Author: gyachdav-guest
Date: 2013-10-07 22:23:01 +0000 (Mon, 07 Oct 2013)
New Revision: 14805
Added:
trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/
trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/
trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/changelog
trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/compat
trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/control
trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/copyright
trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/patches/
trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/patches/series
trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/rate4site.install
trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/rules
trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/source/
trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/source/format
trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/upstream
trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/watch
Log:
init backport release to stable (wheezy)
Added:
trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/changelog
===================================================================
--- trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/changelog
(rev 0)
+++ trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/changelog
2013-10-07 22:23:01 UTC (rev 14805)
@@ -0,0 +1,5 @@
+rate4site (3.0.0-1~bpo70+1) unstable; urgency=low
+
+ * Initial backport release to stable (Closes: #725128).
+
+ -- Guy Yachdav <gyach...@rostlab.org> Tue, 08 Oct 2013 00:22:02 +0200
Added: trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/compat
===================================================================
--- trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/compat
(rev 0)
+++ trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/compat
2013-10-07 22:23:01 UTC (rev 14805)
@@ -0,0 +1 @@
+8
Added: trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/control
===================================================================
--- trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/control
(rev 0)
+++ trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/control
2013-10-07 22:23:01 UTC (rev 14805)
@@ -0,0 +1,36 @@
+Source: rate4site
+Section: science
+Priority: extra
+Maintainer: Debian Med Packaging Team
<debian-med-packag...@lists.alioth.debian.org>
+Uploaders: Guy Yachdav <gyach...@rostlab.org>, Laszlo Kajan <lka...@debian.org>
+Build-Depends: debhelper (>= 9.0.0), automake, autotools-dev
+Standards-Version: 3.9.4
+Homepage: http://www.tau.ac.il/~itaymay/cp/rate4site.html
+Vcs-Browser:
http://anonscm.debian.org/viewvc/debian-med/trunk/packages/rostlab/rate4site
+Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/rostlab/rate4site
+
+Package: rate4site
+Architecture: any
+Pre-Depends: debconf (>= 0.5)
+Depends: ${shlibs:Depends}, ${misc:Depends}
+Description: detector of conserved amino-acid sites
+ Rate4Site calculates the relative evolutionary rate at each site using a
+ probabilistic-based evolutionary model.
+ This allows taking into account the stochastic process underlying sequence
+ evolution within protein families
+ and the phylogenetic tree of the proteins in the family.
+ The conservation score at a site corresponds to the site's evolutionary rate.
+
+Package: rate4site-dbg
+Architecture: any
+Section: debug
+Depends: rate4site (= ${binary:Version}), ${misc:Depends}
+Description: debugging symbols for rate4site-dbg
+ Rate4Site calculates the relative evolutionary rate at each site using a
+ probabilistic-based evolutionary model.
+ This allows taking into account the stochastic process underlying sequence
+ evolution within protein families
+ and the phylogenetic tree of the proteins in the family.
+ The conservation score at a site corresponds to the site's evolutionary rate.
+ .
+ This package provides the detached debug symbols for rate4site.
Added:
trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/copyright
===================================================================
--- trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/copyright
(rev 0)
+++ trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/copyright
2013-10-07 22:23:01 UTC (rev 14805)
@@ -0,0 +1,55 @@
+Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
+Upstream-Name: predictprotein
+Upstream-Contact: Guy Yachdav <gyach...@rostlab.org>
+Source: ftp://rostlab.org/rate4site/
+
+Files: debian/*
+Copyright: 2013 Guy Yachdav <gyach...@rostlab.org>
+License: GPL-2+
+
+Files: src/phylogeny/getopt.h
+Copyright: 1989-1994, 1996-1999, 2001 Free Software Foundation, Inc.
+License: LGPL-2.1+
+
+Files: *
+Copyright: 2013 Nir Ben-Tal
+License: GPL-2+
+
+License: LGPL-2.1+
+ This library is free software; you can redistribute it and/or
+ modify it under the terms of the GNU Lesser General Public
+ License as published by the Free Software Foundation; either
+ version 2.1 of the License, or (at your option) any later version.
