Rapid builds (Linux only) of a subset of BioC 3.23<BR>Report updated every 6 hours

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
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BUILD results for TFBSTools on teran2

To the developers/maintainers of the TFBSTools 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: TFBSTools

Version: 1.49.0

Command: /home/rapidbuild/bbs-3.23-bioc-rapid/R/bin/R CMD build --keep-empty-dirs --no-resave-data TFBSTools

StartedAt: 2025-12-12 00:40:23 -0500 (Fri, 12 Dec 2025)

EndedAt: 2025-12-12 00:40:37 -0500 (Fri, 12 Dec 2025)

EllapsedTime: 13.8 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

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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 TFBSTools
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* checking for file ‘TFBSTools/DESCRIPTION’ ... OK
* preparing ‘TFBSTools’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package (it is needed to build vignettes)
      -----------------------------------
* installing *source* package ‘TFBSTools’ ...
** this is package ‘TFBSTools’ version ‘1.49.0’
** 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/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security -c matrixAlignerDynamic.c -o matrixAlignerDynamic.o
matrixAlignerDynamic.c: In function ‘score’:
matrixAlignerDynamic.c:235:22: warning: ‘best_pntr’ may be used uninitialized [-Wmaybe-uninitialized]
  235 |   while (current_pntr->father != NULL){ // while the father of the current pointer exists, walk through the best posible alignment
      |          ~~~~~~~~~~~~^~~~~~~~
matrixAlignerDynamic.c:115:17: note: ‘best_pntr’ was declared here
  115 |   struct entry *best_pntr; // pointer to the best entry so far
      |                 ^~~~~~~~~
gcc -std=gnu2x -I"/home/rapidbuild/bbs-3.23-bioc-rapid/R/include" -DNDEBUG   -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security -c R_init_TFBSTools.c -o R_init_TFBSTools.o
gcc -std=gnu2x -shared -L/usr/local/lib -o TFBSTools.so matrixAlignerDynamic.o R_init_TFBSTools.o
installing to /tmp/RtmpJ3vQwq/Rinst3f86f015910643/00LOCK-TFBSTools/00new/TFBSTools/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
Creating a new generic function for ‘seqLogo’ in package ‘TFBSTools’
Creating a new generic function for ‘pattern’ in package ‘TFBSTools’
Creating a generic function for ‘colSums’ from package ‘base’ in package ‘TFBSTools’
Creating a generic function for ‘rowSums’ from package ‘base’ in package ‘TFBSTools’
Error in lazyLoadDBinsertValue(data, datafile, ascii, compress, envhook) : 
  write failed
Calls: <Anonymous> ... lazyLoadDBinsertValue -> <Anonymous> -> lazyLoadDBinsertValue
Execution halted
ERROR: lazy loading failed for package ‘TFBSTools’
* removing ‘/tmp/RtmpJ3vQwq/Rinst3f86f015910643/TFBSTools’
      -----------------------------------
ERROR: package installation failed