[mira_talk] Re: edited assembly: reassembly
- From: Bastien Chevreux <bach@xxxxxxxxxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Mon, 21 Dec 2009 01:54:37 +0100
On Donnerstag 17 Dezember 2009 Bastien Chevreux wrote:
> [...]
> I think your best option would be to ask Bernd (the author of the
> roche454ace2caf tool) to change the behaviour of his tool to first write
> out the reads of a contig, then the contig defs, then reads, then ...
> etc.pp
> [...]
Where the hell did I have my mind when I wrote that? It's seriously time for
some vacation. Actually, the above is your second best option. Don't get me
wrong: please still mail Bernd to see whether he could change his script.
But in the mean time however, your best option is going the route I sketched
in an earlier response: caf2gap and then directly gap2caf!
E.g.:
caf2gap -project ttt -ace not_working.caf >&/dev/null
gap2caf -project TTT >works.caf
The "works.caf" file is then in the format MIRA accepts.
Regards,
Bastien
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