[med-svn] [probabel] 02/02: Initial commit of debian packaging files. Based on what I already had in place for the Ubuntu PPA package I created before.
Lennart Karssen
lckarssen-guest at moszumanska.debian.org
Sun Dec 8 22:13:17 UTC 2013
This is an automated email from the git hooks/post-receive script.
lckarssen-guest pushed a commit to branch master
in repository probabel.
commit 5bbc713e96609b80d2e835a648a53390ec467765
Author: L.C. Karssen <lennart at karssen.org>
Date: Sun Dec 8 23:09:50 2013 +0100
Initial commit of debian packaging files. Based on what I already had in place for the Ubuntu PPA package I created before.
---
debian/changelog | 5 +++++
debian/compat | 1 +
debian/control | 19 +++++++++++++++++++
debian/copyright | 28 ++++++++++++++++++++++++++++
debian/get-orig-source | 45 +++++++++++++++++++++++++++++++++++++++++++++
debian/rules | 23 +++++++++++++++++++++++
debian/source/format | 1 +
debian/upstream | 12 ++++++++++++
debian/watch | 23 +++++++++++++++++++++++
9 files changed, 157 insertions(+)
diff --git a/debian/changelog b/debian/changelog
new file mode 100644
index 0000000..f2440cc
--- /dev/null
+++ b/debian/changelog
@@ -0,0 +1,5 @@
+probabel (0.4.1-1) unstable; urgency=low
+
+ * Initial release (Closes: #<bug>)
+
+ -- DMPT <debian-med-packaging at lists.alioth.debian.org> Sun, 08 Dec 2013 16:06:13 +0100
diff --git a/debian/compat b/debian/compat
new file mode 100644
index 0000000..ec63514
--- /dev/null
+++ b/debian/compat
@@ -0,0 +1 @@
+9
diff --git a/debian/control b/debian/control
new file mode 100644
index 0000000..2486359
--- /dev/null
+++ b/debian/control
@@ -0,0 +1,19 @@
+Source: probabel
+Section: science
+Priority: optional
+Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Uploaders: Andreas Tille <tille at debian.org>
+Build-Depends: debhelper (>= 9), autotools-dev, texlive-latex-base, texlive-latex-extra, latex-xcolor, libeigen3-dev
+Standards-Version: 3.9.4
+Homepage: http://www.genabel.org
+Vcs-Browser: http://anonscm.debian.org/gitweb/?p=debian-med/probabel.git
+Vcs-Git: git://anonscm.debian.org/debian-med/probabel.git
+
+Package: probabel
+Architecture: any
+Depends: ${shlibs:Depends}, ${misc:Depends}
+Recommends: ${perl:Depends}
+Description: Toolset for Genome-Wide Association Analysis
+ The ProbABEL package is part of the GenABEL project for analysis of genome-wide
+ data. ProbABEL is used to run GWAS. Using files in filevector/DatABEL format
+ even allows for running GWAS on computers with only a few GB of RAM.
diff --git a/debian/copyright b/debian/copyright
new file mode 100644
index 0000000..a252698
--- /dev/null
+++ b/debian/copyright
@@ -0,0 +1,28 @@
+Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
+Upstream-Name: probabel
+Source: http://www.genabel.org/sites/default/files/software/probabel-0.4.1.tar.gz
+
+Files: *
+Copyright: © 2009-2013 The GenABEL team
+License: GPL-2.0+
+
+Files: debian/*
+Copyright: © 2013 L.C. Karssen <lennart at karssen.org>
+License: GPL-2.0+
+
+License: GPL-2.0+
+ 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.
+ .
+ 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 2 can be found in "/usr/share/common-licenses/GPL-2".
diff --git a/debian/get-orig-source b/debian/get-orig-source
new file mode 100755
index 0000000..e486809
--- /dev/null
+++ b/debian/get-orig-source
@@ -0,0 +1,45 @@
+#!/bin/sh
+# if you need to repack for whatever reason you can
+# use this script via uscan or directly
+#
+# FIXME: currently the code is not conform to Debian Policy
+# http://www.debian.org/doc/debian-policy/ch-source.html
+# "get-orig-source (optional)"
+# This target may be invoked in any directory, ...
