[mira_talk] Re: Bug report using corrected pacbio
- From: "Scholz, Matthew B" <mscholz@xxxxxxxx>
- To: "mira_talk@xxxxxxxxxxxxx" <mira_talk@xxxxxxxxxxxxx>
- Date: Mon, 25 Jun 2012 14:25:49 +0000
Bastien,
Will try the workaround for now. Will have our sysadmin install 3.9 when you
release it....
Thanks!
=Matt
-----Original Message-----
From: mira_talk-bounce@xxxxxxxxxxxxx [mailto:mira_talk-bounce@xxxxxxxxxxxxx] On
Behalf Of Bastien Chevreux
Sent: Thursday, June 21, 2012 5:18 PM
To: mira_talk@xxxxxxxxxxxxx
Subject: [mira_talk] Re: Bug report using corrected pacbio
On Jun 21, 2012, at 17:53 , Scholz, Matthew B wrote:
> I am running into an issue that I cannot troubleshoot any farther on my own.
> The error looks like this:
> Internal logic/programming/debugging error (*sigh* this should not have
> happened).
> [...]
> I have tried removing newlines, making the Ns uppercase, and cannot find any
> reason for the error t be occurring.
Yes, that's the bug I was writing of yesterday. Two ways out:
1) if you want to stay with the 3.4 line of MIRA, try replacing stretches >=3 N
in sequences by the equivalent amount of "X". I did not try this myself, but it
*should* stop the bug from being triggered.
2) I plan to release 3.9.1 either this or next week. My offer still stands: I
can quickly make a distribution package of my current development head for you
and there the bug is guaranteed to be gone.
Best,
Bastien
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