[mira_talk] Re: repeat clusters
- From: bio5yz <bio5yz@xxxxxxxxxxxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Wed, 9 Jun 2010 14:22:20 -0600
Thanks very much for all your help Bastian! I'd rather donate the free ones
to charity.
On Wed, Jun 9, 2010 at 12:12 PM, Bastien Chevreux <bach@xxxxxxxxxxxx> wrote:
> On Mittwoch 09 Juni 2010 bio5yz wrote:
> > Thanks very much for your explanation Bastian!
> > My main issue now is that I cannot find any *nasty* files in my MIRA
> > directories for any of my 3 trial runs made. There are no files
> containing
> > *nasty* anything in the *_log directories. I guess these are the files
> that
> > i really need to determine the location, stretches, members of the masked
> > repeats. Would it be possible to generate this log after MIRA has run to
> > completion. Do I need to turn on a specific verbose param for it to
> print?
> > Again my log file is saying "Mask nasty repeats (mnr)
> :
> > no" although it does seem to be masking the repeat regions. Should I be
> > turning this on manually?
>
> Yay, today seems to be bug reporting day. Find one, get one free. Or two.
> Or
> three.
>
> Ok, the bug is: nasty sequences are always masked, but reported only if
> -SK:mnr
> is turned on.
>
> So, for you it means: rerun with -SK:mnr=on to get the file report.
>
> I'm sorry for the inconvenience.
>
> Bastien
>
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