Open art-egorov opened 4 weeks ago
small upd: you can avoid the error by adding non-number suffix to contig id, but still.. would be nice to be able to run on any unique set
I fully agree @art-egorov - the issue is with phanotate that makes the output hard to parse and I didn't know a smarter way back when I coded pharokka originally.
When I have some dev time, I'll try and think of a better solution.
George
Description
Hi!
When running pharokka on meta mode it returns a funky error about duplication of key which looks like contig id. The problem that it fails only on subset of sequences (for most runs it is ok), moreover, reported duplicated key is not present in the list of input files..
What I Did
Command:
logs:
seems like it adds some suffix numbers for prodigal which then overlaps with other contigs?
Because in fasta file i have the following, for instance:
Anyway, is there anything to do to fix such exceptions? Thanks in advance
Best, Artyom