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.
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
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
(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.