[med-svn] r6172 - in trunk/packages: . seq-gen seq-gen/trunk seq-gen/trunk/debian seq-gen/trunk/debian/source
Alex Mestiashvili
malex-guest at alioth.debian.org
Mon Mar 7 12:28:30 UTC 2011
Author: malex-guest
Date: 2011-03-07 12:28:29 +0000 (Mon, 07 Mar 2011)
New Revision: 6172
Added:
trunk/packages/seq-gen/
trunk/packages/seq-gen/trunk/
trunk/packages/seq-gen/trunk/debian/
trunk/packages/seq-gen/trunk/debian/README.Debian
trunk/packages/seq-gen/trunk/debian/README.source
trunk/packages/seq-gen/trunk/debian/changelog
trunk/packages/seq-gen/trunk/debian/compat
trunk/packages/seq-gen/trunk/debian/control
trunk/packages/seq-gen/trunk/debian/copyright
trunk/packages/seq-gen/trunk/debian/docs
trunk/packages/seq-gen/trunk/debian/get-orig-source
trunk/packages/seq-gen/trunk/debian/rules
trunk/packages/seq-gen/trunk/debian/seq-gen-doc.docs
trunk/packages/seq-gen/trunk/debian/seq-gen-doc.install
trunk/packages/seq-gen/trunk/debian/seq-gen.docs
trunk/packages/seq-gen/trunk/debian/seq-gen.examples
trunk/packages/seq-gen/trunk/debian/seq-gen.install
trunk/packages/seq-gen/trunk/debian/source/
trunk/packages/seq-gen/trunk/debian/source/format
trunk/packages/seq-gen/trunk/debian/watch
Log:
initial upload for seq-gen
Added: trunk/packages/seq-gen/trunk/debian/README.Debian
===================================================================
--- trunk/packages/seq-gen/trunk/debian/README.Debian (rev 0)
+++ trunk/packages/seq-gen/trunk/debian/README.Debian 2011-03-07 12:28:29 UTC (rev 6172)
@@ -0,0 +1,6 @@
+seq-gen for Debian
+------------------
+
+<possible notes regarding this package - if none, delete this file>
+
+ -- Alex Mestiashvili <alex at biotec.tu-dresden.de> Thu, 03 Mar 2011 14:58:34 +0000
Added: trunk/packages/seq-gen/trunk/debian/README.source
===================================================================
--- trunk/packages/seq-gen/trunk/debian/README.source (rev 0)
+++ trunk/packages/seq-gen/trunk/debian/README.source 2011-03-07 12:28:29 UTC (rev 6172)
@@ -0,0 +1,9 @@
+seq-gen for Debian
+------------------
+
+<this file describes information about the source package, see Debian policy
+manual section 4.14. You WILL either need to modify or delete this file>
+
+
+
+
Added: trunk/packages/seq-gen/trunk/debian/changelog
===================================================================
--- trunk/packages/seq-gen/trunk/debian/changelog (rev 0)
+++ trunk/packages/seq-gen/trunk/debian/changelog 2011-03-07 12:28:29 UTC (rev 6172)
@@ -0,0 +1,5 @@
+seq-gen (1.3.2-1) unstable; urgency=low
+
+ * Initial release (Closes: #nnnn) <nnnn is the bug number of your ITP>
+
+ -- Alex Mestiashvili <alex at biotec.tu-dresden.de> Thu, 03 Mar 2011 14:58:34 +0000
Added: trunk/packages/seq-gen/trunk/debian/compat
===================================================================
--- trunk/packages/seq-gen/trunk/debian/compat (rev 0)
+++ trunk/packages/seq-gen/trunk/debian/compat 2011-03-07 12:28:29 UTC (rev 6172)
@@ -0,0 +1 @@
+7
Added: trunk/packages/seq-gen/trunk/debian/control
===================================================================
--- trunk/packages/seq-gen/trunk/debian/control (rev 0)
+++ trunk/packages/seq-gen/trunk/debian/control 2011-03-07 12:28:29 UTC (rev 6172)
@@ -0,0 +1,30 @@
+Source: seq-gen
+Section: unknown
+Priority: extra
+Maintainer: Alex Mestiashvili <alex at biotec.tu-dresden.de>
+Build-Depends: debhelper (>= 7.0.50~)
+Standards-Version: 3.9.1
+Homepage: http://tree.bio.ed.ac.uk/software/seqgen/
+#Vcs-Git: git://git.debian.org/collab-maint/seq-gen.git
+#Vcs-Browser: http://git.debian.org/?p=collab-maint/seq-gen.git;a=summary
+
+Package: seq-gen
+Architecture: any
+Depends: ${shlibs:Depends}, ${misc:Depends}
+Description: simulate the evolution of nucleotide or amino acid sequences
+ Seq-Gen is a program that will simulate the evolution of nucleotide
+ or amino acid sequences along a phylogeny, using common models of the
+ substitution process. A range of models of molecular evolution are
+ implemented including the general reversible model. State frequencies
+ and other parameters of the model may be given and site-specific rate
+ heterogeneity may also be incorporated in a number of ways. Any number
+ of trees may be read in and the program will produce any number of data
+ sets for each tree. Thus large sets of replicate simulations can be
+ easily created. It has been designed to be a general purpose simulator
+ that incorporates most of the commonly used
+ (and computationally tractable) models of molecular sequence evolution.
