problems with resfinder and vfdb

[fedeserral]

Hi! I have some problems when I try to download resfinder and vfdb_full.
In the case of resfinder this is the following error when I run ariba prepareref:
ariba.reference_data.Error: Sequence "erm(N).2_MZ015744" found in input fasta file but not in metadata file. Cannot continue

For vfdb I have a similir error I think:
ariba.reference_data.Error: Duplicate name "stx2B.VFG000838(gb|WP_000738068).Escherichia_coli_O157:H7_str._EDL933" found in file /data/out.vfdb_full.fa. Cannot continue)

Can you help me to solve it?

Thanks
Regards.

[JFsanchezherrero]

Hi there
I came with the same issue and I think I found a solution at least for VFDB error.

Check it out here in the issue I generated in BacterialTyper here
HCGB-IGTP/BacterialTyper#19

Thanks
Regards

[evezeyl]

getting vfdb_full and it downloads duplicated sequences. Same name, same sequence
Both in the fasta (.fa) and description (.tsv)
Would be nice of Ariba could automatically filter out duplicates.