ differ in signedness [-Wpointer-sign]
57 | if (strncmp(b, "BAI\1", 4))
| ^
| |
| Rbyte * {aka unsigned char *}
In file included from /home/rapidbuild/bbs-3.21-bioc-rapid/R/include/R_ext/RS.h:34,
from /home/rapidbuild/bbs-3.21-bioc-rapid/R/include/Rdefines.h:38,
from bin_offsets.h:1,
from bin_offsets.c:3:
/usr/include/string.h:159:33: note: expected ‘const char *’ but argument is of type ‘Rbyte *’ {aka ‘unsigned char *’}
159 | extern int strncmp (const char *__s1, const char *__s2, size_t __n)
| ~~~~~~~~~~~~^~~~
gcc -shared -L/usr/local/lib -o biovizBase.so R_init_biovizBase.o bin_offsets.o
installing to /media/volume/teran2_disk/rapidbuild/bbs-3.21-bioc-rapid/R/site-library/00LOCK-biovizBase/00new/biovizBase/libs
** R
** data
*** moving datasets to lazyload DB
** 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 (biovizBase)