Hello Mikel, This is a known issue with Bowtie2 at this time and a correction is in progress. Sorry for any confusion, Jen Galaxy team On 10/9/13 8:57 AM, Mikel Egaña Aranguren wrote:

Hi;

I'm trying to use the bowtie2 wrapper but it generates and empty output with the "no peek" sign. I have sucesfully recreated the analysis with the same datatsets on the shell, so it must be something to do with Galaxy, but I don't know where to look at. Any clues? Thanks

I'm using bowtie2-2.1.0 and Galaxy:

changeset: 10421:a477486bf18e branch: stable tag: tip user: Nate Coraor <nate@bx.psu.edu <mailto:nate@bx.psu.edu>> date: Thu Sep 26 11:02:58 2013 -0400 summary: Bugfix for tool-to-destination mapping, tool ids are lowercased but the mapping id was not lowercased

-- Mikel Egaña Aranguren, Ph.D.

http://mikeleganaaranguren.com

___________________________________________________________ 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:

http://lists.bx.psu.edu/listinfo/galaxy-dev

To manage your subscriptions to this and other Galaxy lists, please use the interface at:

http://lists.bx.psu.edu/

To search Galaxy mailing lists use the unified search at:

http://galaxyproject.org/search/mailinglists/

-- Jennifer Hillman-Jackson http://galaxyproject.org