[med-svn] [mauve] 01/11: Lets start with mauve (not working yet)

[Andreas Tille]

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tille pushed a commit to branch master
in repository mauve.

commit 982f253847cfbe69c9b9bcb584d72ea55e6fd463
Author: Andreas Tille <tille at debian.org>
Date:   Thu Mar 13 14:26:12 2008 +0000

    Lets start with mauve (not working yet)
---
 debian/README.Debian | 12 ++++++++++++
 debian/changelog     |  5 +++++
 debian/compat        |  1 +
 debian/control       | 37 +++++++++++++++++++++++++++++++++++++
 debian/copyright     | 24 ++++++++++++++++++++++++
 debian/rules         |  6 ++++++
 debian/watch         |  3 +++
 7 files changed, 88 insertions(+)

diff --git a/debian/README.Debian b/debian/README.Debian
new file mode 100644
index 0000000..e2e9561
--- /dev/null
+++ b/debian/README.Debian
@@ -0,0 +1,12 @@
+Mauve for Debian
+----------------
+
+ATTENTION:
+This package build-depends from libclustalw which has some
+license issues and thus can not be distributed by Debian
+for the moment.  There are unofficial packages avialable
+from
+
+   http://people.debian.org/~tille/packages/libclustalw/
+
+ -- Andreas Tille <tille at debian.org>  Thu, 14 Feb 2008 22:13:45 +0100
diff --git a/debian/changelog b/debian/changelog
new file mode 100644
index 0000000..01ec944
--- /dev/null
+++ b/debian/changelog
@@ -0,0 +1,5 @@
+mauve (2.1.1-1) unstable; urgency=low
+
+  * Initial release (Closes: #??????)
+
+ -- Andreas Tille <tille at debian.org>  Thu, 13 Mar 2008 15:16:59 +0100
diff --git a/debian/compat b/debian/compat
new file mode 100644
index 0000000..1e8b314
--- /dev/null
+++ b/debian/compat
@@ -0,0 +1 @@
+6
diff --git a/debian/control b/debian/control
new file mode 100644
index 0000000..5756fca
--- /dev/null
+++ b/debian/control
@@ -0,0 +1,37 @@
+Source: mauve
+Priority: optional
+Maintainer: Debian-Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+DM-Upload-Allowed: yes
+Uploaders: Andreas Tille <tille at debian.org>
+Build-Depends: debhelper (>= 6), cdbs, quilt, libmems-1.5-1-dev
+Standards-Version: 3.7.3
+Section: science
+Homepage: http://asap.ahabs.wisc.edu/mauve/
+Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/mauve/?rev=0&sc=0
+Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/mauve/trunk/
+
+Package: mauve
+Section: science
+Architecture: any
+Depends: ${devlibs:Depends}
+Description: multiple genome alignment
+ Mauve is a system for efficiently constructing multiple genome alignments
+ in the presence of large-scale evolutionary events such as rearrangement
+ and inversion. Multiple genome alignment provides a basis for research
+ into comparative genomics and the study of evolutionary dynamics.  Aligning
+ whole genomes is a fundamentally different problem than aligning short
+ sequences.
+ .
+ Mauve has been developed with the idea that a multiple genome aligner
+ should require only modest computational resources. It employs algorithmic
+ techniques that scale well in the amount of sequence being aligned. For
+ example, a pair of Y. pestis genomes can be aligned in under a minute,
+ while a group of 9 divergent Enterobacterial genomes can be aligned in
+ a few hours.
+ .
+ Mauve computes and interactively visualizes genome sequence comparisons.
+ Using FastA or GenBank sequence data, Mauve constructs multiple genome
+ alignments that identify large-scale rearrangement, gene gain, gene loss,
+ indels, and nucleotide substutition.
+ .
+ Mauve is developed at the University of Wisconsin.
diff --git a/debian/copyright b/debian/copyright
new file mode 100644
index 0000000..e97b221
--- /dev/null
+++ b/debian/copyright
@@ -0,0 +1,24 @@
+X-Format-Specification: http://wiki.debian.org/Proposals/CopyrightFormat
+X-Debianized-By: Andreas Tille <tille at debian.org>
+X-Debinized-Date: Thu, 13 Mar 2008 15:16:59 +0100
+X-Source-Downloaded-From: http://gel.ahabs.wisc.edu/mauve/source/mauve_2.1.1/
+X-Upstream-Author: © 2003, 2004, 2005, 2006, 2007, Aaron Darling -- darling at cs.wisc.edu
+
+Files: debian/*
+Copyright: © 2008, Andreas Tille <tille at debian.org>
+License: GPL-2+
+ This package is free software; you can redistribute it and/or modify
+ it under the terms of the GNU General Public License as published by
+ the Free Software Foundation; either version 2 of the License, or
+ (at your option) any later version.
+
+Files: *
+Copyright: © 2003, 2004, 2005, 2006, 2007, Aaron Darling -- darling at cs.wisc.edu
+
+License: GPL-2
+ This package is free software; you can redistribute it and/or modify
+ it under the terms of the GNU General Public License as published by
+ the Free Software Foundation version 2 of the License.
+
+On Debian systems, the complete text of the licenses can be found in:
+GPL-2 - `/usr/share/common-licenses/GPL-2'
diff --git a/debian/rules b/debian/rules
new file mode 100755
index 0000000..a58173b
--- /dev/null
+++ b/debian/rules
@@ -0,0 +1,6 @@
+#!/usr/bin/make -f
+
+include /usr/share/cdbs/1/rules/patchsys-quilt.mk
+include /usr/share/cdbs/1/rules/debhelper.mk
+include /usr/share/cdbs/1/class/ant.mk
+
diff --git a/debian/watch b/debian/watch
new file mode 100644
index 0000000..5f508b7
--- /dev/null
+++ b/debian/watch
@@ -0,0 +1,3 @@
+version=3
+
+http://gel.ahabs.wisc.edu/mauve/source/mauve_(.*)/mauve-(.*)\.tar\.gz

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