Mothur

[shiltemann]

Changed merge-files tool to use multiple=true instead of a repeat for the input files, and started a macro file (only has the requirement in it for now), and added some tests with handmade artificial data (maybe can replace later if somebody has good testing datasets)

and to make planemo happy I also: added citation (please double check), changed indentation, moved requirements to the top, changed format="input" to format_source

[bgruening]

@shiltemann I guess we can replace this entirely by:

<param name="inputs" type="data" format="fasta,qual,groups,names,accnos" multiple="true" label="inputs - fasta"/>

Do we need the select box for datatype?

[shiltemann]

that would be fine by me, I just don't know how much users want/need/like the filtering on their inputs to ensure they select all files of the same and intended datatype.. maybe some of the others can weigh in on this too..

[hexylena]

If all files must be of the same type, then I'm in favour of @shiltemann's approach here. If mixed are a allowed I lean towards @bgruening's.

[jj-umn]

I think this only makes sense if the files are all of the same type.

[shiltemann]

As far as I understand it (but I'm no mothur expert), you would only ever do a merge on files of the same data type. If we can add a validator to the param to check all files are same format that would probably work too, but I don't know if that's possible?

[hexylena]

This is probably easier to write than a validator and clearer to the users about the expectations.

[bgruening]

Otherwise, this looks great!