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
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