Kraken2_build step stalling

[dgolden96]

Hi there,

I'm continuing to troubleshoot the db-update process for a kraken2 database, and I've hit a wall at the kraken2_build step. The pipeline doesn't throw any errors; it just continues to run indefinitely (12+ hours without failure or completion). It seems similar to the problem described here: https://github.com/DerrickWood/kraken2/issues/428

So far, I've tried to implement the workaround mentioned in the comments of that issue I linked, where you add the --fast-build flag to the kraken2 call in the db-update snakefile, but it doesn't seem to have solved the issue. Any chance you've seen this before and/or have any thoughts on what might be causing it? I definitely have enough RAM. I'm using 28 cores with 16 Gb per core.

Thanks!