Hi folks I've been having troubles running Salmon consistently on my Cloudman cluster. Have been running into seg faults when specifying > 1 ~4Gb fastqs as input (from a list collection as well as n input datasets). Ive been seeing this on m4.2xlarge and m4.4xlarge worker nodes. I think I've exhausted all different SLURM configurations in my job_conf.xml to try and combat this
Has anyone run into something similar, and if not where would be the best place to file an issue? Thanks!
@cganote Thanks for the suggestion! I took a couple of hours today to look into running w/
gdb, but from what I understood I would have had to recompile
salmon with a debug flag (-g) beforehand, and I quickly got lost in how I would do that and be able to run it this way through Galaxy & SLURM.
What I think could be helpful is if anyone could point me to a
job_conf.xml destination that has been successful in running Salmon with the
Also if this is not the proper place to be asking such a question could someone point me in the right direction? Thanks!