[mira_talk] Re: Call for testing: MIRA 3.2.1.17 and Ion Torrent
- From: Tony Travis <a.travis@xxxxxxxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Tue, 17 May 2011 01:23:21 +0100
On 16/05/11 18:11, Bastien Chevreux wrote:
[...]
My three-week(!) MIRA assembly of 20x106 paired-end Solexa + 270x104
454 reads has just crashed when you announced your call for testing ;-)
Usual question from my side: log please :-)
Hi, Bastien.
Sorry, I'm re-running the assembly with the 'stable' version of MIRA and
I've overwritten the log files from the 'testing 'version...
I've just tried your development version, but it crashed:
Internal logic/programming/debugging error (*sigh* this should not
have happened).
Please file a bug report on
http://sourceforge.net/apps/trac/mira-assembler/
"While trying to set the name of read
<trace>
Encountered character with ASCII code 32. T
It is probably due to your input data, but normally, MIRA should have
caught that earlier!"
Not a crash, but certainly not normal either. Here too: log please. I
think I have an idea what could have cause the bug, maybe I will also
need a sample of the data.
Ah, of course, I mean the program terminated unexpectedly ;-)
This same data did not cause any problem with the stable version. MIRA
crashed because someone else ran a job with a large memory footprint and
between us we exhausted the swap space. I'm trying again, but using
"ramzswap" this time to compress and keep swapped memory pages in RAM.
Bye,
Tony.
--
Dr. A.J.Travis, University of Aberdeen, Rowett Institute of Nutrition
and Health, Greenburn Road, Bucksburn, Aberdeen AB21 9SB, Scotland, UK
tel +44(0)1224 712751, fax +44(0)1224 716687, http://www.rowett.ac.uk
mailto:a.travis@xxxxxxxxxx, http://bioinformatics.rri.sari.ac.uk
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