[Bug 229784] [NEW] Please sync clustalw 2.0.6-1 (multiverse) from Debian unstable (non-free).

[Ryan Kavanagh]

Public bug reported:

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 affects ubuntu/clustalw
 status new
 importance wishlist
 subscribe ubuntu-universe-sponsors

Please sync clustalw 2.0.6-1 (multiverse) from Debian unstable (non-
free).


Explanation of the Ubuntu delta and why it can be dropped:

The clustalw.1 patch that does:

- -Prints a short help. Warning: the syntax of the options is the VMS one. For
- -Unix, change the / to a - and type the option name in lower case.
+Prints a short help. Warning: type the option name in lower case.

from 1.83-3ubuntu1 (LP: #182049), it can be dropped since the man page was
completely rewritten 2.0.5-1.

Changelog since current intrepid version 1.83-3ubuntu1:

clustalw (2.0.6-1) unstable; urgency=low

  [Charles Plessy]
  * New upstream release:
    - Bugs fixed (fasta input performance, segfault with secondary structure
      mask)
    - Allows mixed-case command line options.
    - Removed unncessary id console output in EMBLFileParser.cpp
  * Updated my email address (debian/control, debian/copyright,
    debian/clustaw.1*).
  * debian/patches/bug_119_gpp4.3-autoptr.patch: upstream patch to build
    clustalw with g++-4.3.

  [Morten Kjeldgaard]
  * debian/clustalw.1*: restored the introduction from Stéphane
    Bortzmeyer original manpage.
  * debian/copyright: updated information about the manpage.

 -- Charles Plessy <plessy at debian.org>  Fri, 02 May 2008 10:38:25 +0900

clustalw (2.0.5-1) unstable; urgency=low

  * New upstream release (fixes problems with gaps).
  * debian/copyright:
    Added a X-Non-Free-Autobuild field to fullfill requirements from
    http://lists.debian.org/msgid-search/20061129152824.GT2560@mails.so.argh.org
  * Updated CHANGELOG from http://www.clustal.org/download/current/CHANGELOG
  * debian/clustalw.1.xml, rewritten from scratch.
  * debian/clustalw.q: updated from the DocBook sources (Closes: #463591).

 -- Charles Plessy <charles-debian-nospam at plessy.org>  Thu, 20 Mar 2008
15:42:38 +0900

clustalw (2.0.4-1) unstable; urgency=low

  [ Steffen Moeller ]
  * New upstream release
    - Includes new code for UPGMA guide trees. (v. 2.0.0)
    - Includes iterative alignment facility. (v. 2.0.0)
    - fixed bug where Pseudo -FASTA format files were not being processed
      as previously in v1.83 (v. 2.0.3)
    - fixed other bugs to behave more like 1.83, and introduced a new
      '-fullhelp' option. (v 2.0.4) 
  * updated debian/watch
  * moved clustalw.1 into debian folder (easier to work
    with svn-buildpackage)
  * removed README and LICENSE from svn since these are
    now distributed with the upstream sources

  [ Charles Plessy ]
  * debian/copyright made machine-readable.
  * Clustal X is now built in a separate source package.
    (Closes: #469442, #469443)
  * Switched to CDBS.
  * Added lintian override for the presence of /usr/share/doc/clustalw/LICENSE.
  * debian/control:
    - Allowed upload by Debian maintainers.
    - Checked conformance with Policy 3.7.3 (no changes needed).

  [ David Paleino ]
  * debian/control:
    - fixed Debian capitalisation (see bug #456582)

 -- Charles Plessy <charles-debian-nospam at plessy.org>  Sun, 09 Mar 2008
22:28:10 +0900


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** Affects: clustalw (Ubuntu)
     Importance: Wishlist
         Status: New

-- 
Please sync clustalw 2.0.6-1 (multiverse) from Debian unstable (non-free).
https://bugs.launchpad.net/bugs/229784
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