+
+Package: seq-gen-doc
+Architecture: all
+Description: documentation for seq-gen
+
Added: trunk/packages/seq-gen/trunk/debian/copyright
===================================================================
--- trunk/packages/seq-gen/trunk/debian/copyright (rev 0)
+++ trunk/packages/seq-gen/trunk/debian/copyright 2011-03-07 12:28:29 UTC (rev 6172)
@@ -0,0 +1,40 @@
+Format: http://dep.debian.net/deps/dep5
+Upstream-Name: seq-gen
+Source: <url://example.com>
+
+Files: *
+Copyright: <years> <put author's name and email here>
+ <years> <likewise for another author>
+License: GPL-3.0+
+
+Files: debian/*
+Copyright: 2011 Alex Mestiashvili <alex at biotec.tu-dresden.de>
+License: GPL-3.0+
+
+License: GPL-3.0+
+ 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 3 of the License, or
+ (at your option) any later version.
+ .
+ This package 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, see <http://www.gnu.org/licenses/>.
+ .
+ On Debian systems, the complete text of the GNU General
+ Public License version 3 can be found in "/usr/share/common-licenses/GPL-3".
+
+# Please choose a license for your packaging work. If the program you package
+# uses a mainstream license, using the same license is the safest choice.
+# Please avoid to pick license terms that are more restrictive than the
+# packaged work, as it may make Debian's contributions unacceptable upstream.
+# If you just want it to be GPL version 3, leave the following line in.
+
+and is licensed under the GPL version 3, see above.
+
+# Please also look if there are files or directories which have a
+# different copyright/license attached and list them here.
Added: trunk/packages/seq-gen/trunk/debian/docs
===================================================================
--- trunk/packages/seq-gen/trunk/debian/docs (rev 0)
+++ trunk/packages/seq-gen/trunk/debian/docs 2011-03-07 12:28:29 UTC (rev 6172)
@@ -0,0 +1 @@
+README
Added: trunk/packages/seq-gen/trunk/debian/get-orig-source
===================================================================
--- trunk/packages/seq-gen/trunk/debian/get-orig-source (rev 0)
+++ trunk/packages/seq-gen/trunk/debian/get-orig-source 2011-03-07 12:28:29 UTC (rev 6172)
@@ -0,0 +1,33 @@
+#!/bin/bash
+
+PKG=`dpkg-parsechangelog | awk '/Source:/ {print $2}'`
+
+if ! echo $@ | grep -q upstream-version ; then
+ VERSION=`dpkg-parsechangelog | awk '/^Version:/ { print $2 }' | sed 's/\([0-9\.]\+\)-[0-9]\+$/\1/'`
+else
+ VERSION=`echo $@ | sed 's?^.*--upstream-version \([0-9.]\+\) .*download.html.*?\1?'`
+ if echo "$VERSION" | grep -q "upstream-version" ; then
+ echo "Unable to parse version number"
+ exit
+ fi
+fi
+
+mkdir -p ../tarballs
+
+DLOADID=`grep "click here to start the downloa" ../download.html | awk -F'<a href="' '{split($2,array,"\">");print array[1]}'`
+SITE=`awk -F"\/" '/http/{print $1"/"$2"/"$3"/"}' debian/watch`
+wget $SITE/$DLOADID -O ../tarballs/${PKG}_${VERSION}.tgz
+
+rm -f ../download.html
+
+mkdir ../tarballs/${PKG}-${VERSION}
+
+tar -xvzf ../tarballs/${PKG}_${VERSION}.tgz -C ../tarballs/${PKG}-${VERSION}/ --strip-components=1
+
+cd ../tarballs
+GZIP="--best --no-name" tar -czf "$PKG"_"$VERSION".orig.tar.gz "$PKG"-"$VERSION"
+rm -rf "$PKG"-"$VERSION"
+rm -f "$PKG"_"$VERSION.tgz"
+
+echo `tput bold` "${PKG}_${VERSION}.orig.tar.gz is located in ../tarballs"
+tput sgr0
Property changes on: trunk/packages/seq-gen/trunk/debian/get-orig-source
___________________________________________________________________
Added: svn:executable
+ *
Added: trunk/packages/seq-gen/trunk/debian/rules
===================================================================
--- trunk/packages/seq-gen/trunk/debian/rules (rev 0)
+++ trunk/packages/seq-gen/trunk/debian/rules 2011-03-07 12:28:29 UTC (rev 6172)
@@ -0,0 +1,12 @@
+#!/usr/bin/make -f
+# -*- makefile -*-
+
+# Uncomment this to turn on verbose mode.
