If you're confident about the format of the dataset in question, add a Change Datatype action to your workflow (on the step before bowtie) that sets the datatype to fastqsanger.
See the right panel of the workflow editor under Step Actions; you want something like this:
-Dannon On Feb 9, 2011, at 10:58 AM, Jeremy Goecks wrote: > Steve, > > I'm sending this question along to the galaxy-user list because it's likely > of interest to others as well as yourself. Dannon, our resident workflow > expert, should be able to answer your question. > > Thanks, > J. > > > > On Feb 9, 2011, at 10:28 AM, Stephen Taylor wrote: > >> Hi, >> >> I seem to remember sending a question about how to change the type of fastq >> in a workflow to the galaxy-dev list so it can run vs bowtie without going >> through fastqgroomer. I think you replied to me about a tool that would do >> this but I can't seem to find the answer on the list or in my inbox? Is >> there a way to to do this or did I dream the question/answer?!:-) >> >> Kind regards and thanks, >> >> Steve >> >> >> >> >> >> >> >> >> > > > _______________________________________________ > galaxy-user mailing list > email@example.com > http://lists.bx.psu.edu/listinfo/galaxy-user
_______________________________________________ galaxy-user mailing list firstname.lastname@example.org http://lists.bx.psu.edu/listinfo/galaxy-user