Hello Clare, This enhancement request is still in on our to-do list for the public/distribution Galaxy instances. Following the open bitbucket ticket is the best way to follow status. Conditional workflow processes/tools have been discussed in several threads on the galaxy-dev@bx.psu.edu mailing list, if you are interested: Start with a search on "conditional" using Nabble to view the threads. http://wiki.g2.bx.psu.edu/Mailing%20Lists Best! Jen Galaxy team On 7/24/11 7:27 PM, Clare Sloggett wrote:

Thanks for putting that in. I was wondering the same thing. The immediate use of it for me would be to have quality-checking steps at the beginning of the workflow, and to not proceed if the data does not pass.

If there is any implementation of conditionals in Galaxy I would be interested!

Thanks, Clare

On Sun, May 22, 2011 at 2:00 PM, Florent Angly <florent.angly@gmail.com <mailto:florent.angly@gmail.com>> wrote:

__ I filed an enhancement report since if the workflow conditional facility does not appear to exist in Galaxy: https://bitbucket.org/galaxy/galaxy-central/issue/547/conditional-workflow-s... Best, Florent

-------- Original Message -------- Subject: Workflows with conditional statements Date: Wed, 18 May 2011 10:31:21 +1000 From: Florent Angly <florent.angly@gmail.com> <mailto:florent.angly@gmail.com> To: galaxy-user@lists.bx.psu.edu <mailto:galaxy-user@lists.bx.psu.edu> <galaxy-user@lists.bx.psu.edu> <mailto:galaxy-user@lists.bx.psu.edu>

Hi all,

I was wondering if there is a way to put conditional statements in a Galaxy workflow.

This would be useful, for example, in the case of a workflow that has an optional advanced option that the user can click. This advanced option would add some extra steps to the data processing.

Another example of how this could be useful is if inside a workflow, the data needs to be processed differently based on the results of previous workflow steps. Say, you have a worflow that takes some sequences, and calculate their average length. Using a conditional statement, the workflow would put the data through DeBruijn assembler if the reads are small, but through a traditional Overlap-Layout-Consensus assembler if the reads are long.

Are conditional statements possible in Galaxy workflows and I just don't know how to use them?

Best,

Florent

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___________________________________________________________ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list:

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