[mira_talk] Re: Paired end info - SAM/BAM output from MIRA?

Thank you. MAF file is located in the chkpoint folder.


________________________________________
From: mira_talk-bounce@xxxxxxxxxxxxx [mira_talk-bounce@xxxxxxxxxxxxx] On Behalf 
Of Bastien Chevreux [bach@xxxxxxxxxxxx]
Sent: Saturday, October 02, 2010 4:11 AM
To: mira_talk@xxxxxxxxxxxxx
Subject: [mira_talk] Re: Paired end info - SAM/BAM output from MIRA?

On Freitag 01 Oktober 2010 Bastien Chevreux wrote:
> On Freitag 01 Oktober 2010 Raj Kumar, Praveen Kumar Mr. wrote:
> >     I am trying to output my mapping assembly in MAF format with this
> >  option (-OUT:orc=yes:ora=no:ota=no:otc=no:otm=yes).......but ended up in
> >  the following
>
> Interesting bug, need to fix that.
> Anyway, you don't need to "force" MIRA to output MAF ... it does it per
> default.

Correcting myself a bit: you would need to use -OUT:orm and not -OUT:otm ...
but that does not parse either. Will work in the next release.

But as I said: MIRA outputs MAF per default in the results at the moment.

B.

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