Your message dated Mon, 21 Mar 2016 14:00:23 +0000
with message-id <e1ai0nb-0007i7...@franck.debian.org>
and subject line Bug#818605: fixed in dindel 1.01+dfsg-1
has caused the Debian Bug report #818605,
regarding ITP: dindel -- find insertions and deletions in biological 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.
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--
818605: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=818605
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Package: wnpp
Severity: wishlist
Owner: Steffen Moeller <steffen_moel...@gmx.de>
* Package name : dindel
* URL : https://sites.google.com/site/keesalbers/soft/dindel
* License : GPL-3.0+
Description : find insertions and deletions in biological sequences
The packaging is ready and about to surface on the Debian Med git repository.
Dindel is a program for calling small indels from short-read sequence
data ('next generation sequence data'). It currently is designed to
handle only Illumina data.
.
Dindel requires a BAM file containing the read-alignments as input. It
then extracts candidate indels from the BAM file, and realigns the reads
to candidate haplotypes consisting of these candidate indels. If there
is sufficient evidence for an alternative haplotype to the reference,
it will call an indel.
.
It is possible to test indels discovered with other methods using Dindel,
for instance longer indels obtained through assembly methods. Dindel
will then realign both mapped and unmapped reads to see if the candidate
indel is supported by the reads.
.
Dindel outputs both genotype likelihoods and includes a script to
convert these to a VCF file with indel and SNP calls.
--- End Message ---
--- Begin Message ---
Source: dindel
Source-Version: 1.01+dfsg-1
We believe that the bug you reported is fixed in the latest version of
dindel, 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 818...@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Animesh Sharma <sharma.anim...@gmail.com> (supplier of updated dindel 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 ftpmas...@ftp-master.debian.org)
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256
Format: 1.8
Date: Fri, 18 Mar 2016 10:51:19 +0100
Source: dindel
Binary: dindel
Architecture: source amd64
Version: 1.01+dfsg-1
Distribution: unstable
Urgency: low
Maintainer: Debian Med Packaging Team
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Animesh Sharma <sharma.anim...@gmail.com>
Description:
dindel - determines indel calls from short-read data
Closes: 818605
Changes:
dindel (1.01+dfsg-1) unstable; urgency=low
.
* Initial release (Closes: #818605)
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