Your message dated Tue, 25 May 2010 13:22:45 +0900
with message-id <[email protected]>
and subject line No plan to package proalign anymore.
has caused the Debian Bug report #378290,
regarding RFP: proalign -- Probabilistic multiple alignment program
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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--
378290: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=378290
Debian Bug Tracking System
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--- Begin Message ---
Package: wnpp
Severity: wishlist
Owner: Charles Plessy <[email protected]>
Package name : proalign
Version : 0.5alpha1
Upstream Author : Ari Löytynoja & Michel C. Milinkovitch
URL : http://evol-linux1.ulb.ac.be/ueg/ProAlign/
License : (GPL, LGPL, BSD, MIT/X, etc.)
Description : Probabilistic multiple alignment program
ProAlign performs probabilistic sequence alignments using hidden Markov
models (HMM). It includes a graphical interface (GUI) allowing to (i)
perform alignments of nucleotide or amino-acid sequences, (ii) view the
quality of solutions, (iii) filter the unreliable alignment regions and
(iv) export alignments to other softwares.
.
ProAlign uses a progressive method, such that multiple alignment is
created stepwise by performing pairwise alignments in the nodes of a
guide tree. Sequences are described with vectors of character
probabilities, and each pairwise alignment reconstructs the ancestral
(parent) sequence by computing the probabilities of different
characters according to an evolutionary model. It has been published in
Bioinformatics. 2003 Aug 12;19(12):1505-13.
.
Homepage: http://evol-linux1.ulb.ac.be/ueg/ProAlign/
-- System Information:
Debian Release: testing/unstable
APT prefers unstable
APT policy: (500, 'unstable'), (500, 'testing')
Architecture: powerpc (ppc64)
Shell: /bin/sh linked to /bin/bash
Kernel: Linux 2.6.16farm
Locale: LANG=fr_FR.UTF-8, LC_CTYPE=fr_FR.UTF-8 (charmap=UTF-8)
--- End Message ---
--- Begin Message ---
I originally planned to package Proalign in my effort of bringing a large
number of multiple sequence alignment programs in Debian. I think that I have
reached that goal (see http://wiki.debian.org/SequenceAlignment), even
in the absence of Proalign.
For the moment, I will focus my efforts in other areas (in particular
next-generation sequencing). But please feel free to request the packaging of
Proalign if you need it.
--
Charles Plessy
Debian Med packaging team
Tsurumi, Kanagawa, Japan
--- End Message ---
