protein evidence (blast or diamond) - minos_metrics_blastp_tophit fails

[dadrasarmin]

Hi!

I tried to feed a bunch of protein fasta files as evidence to the minos and I noticed a part of my pipeline fails always. After investigation, I noticed that minos_metrics_blastp_combine finished successfully but minos_metrics_blastp_tophit was resubmitted 3 times due to Input files updated by another job which was not true. I checked the time stamp and this job was submitted too early (almost at the same time as minos_metrics_blastp_combine). I am using minos on a local machine with a huge amount of resources. Maybe you cannot reproduce the issue with an HPC. After trying many things, this seems to solve the problem for me. I wanted to report it for future investigation by your team.

Changing this

minos/minos/zzz/minos_run.smk

Lines 547 to 549 in 0611d65

	run:
	from minos.scripts.get_blast_tophit import get_blast_tophit
	get_blast_tophit(input[0], output[0], params.pident_threshold, params.qcov_threshold)

To this:

    shell:
        """
        python -c 'import os; from minos.scripts.get_blast_tophit import get_blast_tophit; get_blast_tophit("{input}", "{output}", {params.pident_threshold}, {params.qcov_threshold})'
        """

Best regards,
Armin