+ .
+ This library is distributed in the hope that it will be useful,
+ but WITHOUT ANY WARRANTY; without even the implied warranty of
+ MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
+ Lesser General Public License for more details.
+ .
+ You should have received a copy of the GNU Lesser General Public
+ License along with this library; if not, write to the Free Software
+ Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301
USA
+ .
+ On Debian systems, the full text of the GNU Lesser General Public
+ License version 2.1 can be found in the file
+ `/usr/share/common-licenses/LGPL-2.1'.
+
+
+License: GPL-2+
+ This program 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.
+ .
+ This program is distributed in the hope that it will be useful,
+ but WITHOUT ANY WARRANTY; without even the implied warranty of
+ MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ GNU General Public License for more details.
+ .
+ You should have received a copy of the GNU General Public License along
+ with this program; if not, write to the Free Software Foundation, Inc.,
+ 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA.
+ .
+ On Debian systems, the full text of the GNU General Public
+ License version 2 can be found in the file
+ `/usr/share/common-licenses/GPL-2'.
Added:
trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/patches/series
===================================================================
Added:
trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/rate4site.install
===================================================================
---
trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/rate4site.install
(rev 0)
+++
trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/rate4site.install
2013-10-07 22:23:01 UTC (rev 14805)
@@ -0,0 +1,2 @@
+usr/bin/rate4site
+usr/share/man/*
Added: trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/rules
===================================================================
--- trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/rules
(rev 0)
+++ trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/rules
2013-10-07 22:23:01 UTC (rev 14805)
@@ -0,0 +1,18 @@
+#!/usr/bin/make -f
+#export DH_VERBOSE=1
+
+export CPPFLAGS:=$(shell dpkg-buildflags --get CPPFLAGS)
+export CFLAGS:=$(shell dpkg-buildflags --get CFLAGS)
+export CXXFLAGS:=$(shell dpkg-buildflags --get CXXFLAGS)
+export LDFLAGS:=$(shell dpkg-buildflags --get LDFLAGS)
+
+.PHONY: override_dh_strip
+override_dh_strip:
+ dh_strip --dbg-package=rate4site-dbg
+
+get-orig-source:
+ mkdir -p ../tarballs
+ uscan --verbose --force-download --destdir=../tarballs
+
+%:
+ dh $@ --parallel --with autotools_dev
Property changes on:
trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/rules
___________________________________________________________________
Added: svn:executable
+ *
Added:
trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/source/format
===================================================================
---
trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/source/format
(rev 0)
+++
trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/source/format
2013-10-07 22:23:01 UTC (rev 14805)
@@ -0,0 +1 @@
+3.0 (quilt)
Added: trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/upstream
===================================================================
--- trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/upstream
(rev 0)
+++ trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/upstream
2013-10-07 22:23:01 UTC (rev 14805)
@@ -0,0 +1,14 @@
+Bug-Database:
https://rostlab.org/bugzilla3/buglist.cgi?product=rate4site/&component=rate4site/&resolution=---
+Bug-Submit: https://rostlab.org/bugzilla3/enter_bug.cgi?product=rate4site/
+Reference:
+ Author: Mayrose, I., Graur, D., Ben-Tal, N., and Pupko, T.
+ Title: Comparison of site-specific rate-inference methods: Bayesian methods
are superior.
+ Journal: Mol Biol Evol
+ Year: 2004
+ Volume: 21
+ Number: 2
+ Pages: 1781-1791
+ DOI: 10.1093/molbev/msh194
+ PMID: 15201400
+ URL: http://mbe.oxfordjournals.org/content/21/9/1781.abstract
+ eprint: http://mbe.oxfordjournals.org/content/21/9/1781.full
Added: trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/watch
===================================================================
--- trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/watch
(rev 0)
+++ trunk/packages/rostlab/rate4site/branches/3.0.0-1~bpo70+1/debian/watch
2013-10-07 22:23:01 UTC (rev 14805)
@@ -0,0 +1,2 @@
+version=3
+opts=pasv ftp://rostlab.org/rate4site//rate4site-([0-9.]+)\.tar\.gz debian
uupdate
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