[mira_talk] Re: mira strain analysis caf files, and tracing the assemblies.

  • From: Robin Kramer <kodream@xxxxxxxxx>
  • To: mira_talk@xxxxxxxxxxxxx
  • Date: Wed, 23 Mar 2011 18:58:24 -0600

Also it seems that the read isn't showing up in the first or second logs,
but only in the third.

Sincerely yours,

Robin

On Wed, Mar 23, 2011 at 6:51 PM, Robin Kramer <kodream@xxxxxxxxx> wrote:

> But why is it showing up in step3's output as a read, if I did grep all of
> the directories and it doesn't show up in any of them?
>
> Sincerely yours,
>
> Robin
>
>
> On Wed, Mar 23, 2011 at 6:38 PM, Bastien Chevreux <bach@xxxxxxxxxxxx>wrote:
>
>>  On Thursday 24 March 2011 01:33:32 Robin Kramer wrote:
>>
>> > That is what I thought, but I can't seem to find much assembly
>> information
>>
>> > for this particular read in step2. It is in the step2_reads.caf file,
>> but
>>
>> > there are no reads associated with it, to go back to step1. I was
>>
>> > expecting it to be in the step2_strainname directory, but it isn't in
>> any
>>
>> > of the caf, fasta, or various info files either.
>>
>> "rgrep" is your friend :-)
>>
>> If that read is not in any of the "step2_*" directories (don't forget the
>> 'default' "strainname"), it has been dropped after step1.
>>
>> B.
>>
>>
>

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