Change logs for exonerate source package in Jaunty

exonerate (2.2.0-1) unstable; urgency=low

  * New upstream release (LP: #285237).
    This version includes fixes for problems with excessive memory consumption
    when compiled against glib-2, and fixes a bug with using exonerate-server
    with unmasked sequences. 

exonerate (2.1.0-1) unstable; urgency=low

  * New upstream release (LP: #254115).
    - This version includes many optimisations and bug fixes for the
      exonerate-server. It is now possible to search a whole human-sized
      genome with a typical cDNA or protein query in under a second.
    - Exonerate-server uses use pthreads by default.
  * debian/control, debian/compat: switched to debhelper 7.
  * debian/control:
    - Checked conformance with Policy 3.8.0.
    - Enhances: bioperl.
  * debian/rules:
    - `--enable-glib2' removed as now default.
    - Activated tests after build.
  * Updated debian/copyright.

 -- Ubuntu Archive Auto-Sync <email address hidden>   Tue,  04 Nov 2008 21:20:21 +0000

exonerate (2.0.0-1) unstable; urgency=low

  [ David Paleino ]
  * Updated to Standards-Version 3.8.0 (no changes needed)

  [ Charles Plessy ]
  * New upstream release (Closes: #479323)
    Quoting the upstream changelog:
    o Modified exonerate to work in Client:Server mode
    o Fixed --refine to work with SDP alignments
    o Disabled codegen warnings from bootstrapper during compilation
    o Added --geneticcode option for using alternative genetic codes
    o Added --splice5 and --splice3 to allow alternative splice site PSSMs
    o Fixed several bugs when scanning query sequences (eg. --forcescan query)
    o Fixed to report query on forward strand whenever possible.
    o Fixed --ryo sequence dumping with --bestn
    o Fixed a bug with missing seeds when using --annotation
    o Changed license to GPLv3
    o Added protein2dna:bestfit and protein2genome:bestfit models
      (works with exhaustive alignment only)
  * Updated my email address.
  * debian/control:
    - Building on glib-2.0 instead of 1.2.
    - Added a build dependancy on libreadline5-dev.
    - Augmented the long description and changed the short.
    - Added a build dependency on CDBS.
  * debian/copyright made machine-readable.
  * debian/rules switched to cdbs.
  * debian/dirs: removed.

 -- Ubuntu Archive Auto-Sync <email address hidden>   Fri,  04 Jul 2008 08:43:54 +0100