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You can write a wrapper around tophat2 and redirect the output to any directory you want - as long as galaxy has write access to the directory. However, the output will no longer be accessible as a history item.

Regards, Hans



On 12/27/2012 11:19 AM, Sachit Adhikari wrote:
Hi Hans,

Oh yes it is stored in database/files. What I wanted to know was if I
can change the output path of one or two tools. Let's say if I want to
change the path of tophat2, what should I do?

Thanks,

Sachit

On Thu, Dec 27, 2012 at 9:38 AM, Hans-Rudolf Hotz <h...@fmi.ch
<mailto:h...@fmi.ch>> wrote:

    Hi Sachit


    They are stored in ~/database/files/

    and you can change it by changing the value for "file_path" in the
    'universe_wsgi.ini' file.

    Regardd, Hans




    On 12/26/2012 11:40 AM, Sachit Adhikari wrote:

        Hello Everyone,

        *Merry Christmas and Happy New Year*
        *

        *
        I was wondering where are the output of the tools stored in the
        machine
        where the galaxy is hosted? And, can I change the path of the
        output of
        the tools?

        Thanks,

        Sachit




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