+# --> currently it is assumed the script is called in the
+# source directory featuring the debian/ dir
+
+COMPRESS=xz
+
+set -e
+NAME=`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/'`
+ uscan --force-download
+else
+ VERSION=`echo $@ | sed "s?^.*--upstream-version \([0-9.]\+\) .*${NAME}.*?\1?"`
+ if echo "$VERSION" | grep -q "upstream-version" ; then
+ echo "Unable to parse version number"
+ exit
+ fi
+fi
+
+TARDIR=${NAME}-${VERSION}
+mkdir -p ../tarballs
+cd ../tarballs
+# need to clean up the tarballs dir first because upstream tarball might
+# contain a directory with unpredictable name
+rm -rf *
+tar -xaf ../${TARDIR}.tar.gz
+
+UPSTREAMTARDIR=`find . -mindepth 1 -maxdepth 1 -type d`
+if [ "${UPSTREAMTARDIR}" != "${TARDIR}" ] ; then
+ mv "${UPSTREAMTARDIR}" "${TARDIR}"
+fi
+
+# Remove useless binaries
+# ... do something which needs to be done ...
+
+GZIP="--best --no-name" tar --owner=root --group=root --mode=a+rX -caf "$NAME"_"$VERSION".orig.tar.${COMPRESS} "${TARDIR}"
+rm -rf ${TARDIR}
diff --git a/debian/rules b/debian/rules
new file mode 100755
index 0000000..514459b
--- /dev/null
+++ b/debian/rules
@@ -0,0 +1,23 @@
+#!/usr/bin/make -f
+
+# DH_VERBOSE := 1
+
+# some helpful variables
+# shamelessly stolen from http://jmtd.net/log/awk/
+DEBVERS := $(shell dpkg-parsechangelog | awk '/^Version:/ {print $$2}')
+VERSION := $(shell echo '$(DEBVERS)' | sed -e 's/^[0-9]*://' -e 's/-.*//')
+DEBFLAVOR := $(shell dpkg-parsechangelog | awk '/^Distribution:/ {print $$2}')
+DEBPKGNAME := $(shell dpkg-parsechangelog | awk '/^Source:/ {print $$2}')
+DEBIAN_BRANCH := $(shell awk 'BEGIN{FS="[= ]+"} /debian-branch/ {print $$2}' debian/gbp.conf)
+GIT_TAG := $(subst ~,_,$(VERSION))
+
+# alternatively to manually set those variables you can
+# include /usr/share/cdbs/1/rules/buildvars.mk
+# and use what is set there. Any hint whether dh might set variables in
+# a similar manner are welcome.
+
+%:
+ dh $@ --parallel
+
+#get-orig-source:
+# . debian/get-orig-source
diff --git a/debian/source/format b/debian/source/format
new file mode 100644
index 0000000..163aaf8
--- /dev/null
+++ b/debian/source/format
@@ -0,0 +1 @@
+3.0 (quilt)
diff --git a/debian/upstream b/debian/upstream
new file mode 100644
index 0000000..6f40ab9
--- /dev/null
+++ b/debian/upstream
@@ -0,0 +1,12 @@
+Reference:
+ Author: Yurii S Aulchenko and Maksim V Struchalin and Cornelia M van Duijn
+ Title: ProbABEL package for genome-wide association analysis of imputed data.
+ Journal: BMC Bioinformatics
+ Year: 2010
+ Volume: 11
+ Number:
+ Pages: 134
+ DOI: 10.1186/1471-2105-11-134
+ PMID: 20233392
+ URL: http://www.biomedcentral.com/1471-2105/11/134
+ eprint:
diff --git a/debian/watch b/debian/watch
new file mode 100644
index 0000000..4f75db0
--- /dev/null
+++ b/debian/watch
@@ -0,0 +1,23 @@
+version=3
+
+# Uncomment to examine a Webpage
+# <Webpage URL> <string match>
+#http://www.example.com/downloads.php #PACKAGE#-(.*)\.tar\.gz
+http://www.genabel.org/sites/default/files/software/ #PACKAGE#-(.*)\.tar\.gz
+
+# Uncomment to examine a Webserver directory
+#http://www.example.com/pub/#PACKAGE#-(.*)\.tar\.gz
+
+# Uncommment to examine a FTP server
+#ftp://ftp.example.com/pub/#PACKAGE#-(.*)\.tar\.gz debian uupdate
+
+# Uncomment to find new files on sourceforge
+# http://sf.net/#PACKAGE#/#PACKAGE#-(\d[\d\.]+)\.(?:tgz|tbz|txz|(?:tar\.(?:gz|bz2|xz)))
+
+# Uncomment to find new files on GooglePages
+# http://code.google.com/p/#PACKAGE#/downloads/list?can=1 \
+# .*/#PACKAGE#-([-.\d]+)\.(?:tgz|tbz|txz|(?:tar\.(?:gz|bz2|xz))|zip)
+
+# if tweaking of source is needed
+# \
+# debian debian/get-orig-source
--
Alioth's /git/debian-med/git-commit-notice on /srv/git.debian.org/git/debian-med/probabel.git
More information about the debian-med-commit
mailing list