Hi,
I just knew I was missing something crucial here ...
Finally I found at the bottom of the Tools list (when you are in workflow 
editing mode) a section called 'Workflow control' having a single entry: 
'Inputs'.
Thought it could be useful to share my 'Aha-Erlebnis' :)
Now it is perfectly possible to run a workflow using the CLI.
Cheers,
Marc

From: galaxy-dev-boun...@lists.bx.psu.edu 
[mailto:galaxy-dev-boun...@lists.bx.psu.edu] On Behalf Of Marc Logghe
Sent: Monday, April 01, 2013 11:25 PM
To: Dannon Baker
Cc: galaxy-dev@lists.bx.psu.edu
Subject: Re: [galaxy-dev] REST API

Hi Dannon,
Thanks for the reply.

From: Dannon Baker [mailto:dannon.ba...@gmail.com]
Sent: Monday, April 01, 2013 11:02 PM
To: Marc Logghe
Cc: galaxy-dev@lists.bx.psu.edu
Subject: Re: [galaxy-dev] REST API

Hey Marc,

Yep, the '38' in this case is the step id shown just after "steps", but it 
would be an id listed in that 'inputs' dict.  The inputs dictionary should be a 
list of all the "Input Dataset" steps for the workflow -- yours just doesn't 
have any and you'll need to add these to be able to map input datasets to the 
correct workflow input steps.

I am afraid I don't quite understand. In my case, the single step workflow 
accepts fasta as input. If you say that it is currently not possible to pass 
'set-at-runtime' parameters how do you pass the fasta then ? I mean, what 
changes to the workflow need to be done in order to make it possible to pass a 
command line argument like '38=hda=03501d7626bd192f' ? I'am pretty much 
confused ... Think I keep on missing something crucial here.
Regards,
Marc
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