+#export DH_VERBOSE=1
+
+# This has to be exported to make some magic below work.
+export DH_OPTIONS
+
+
+%:
+ dh $@ --sourcedirectory=source
Property changes on: trunk/packages/seq-gen/trunk/debian/rules
___________________________________________________________________
Added: svn:executable
+ *
Added: trunk/packages/seq-gen/trunk/debian/seq-gen-doc.docs
===================================================================
--- trunk/packages/seq-gen/trunk/debian/seq-gen-doc.docs (rev 0)
+++ trunk/packages/seq-gen/trunk/debian/seq-gen-doc.docs 2011-03-07 12:28:29 UTC (rev 6172)
@@ -0,0 +1 @@
+#DOCS#
Added: trunk/packages/seq-gen/trunk/debian/seq-gen-doc.install
===================================================================
--- trunk/packages/seq-gen/trunk/debian/seq-gen-doc.install (rev 0)
+++ trunk/packages/seq-gen/trunk/debian/seq-gen-doc.install 2011-03-07 12:28:29 UTC (rev 6172)
@@ -0,0 +1 @@
+#DOCS#
Added: trunk/packages/seq-gen/trunk/debian/seq-gen.docs
===================================================================
--- trunk/packages/seq-gen/trunk/debian/seq-gen.docs (rev 0)
+++ trunk/packages/seq-gen/trunk/debian/seq-gen.docs 2011-03-07 12:28:29 UTC (rev 6172)
@@ -0,0 +1 @@
+README
Added: trunk/packages/seq-gen/trunk/debian/seq-gen.examples
===================================================================
--- trunk/packages/seq-gen/trunk/debian/seq-gen.examples (rev 0)
+++ trunk/packages/seq-gen/trunk/debian/seq-gen.examples 2011-03-07 12:28:29 UTC (rev 6172)
@@ -0,0 +1 @@
+examples/*
Added: trunk/packages/seq-gen/trunk/debian/seq-gen.install
===================================================================
--- trunk/packages/seq-gen/trunk/debian/seq-gen.install (rev 0)
+++ trunk/packages/seq-gen/trunk/debian/seq-gen.install 2011-03-07 12:28:29 UTC (rev 6172)
@@ -0,0 +1 @@
+source/seq-gen /usr/bin/
Added: trunk/packages/seq-gen/trunk/debian/source/format
===================================================================
--- trunk/packages/seq-gen/trunk/debian/source/format (rev 0)
+++ trunk/packages/seq-gen/trunk/debian/source/format 2011-03-07 12:28:29 UTC (rev 6172)
@@ -0,0 +1 @@
+3.0 (quilt)
Added: trunk/packages/seq-gen/trunk/debian/watch
===================================================================
--- trunk/packages/seq-gen/trunk/debian/watch (rev 0)
+++ trunk/packages/seq-gen/trunk/debian/watch 2011-03-07 12:28:29 UTC (rev 6172)
@@ -0,0 +1,15 @@
+# Example watch control file for uscan
+# Rename this file to "watch" and then you can run the "uscan" command
+# to check for upstream updates and more.
+# See uscan(1) for format
+
+# Compulsory line, this is a version 3 file
+version=3
+
+
+http://tree.bio.ed.ac.uk/software/seqgen \
+ /download\.html\?name=seqgen&version=v(.*)&id=41&num=1 \
+ debian debian/get-orig-source
+
+
+
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