[mira_announce] New version 2.9.44x3

Dear all,

most importantly, this version contains a few fixes to bugs which have been 
reported for 2.9.44x2. The status is unchanged: it's a test version for the 
new assembly routines and will not appear on the official download pages.

http://www.chevreux.org/tmp/mira_2.9.44x3_dev_linux-gnu_x86_64.tar.bz2

Regards,
  Bastien

Changelog for

2.9.44x3
--------
- change of parameter: the "--noclipping" now takes optional technologies to
  which it should apply. E.g.: "--noclipping=454,solexa". "--noclipping" is
  equivalent to switching off all technologies.
- speed optimisation in pathfinder for de-novo assemblies with Solexa and
  SOLiD.
- bugfix: fixed some pathfinder logic where sequencing errors in repetitive
  areas led MIRA to perform alignment of reads it shouldn't have.
- bugfix: setting -SK:mchr to values >4095 led to am integer overflow and
  subsequent poor assemblies ... or no assembly at all
- bugfix: when using Solexa CER mappings on multiple backbone sequences, the
  numbering scheme led to illegal CAF files (and hence illegal gap4 databases)
- bugfix: division by zero error in statistics calculation of empty read pools

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