Providing multiple .gbk's to --proteins option

[7PintsOfCherryGarcia]

Is this possible, or do I have to go through the custom database route?

[tseemann]

@7PintsOfCherryGarcia you can concatenate Genbank files and it should work.

% cat *.gbk foo.gbff plasmids.gbk > proteins.gbk
% prokka --proteins all.gbk

If you use bash it might also work using subshells

% prokka --proteins <(cat *.gbk)