This patch reports errors mapping amino acid files to the reference. AFAICT, the only non-zero exit code of mp_map_file() is for errors opening the faa file(s). I hit this due to a stupid error on my part: giving query.faa.gz when only query.faa existed on disk. Miniprot ran fine but of course gave an empty gff. Now, the user should at least get a warning and a non-zero exit code in case of stupidity :)
lh3
commented
1 year ago
Hi Heng,
Thanks for yet another brilliant tool!
This patch reports errors mapping amino acid files to the reference. AFAICT, the only non-zero exit code of mp_map_file() is for errors opening the faa file(s). I hit this due to a stupid error on my part: giving
query.faa.gzwhen onlyquery.faaexisted on disk. Miniprot ran fine but of course gave an empty gff. Now, the user should at least get a warning and a non-zero exit code in case of stupidity :)Best, Kevin