Hello Alejandro,
Are you running this on a local or cloud instance? Have you run the workflow or the individual tools before? Do they exist on the server you are using? Checking
In particular, the version of the Cuffdiff wrapper likely differs between the one you have installed (if this was recent) and the one in the workflow (it is an older version). Opening the workflow in the editor and updating the tool to the version on the server you are using (it will be in the tool pane, on the left), then saving it, will probably resolve the error. I've seen a similar issue to this one resolved this way before. Although, if your local is running the most recent distribution, this really shouldn't be an issue any longer. The current cloud ami may still present the issue, I'm not sure. Still - this is worth a try as potential quick path to a resolution on either.
Please give this a test and let us know if you continue to have problems. I didn't notice anything else off.
Jen Galaxy team
On 2/25/14 2:44 PM, Alejandro Colaneri wrote:
I'm trying to run the attached workflow to run tophat followed by cuffdiff. But when I hit run a message saying server error appears and that is all (see screen shot attached). I have not clue where the error can be. It appear a very simple work flow. I will appreciate if someone give an idea of what can be wrong. Alejandro
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