tseemann/abricate

Issue with abricate databases

pedrofteixeira opened this issue · 1 comments

pedrofteixeira commented

Hello Abricate team,

I installed abdicate through bioconda and when I run % abricate --list, instead of getting a list of databases I get this.

aminoglycoside 169
beta-lactamase 1305
colistin 1
fosfomycin 21
fusidicacid 2
macrolide 131
nitroimidazole 14
oxazolidinone 3
phenicol 36
quinolone 103
rifampicin 9
sulphonamide 49
tetracycline 104
trimethoprim 53
vancomycin 123
TOTAL 2123

Also, when I try choosing or updating a database (% abricate --db, % abricate-get_db) , these functions are not recognized.

Thank you for the assistance,

Pedro Teixeira

snayfach commented

I just installed through bioconda and am getting the proper list of databases. If you type which abricate is it pointing to the bioconda version you installed or a previously installed one?

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