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Bug#851342: marked as done (ITP: baitfisher -- package for designing hybrid enrichment probes)

Your message dated Thu, 26 Jan 2017 22:00:11 +0000
with message-id <E1cWs5T-0006G9-1V@fasolo.debian.org>
and subject line Bug#851342: fixed in baitfisher 1.0+dfsg-1
has caused the Debian Bug report #851342,
regarding ITP: baitfisher -- package for designing hybrid enrichment probes
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.

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-- 
851342: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=851342
Debian Bug Tracking System
Contact owner@bugs.debian.org with problems
--- Begin Message ---
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou <osallou@debian.org>

* Package name    : baitfisher
  Version         : 1.0
  Upstream Author : Christoph Mayer
* URL             : https://github.com/cmayer/BaitFisher-package
* License         : GPL
  Programming Lang: C++
  Description     : package for designing hybrid enrichment probes

The BaitFisher package consists of two programs: BaitFisher and
BaitFilter.

BaitFisher was been designed to construct hybrid enrichment baits from
multiple sequence alignments (MSAs) or annotated features in MSAs. The
main goal of BaitFisher is to avoid redundancy in the construction of
baits by designing fewer baits in conserved regions of the MSAs and
designing more baits in variable regions. This makes use of the fact
that hybrid enrichment baits can differ to some extends from the target
region, which they should capture in the enrichment procedure. By
specifying the allowed distance between baits and the sequences in the
MSAs the user can control the allowed bait-to-target distance and the
degree of reduction in the number of baits that are designed. See the
BaitFisher paper for details.

BaitFilter was designed (i) to determine whether baits bind
unspecifically to a reference genome, (ii) to filter baits that only
have partial length matches to a reference genome, (iii) to determine
the optimal bait region in a MSA and to convert baits to a format that
can be uploaded at a bait constructing company. The optimal bait region
can be the most conserved region in the MSA or the region with the
highest number of sequences without gaps or ambiguous nucleotides.

--- End Message ---
--- Begin Message --- 
Source: baitfisher
Source-Version: 1.0+dfsg-1

We believe that the bug you reported is fixed in the latest version of
baitfisher, 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 851342@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.

Debian distribution maintenance software
pp.
Olivier Sallou <osallou@debian.org> (supplier of updated baitfisher 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: Fri, 13 Jan 2017 10:27:13 +0000
Source: baitfisher
Binary: baitfisher
Architecture: source amd64
Version: 1.0+dfsg-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osallou@debian.org>
Description:
 baitfisher - software package for designing hybrid enrichment probes
Closes: 851342
Changes:
 baitfisher (1.0+dfsg-1) unstable; urgency=medium
 .
   * Initial release (Closes: #851342)
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