lp:ubuntu/trusty/exonerate

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8. By Andreas Tille on 2012-01-12

debian/patches/autoreconf.patch: Removed because not needed
when using dh-autoreconf

7. By Micah Gersten on 2011-12-23

* Sync on Debian
* Use dh-autoreconf instead of aclocal-1.4 to fix FTBFS with --as-needed;
  Debian's autoreconf patch doesn't work with --as-needed
  - update debian/control
  - update debian/rules
* Disable Debian's autoreconf patch (since we're using dh-autoreconf)
  - update debian/patches/series

6. By Micah Gersten on 2011-12-11

* Add -pthread to LIBS instead of LDFLAGS; fixes FTBFS with --as-needed
  - update configure.in
* Add automake1.4 to fix FTBFS for missing aclocal-1.4
  - update debian/control

5. By Andreas Tille on 2009-09-13

[ Charles Plessy ]
* debian/control:
  - Enhances bioperl-run instead of bioperl.
  - Incremented Standards-Version to reflect conformance with Policy
    3.8.3 (no changes needed).

[ Andreas Tille ]
* debian/control
  - s/libreadline5-dev/libreadline-dev/
  - s/Debian-Med/Debian Med/

4. By Charles Plessy on 2008-10-20

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.

3. By Charles Plessy on 2008-07-02

[ 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.

2. By Steffen Möller on 2007-07-02

Initial release (Closes: #431404).

1. By Steffen Möller on 2007-07-02

Import upstream version 1.4.0