Paul, We're working on a new feature that'll allow extra actions within workflows that should cover this case, and it will be available soon. Regarding a workaround for this specific scenario, would you mind sharing the workflow with 'dannon.baker@emory.edu' ? That way I can take a look and see if I can come up with something that'll work for you in the short term, as well as verifying that the new workflow actions will handle the task. Thanks for using Galaxy, -Dannon On Jun 3, 2010, at 4:11 AM, Paul Webster wrote:
Hi,
Was impressed by the Worflow screencasts but when I converted my history to a workflow it failed. This is because some of the tools output tabular data, but some downstream tools require interval format input and therefore fail. When I made the history I manually changed the file format and nominated the fields for chr,start,end,strand, but this is lost in the workflow. Obvious ideas:
* Use a tabular-to-interval tool - I looked but can't find one * Only used tools which output interval format - a less desirable solution. e.g. I can't figure out how to filter out duplicate codons in my gene-BED-to-codon-BED file except using the statistics->count function which outputs tabular.
Has anyone worked out how to change formats within a workflow?
regards, Paul _______________________________________________ galaxy-user mailing list galaxy-user@lists.bx.psu.edu http://lists.bx.psu.edu/listinfo/galaxy-user