Segmentation Fault - Core Dumped Issue (Step 3 - Converting Kmer Mappings into Read Classifications)

[ulin27]

Hi,
I left this issue as a comment on someone else's similar issue, but wanted to open up my own issue as well. I am experiencing an issue in step 3 (CONVERTING KMER MAPPINGS INTO READ CLASSIFICATIONS), resulting in a "segmentation fault (core dumped)" error. When I'm running the script, I specify to use the "largemem" partition on SLURM in addition to mem=0 (access to all memory on the node), but that doesn't seem to help. I've been struggling with Kraken2 and Bracken for weeks and am running out of time to solve this issue, as I'm set to defend my thesis very soon. Is there any way you can help with this? Thank you in advance!

Kaitlin