Is there a reason that the samtools BAM to SAM does not respect the
new_file_path set in the config file? The tmp directory handling by
different tool wrappers seems to be an issue right now on systems with
small system tmp directories.
--
Matt Shirley
Ph.D Candidate - BCMB
Pevsner Lab http
.el6_1-x86_64)
OpenJDK 64-Bit Server VM (build 19.0-b09, mixed mode)
Since my config is pointing to /scratch/tmp, but the JVM is using /tmp,
and other tools in galaxy are respecting the config, what could be the
disconnect? Thank you,
Matt
--
Matt Shirley
Ph.D Candidate - BCMB
Pevsner Lab
