When tryig to modify the qcov_hsp_perc parameter using a --params option in taxassign, vtam does not seem to take into account the modified value.
When taxassign is woking, I have the exact same output with the default 80 percent value and with 40 I am trying to use.
When taxassign fails, I see from the error message, that it uses 80, even if I have used the param file to modify it to 40:
"Bio.Application.ApplicationError: Non-zero return code 2 from 'blastn -out /tmp/tmpu_83znlc/RunnerBlast.py/blast_output.tsv -outfmt "6 qseqid sacc pident evalue qcovhsp staxids" -query /tmp/tmpu_83znlc/RunnerTaxAssign.py/variant.fasta -db nt -evalue 1e-05 -qcov_hsp_perc 80 -num_threads 8 -dust yes'"
When tryig to modify the qcov_hsp_perc parameter using a --params option in taxassign, vtam does not seem to take into account the modified value.
When taxassign is woking, I have the exact same output with the default 80 percent value and with 40 I am trying to use.
When taxassign fails, I see from the error message, that it uses 80, even if I have used the param file to modify it to 40:
"Bio.Application.ApplicationError: Non-zero return code 2 from 'blastn -out /tmp/tmpu_83znlc/RunnerBlast.py/blast_output.tsv -outfmt "6 qseqid sacc pident evalue qcovhsp staxids" -query /tmp/tmpu_83znlc/RunnerTaxAssign.py/variant.fasta -db nt -evalue 1e-05 -qcov_hsp_perc 80 -num_threads 8 -dust yes'"