On Wed, Sep 12, 2012 at 4:04 PM, <kauerbach@comcast.net> wrote:

Hello,

I'm new to Galaxy and have a very basic question. If I upload a dataset, (say, a protein sequence file in fasta format), and I want to use one of the tools on this dataset, what do I have to do to make the tool aware of my dataset? When I tried it the tools did not know that my uploaded data file existed.

Thank you.

You need to make sure your dataset is recognised as 'fasta', which can be checked/edited via the 'pencil' icon. As long as the tool's XML file defines the input as type 'fasta', then it should offer any 'fasta' format files in the *current* history as inputs when used. Peter