Bug#744960: marked as done (ITP: smalt -- Sequence Mapping and Alignment Tool)
Your message dated Thu, 24 Apr 2014 18:00:10 +0000
with message-id <E1WdNwQ-00086j-L6@franck.debian.org>
and subject line Bug#744960: fixed in smalt 0.7.6-1
has caused the Debian Bug report #744960,
regarding ITP: smalt -- Sequence Mapping and Alignment Tool
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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--
744960: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=744960
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 : smalt
Version : 0.7.6
Upstream Author : Hannes Ponstingl <hp3@sanger.ac.uk>
* URL : http://www.sanger.ac.uk/resources/software/smalt/
* License : GPL
Programming Lang: C
Description : Sequence Mapping and Alignment Tool
SMALT efficiently aligns DNA sequencing reads with a reference genome.
It Reads from a wide range of sequencing platforms, for example Illumina,
Roche-454, Ion Torrent, PacBio or ABI-Sanger, can be processed including
paired reads.
.
The software employs a perfect hash index of short words (< 20
nucleotides long), sampled at equidistant steps along the genomic
reference sequences.
.
For each read, potentially matching segments in the reference are
identified from seed matches in the index and subsequently aligned with
the read using a banded Smith-Waterman algorithm.
.
The best gapped alignments of each read is reported including a score
for the reliability of the best mapping. The user can adjust the
trade-off between sensitivity and speed by tuning the length and spacing
of the hashed words.
.
A mode for the detection of split (chimeric) reads is provided.
Multi-threaded program execution is supported.
This package is maintained by Debian Med team at
Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/smalt/trunk/
--- End Message ---
--- Begin Message ---
Source: smalt
Source-Version: 0.7.6-1
We believe that the bug you reported is fixed in the latest version of
smalt, 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 744960@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 smalt 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, 08 Apr 2014 10:12:51 +0200
Source: smalt
Binary: smalt smalt-examples
Architecture: source amd64 all
Version: 0.7.6-1
Distribution: unstable
Urgency: low
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
smalt - Sequence Mapping and Alignment Tool
smalt-examples - Sequence Mapping and Alignment Tool (examples)
Closes: 744960
Changes:
smalt (0.7.6-1) unstable; urgency=low
.
* Initial release (Closes: #744960)
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--- End Message ---
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