Bug#644925: marked as done (ITP: jellyfish -- count k-mers of DNA)
Your message dated Tue, 11 Oct 2011 17:03:36 +0000
with message-id <E1RDfjs-0004rk-GR@franck.debian.org>
and subject line Bug#644925: fixed in jellyfish 1.1.2-1
has caused the Debian Bug report #644925,
regarding ITP: jellyfish -- count k-mers of DNA
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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--
644925: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=644925
Debian Bug Tracking System
Contact owner@bugs.debian.org with problems
--- Begin Message ---
Package: wnpp
Severity: wishlist
Package name: jellyfish
Version: 1.1.2
Upstream author: Guillaume Marçais <gmarcais@umd.edu>
License: GPL-3+
Description: count k-mers of DNA
JELLYFISH is a tool for fast, memory-efficient counting of k-mers in
DNA. A k-mer is a substring of length k, and counting the occurrences
of all such substrings is a central step in many analyses of DNA
sequence. JELLYFISH can count k-mers using an order of magnitude less
memory and an order of magnitude faster than other k-mer counting
packages by using an efficient encoding of a hash table and by
exploiting the "compare-and-swap" CPU instruction to increase
parallelism.
.
JELLYFISH is a command-line program that reads FASTA and multi-FASTA
files containing DNA sequences. It outputs its k-mer counts in an
binary format, which can be translated into a human-readable text
format using the "jellyfish dump" command.
.
If you use JELLYFISH in your research, please cite:
Guillaume Marcais and Carl Kingsford, A fast, lock-free approach for
efficient parallel counting of occurrences of k-mers. Bioinformatics
(2011) 27(6): 764-770 (first published online January 7, 2011)
doi:10.1093/bioinformatics/btr011
--- End Message ---
--- Begin Message ---
Source: jellyfish
Source-Version: 1.1.2-1
We believe that the bug you reported is fixed in the latest version of
jellyfish, which is due to be installed in the Debian FTP archive:
jellyfish_1.1.2-1.debian.tar.gz
to main/j/jellyfish/jellyfish_1.1.2-1.debian.tar.gz
jellyfish_1.1.2-1.dsc
to main/j/jellyfish/jellyfish_1.1.2-1.dsc
jellyfish_1.1.2-1_amd64.deb
to main/j/jellyfish/jellyfish_1.1.2-1_amd64.deb
jellyfish_1.1.2.orig.tar.gz
to main/j/jellyfish/jellyfish_1.1.2.orig.tar.gz
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 644925@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Shaun Jackman <sjackman@debian.org> (supplier of updated jellyfish 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@debian.org)
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA1
Format: 1.8
Date: Mon, 10 Oct 2011 11:49:11 -0700
Source: jellyfish
Binary: jellyfish
Architecture: source amd64
Version: 1.1.2-1
Distribution: unstable
Urgency: low
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Changed-By: Shaun Jackman <sjackman@debian.org>
Description:
jellyfish - count k-mers in DNA sequences
Closes: 644925
Changes:
jellyfish (1.1.2-1) unstable; urgency=low
.
* Initial release. Closes: #644925.
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--- End Message ---
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