resfinder line breaks problem

[schultzm]

Thanks for writing ariba. I was just looking through your code in https://github.com/sanger-pathogens/ariba/blob/master/ariba/ref_genes_getter.py . At line 460 I see you have a method to fix line breaks in virulence_finder_db. @tseemann has shown me that the resfinder db, also from the CGE, has the same problem with line breaks. @tseemann has emailed the CGE to fix it, but it seems to be a recurring issue with updates to that database. Could you please patch ref_genes_getter.py to deal with this problem?

Regards,

[martinghunt]

Thanks for letting me know. I'll apply that same function to the resfinder fasta ...

[martinghunt]

Apologies for only just getting round to this! I have very little time to work on ariba. It's fixed in new release 2.13.0