Bug#813385: marked as done (ITP: reapr -- universal tool for genome assembly evaluation)
Your message dated Fri, 26 Feb 2016 09:03:01 +0000
with message-id <E1aZEIf-00008Q-0D@franck.debian.org>
and subject line Bug#813385: fixed in reapr 1.0.18+dfsg-1
has caused the Debian Bug report #813385,
regarding ITP: reapr -- universal tool for genome assembly evaluation
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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813385: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=813385
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--- Begin Message ---
Package: wnpp
Severity: wishlist
Owner: Sascha Steinbiss <satta@tetrinetsucht.de>
* Package name : reapr
Version : 1.0.18
Upstream Author : Martin Hunt <martin.hunt@sanger.ac.uk>
* URL : http://www.sanger.ac.uk/science/tools/reapr
* License : GPL
Programming Lang: C++, Perl
Description : universal tool for genome assembly evaluation
REAPR is a tool that evaluates the accuracy of a genome assembly using mapped
paired end reads, without the use of a reference genome for comparison. It can
be used in any stage of an assembly pipeline to automatically break incorrect
scaffolds and flag other errors in an assembly for manual inspection. It
reports mis-assemblies and other warnings, and produces a new broken assembly
based on the error calls.
The software requires as input an assembly in FASTA format and paired reads
mapped to the assembly in a BAM file. Mapping information such as the fragment
coverage and insert size distribution is analysed to locate mis-assemblies.
REAPR works best using mapped read pairs from a large insert library (at least
1000bp). Additionally, if a short insert Illumina library is also available,
REAPR can combine this with the large insert library in order to score each
base of the assembly.
This package will be maintained under the umbrella of the Debian Med Packaging
Team.
--- End Message ---
--- Begin Message ---
Source: reapr
Source-Version: 1.0.18+dfsg-1
We believe that the bug you reported is fixed in the latest version of
reapr, 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 813385@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Sascha Steinbiss <sascha@steinbiss.name> (supplier of updated reapr 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: Thu, 25 Feb 2016 11:10:05 +0000
Source: reapr
Binary: reapr
Architecture: source amd64
Version: 1.0.18+dfsg-1
Distribution: unstable
Urgency: low
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Changed-By: Sascha Steinbiss <sascha@steinbiss.name>
Description:
reapr - universal tool for genome assembly evaluation
Closes: 813385
Changes:
reapr (1.0.18+dfsg-1) unstable; urgency=low
.
* Initial release (Closes: #813385)
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