File .err: why all my features have inconsistent gene locations

[esthercamilo]

I am not sure if here is the best place to put this question because it is conceptual (and not an issue about the program). I am using PROKKA with the following set of arguments:

$ prokka myorganism.fa --cdsrnaolap ON --rfam 1 --rawproduct

While my gbk and gff seems okay, I obtain an error file of 1.2Mb saying that all my features have inconsistent gene locations and "DiscRep_SUB:FEATURE_LOCATION_CONFLICT::Coding region xref gene does not exist".

I thought that may be because my genome is new the IDs are not recognized. Is that right?

[tseemann]

I don't really understand tbl2asn errors anymore. NCBI keep "changing the rules". I will be removing it from the next release of Prokka.

PS. The syntax --cdsrnaolap ON is incorrect, just use --cdsrnaolap