[mira_talk] Re: Bug report using corrected pacbio

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


-- 
You have received this mail because you are subscribed to the mira_talk mailing 
list. For information on how to subscribe or unsubscribe, please visit 
http://www.chevreux.org/mira_mailinglists.html

--
You have received this mail because you are subscribed to the mira_talk mailing 
list. For information on how to subscribe or unsubscribe, please visit 
http://www.chevreux.org/mira_mailinglists.html

Other related posts: