VIBRANT error: could not identify Pfam HMM files in database directory. Please run VIBRANT_setup.py - After download-db

[gadieid]

After download-db, and although no errors found in the VIBRANT_setup.log, the VIBRANT_run.py exit with error on missing db files.

During download-db the hmmpress certed only the .h3i file and not all other indexes (.h3f and so on) both for PFAM and VOG HMM so Vibrant_tun.py failed.

It might be related to the subprocess and parallelism

Workaround in the database directory to manually run hmmpress like this:

hmmpress VOGDB94_phage.HMM
rm VOGDB94_phage.HMM.h3i (hmmpress will not run if several of the binary files exists)
hmmpress VOGDB94_phage.HMM

[bernt-matthias]

Same here.

Workaround mentioned above works. One can simply uses hmmpress -f VOGDB94_phage.HMM (and analogous for the other two HMM files).