I don't believe so, it looks like they generate a long config script (as you
can see in the xml file) and executes that.

K

On Thu, Sep 8, 2011 at 1:51 PM, Chorny, Ilya <icho...@illumina.com> wrote:

>  Is there a python script associated with the macs.xml file?****
>
> ** **
>
> *From:* galaxy-dev-boun...@lists.bx.psu.edu [mailto:
> galaxy-dev-boun...@lists.bx.psu.edu] *On Behalf Of *Kanwei Li
> *Sent:* Wednesday, August 24, 2011 5:41 PM
>
> *To:* KOH Jia Yu Jayce
> *Cc:* galaxy-dev@lists.bx.psu.edu
> *Subject:* Re: [galaxy-dev] macs in galaxy****
>
> ** **
>
> You can use the MACS wrappers here (for 1.4):
> https://bitbucket.org/cistrome/cistrome-harvard/src/779d208c2cbd/tools/peakcalling/
> ****
>
> ** **
>
> Until we officially add it to our distribution. ****
>
> ** **
>
> Thanks,****
>
> ** **
>
> K****
>
> On Wed, Aug 24, 2011 at 8:32 PM, KOH Jia Yu Jayce <ko...@gis.a-star.edu.sg>
> wrote:****
>
> Yes. Thank you for your help J****
>
>  ****
>
> -----Original Message-----
> *From:* Kanwei Li [mailto:kan...@gmail.com]
> *Sent:* Wednesday, August 24, 2011 11:28 PM
> *To:* KOH Jia Yu Jayce
> *Cc:* galaxy-dev@lists.bx.psu.edu
> *Subject:* Re: [galaxy-dev] macs in galaxy****
>
>  ****
>
> Hi Jayce,****
>
>  ****
>
> Are you running this on your local instance? It seems you are running MACS
> 1.4, which our wrapper does not support yet, but we are planning to add a
> wrapper for 1.4 soon.****
>
>  ****
>
> Thanks,****
>
>  ****
>
> K****
>
> On Wed, Aug 24, 2011 at 4:20 AM, KOH Jia Yu Jayce <ko...@gis.a-star.edu.sg>
> wrote:****
>
> In running macs in galaxy, the following error was found****
>
>  ****
>
> ERROR:root:mfold format error! Your input is '32'. It should be like
> '10,30'****
>
>  ****
>
> A format for mfold like 10,30 is expected… but the default value configured
> in xml remains as 32. will there be an updated version of this xml in
> future?****
>
>  ****
>
> Also after altering the default display mfold value to 10,30, type integer
> in the param tag for mfold become erroneous. May I ask what is the correct
> type for input format 10,30?****
>
>  ****
>
> Thanks alot****
>
>  ****
>
>  ****
>
>
> ___________________________________________________________
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>
>  ****
>
> ** **
>
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