[mira_talk] MIRA V3.2.0 RC2 available

From: Bastien Chevreux <bach@xxxxxxxxxxxx>
To: mira_announce@xxxxxxxxxxxxx, mira_talk@xxxxxxxxxxxxx
Date: Mon, 26 Jul 2010 00:55:57 +0200
Dear all,

MIRA V3.2.0rc2 has been released at SourceForge.

  http://sourceforge.net/projects/mira-assembler/

This is mainly a small bugfix and documentation update release, though a few 
goodies like improved support for SSDs, improved "MIRA as repeat searcher"-
functionality and an improved "convert_project" are also present.

If no major problems get reported, this is going to be V3.2.0 within a week or 
two.

Regards,
  Bastien


Changes since rc1:

3.2.0rc2
--------
- new parameter category "MISC" with first new parameter "stop_on_nfs"
  (-MI:sonfs)
- added -DI:lrt to be able to put the log directory to other locations (i.e.,
  support SSDs or take the heat off of NFS mounts)
- added -CL:pechsgp to be able to switch handling of Solexa GGCxG problem if
  wanted.
- larger work on convert_project functionality which should now behave a bit
  more as user might expect (see below)
- when used on an assembly file with multiple strains (caf or maf),
  "convert_project -t fasta" now also creates files with combined output of
  all strains
- reversed default and meaning of '-u' in convert_project: per default filling
  of strain is off, can be switched on
- '-u' in convert_project now also fills the '@' "base" (which stands for "no
  coverage by this strain")
- '-v' in convert_project now works "per strain" and not "per total coverage"
- added check for zlib in "./configure"
- changed behaviour: -SK:mnr is now switched on by default for EST projects
- changed behaviour: the *nastyseq* file in the log directory has been
  upgrade to an "info" file, i.e., it is now in the info directory.
  Furthermore, it can log (on demand) not only sequence parts covered by MNRr
  tags, but also HAF5, HAF6 and HAF7. New parameter: -SK:rliif
- bugfix: -OUT:rrol did not work, old logs were not removed (bug introduced in
  3.1.7)
- updated docs. Section on "things you should not do", added description of a
  couple of parameters which did not make it to documentation yet, etc.
- HTML documentation lacked underline-emphasis, fixed.

-- 
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
[mira_talk] MIRA V3.2.0 RC2 available

Other related posts:
