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Bug#808690: marked as done (ITP: fsa -- Fast Statistical Alignment of protein, RNA or DNA sequences)

Your message dated Thu, 16 Jun 2016 01:00:45 +0000
with message-id <E1bDLfp-0002yj-0S@franck.debian.org>
and subject line Bug#808690: fixed in fsa 1.15.9+dfsg-1
has caused the Debian Bug report #808690,
regarding ITP: fsa -- Fast Statistical Alignment of protein, RNA or DNA sequences
to be marked as done.

This means that you claim that the problem has been dealt with.
If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.

(NB: If you are a system administrator and have no idea what this
message is talking about, this may indicate a serious mail system
misconfiguration somewhere. Please contact owner@bugs.debian.org
immediately.)


-- 
808690: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=808690
Debian Bug Tracking System
Contact owner@bugs.debian.org with problems
--- Begin Message --- 
Package: wnpp
Severity: wishlist
Owner: Andreas Tille <tille@debian.org>

* Package name    : fsa
  Version         : 1.15.9
  Upstream Author : Ariel Schwartz, Chuong Do, Robert Bradley, Jaeyoung Do, Colin Dewey, Ian Holmes, Lars Barquist
* URL             : http://fsa.sourceforge.net/
* License         : GPL
  Programming Lang: C
  Description     : Fast Statistical Alignment of protein, RNA or DNA sequences
 FSA is a probabilistic multiple sequence alignment algorithm which uses
 a "distance-based" approach to aligning homologous protein, RNA or DNA
 sequences. Much as distance-based phylogenetic reconstruction methods
 like Neighbor-Joining build a phylogeny using only pairwise divergence
 estimates, FSA builds a multiple alignment using only pairwise
 estimations of homology. This is made possible by the sequence annealing
 technique for constructing a multiple alignment from pairwise
 comparisons, developed by Ariel Schwartz.
 .
 FSA brings the high accuracies previously available only for
 small-scale analyses of proteins or RNAs to large-scale problems such as
 aligning thousands of sequences or megabase-long sequences. FSA
 introduces several novel methods for constructing better alignments:
  * FSA uses machine-learning techniques to estimate gap and
    substitution parameters on the fly for each set of input sequences.
    This "query-specific learning" alignment method makes FSA very robust:
    it can produce superior alignments of sets of homologous sequences
    which are subject to very different evolutionary constraints.
  * FSA is capable of aligning hundreds or even thousands of sequences
    using a randomized inference algorithm to reduce the computational
    cost of multiple alignment. This randomized inference can be over ten
    times faster than a direct approach with little loss of accuracy.
  * FSA can quickly align very long sequences using the "anchor
    annealing" technique for resolving anchors and projecting them with
    transitive anchoring. It then stitches together the alignment between
    the anchors using the methods described above.
  * The included GUI, MAD (Multiple Alignment Display), can display the
    intermediate alignments produced by FSA, where each character is
    colored according to the probability that it is correctly aligned


Remark: This package enhances the package t-coffee also maintained by
the Debian Med team.  The packaging can be found at

    git://anonscm.debian.org/debian-med/fsa.git

--- End Message ---
--- Begin Message --- 
Source: fsa
Source-Version: 1.15.9+dfsg-1

We believe that the bug you reported is fixed in the latest version of
fsa, which is due to be installed in the Debian FTP archive.

A summary of the changes between this version and the previous one is
attached.

Thank you for reporting the bug, which will now be closed.  If you
have further comments please address them to 808690@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.

Debian distribution maintenance software
pp.
Andreas Tille <tille@debian.org> (supplier of updated fsa package)

(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing ftpmaster@ftp-master.debian.org)


-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256

Format: 1.8
Date: Tue, 31 May 2016 10:27:53 +0200
Source: fsa
Binary: fsa
Architecture: source amd64
Version: 1.15.9+dfsg-1
Distribution: unstable
Urgency: low
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
 fsa        - Fast Statistical Alignment of protein, RNA or DNA sequences
Closes: 808690
Changes:
 fsa (1.15.9+dfsg-1) unstable; urgency=low
 .
   * Initial release (Closes: #808690)
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 bff4c2f27d54db9891d70e2e314bafecf801cabb 558688 fsa_1.15.9+dfsg.orig.tar.xz
 7c0e936e5158cc26d044e001222542e5b29523c1 7664 fsa_1.15.9+dfsg-1.debian.tar.xz
 e4bacb099c58e5bee4350ebac6f50d4414ddfd1e 12740108 fsa-dbgsym_1.15.9+dfsg-1_amd64.deb
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Checksums-Sha256:
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Files:
 d5bce147c4d41e472d4bc55e1643016c 1935 science optional fsa_1.15.9+dfsg-1.dsc
 8d6b1b18195dc5262113b1d363de88bf 558688 science optional fsa_1.15.9+dfsg.orig.tar.xz
 6ceaec19c432b83b832452ef6498b73a 7664 science optional fsa_1.15.9+dfsg-1.debian.tar.xz
 2f8fab552b1144c098a715761fe14955 12740108 debug extra fsa-dbgsym_1.15.9+dfsg-1_amd64.deb
 502c36ff174327ed5003340d662a078f 776548 science optional fsa_1.15.9+dfsg-1_amd64.deb

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