[med-svn] r23492 - in trunk/packages/plato/trunk/debian: . upstream
Andreas Tille
tille at moszumanska.debian.org
Tue Jan 3 16:19:05 UTC 2017
Author: tille
Date: 2017-01-03 16:19:04 +0000 (Tue, 03 Jan 2017)
New Revision: 23492
Added:
trunk/packages/plato/trunk/debian/upstream/
trunk/packages/plato/trunk/debian/upstream/metadata
Removed:
trunk/packages/plato/trunk/debian/README.Debian
trunk/packages/plato/trunk/debian/README.source
Modified:
trunk/packages/plato/trunk/debian/compat
trunk/packages/plato/trunk/debian/control
trunk/packages/plato/trunk/debian/copyright
trunk/packages/plato/trunk/debian/rules
trunk/packages/plato/trunk/debian/watch
Log:
Normalise packaging, add citation
Deleted: trunk/packages/plato/trunk/debian/README.Debian
===================================================================
--- trunk/packages/plato/trunk/debian/README.Debian 2017-01-03 15:51:27 UTC (rev 23491)
+++ trunk/packages/plato/trunk/debian/README.Debian 2017-01-03 16:19:04 UTC (rev 23492)
@@ -1,6 +0,0 @@
-plato for Debian
-----------------
-
-<possible notes regarding this package - if none, delete this file>
-
- -- Steffen Moeller <moeller at debian.org> Wed, 14 Sep 2011 14:47:35 +0200
Deleted: trunk/packages/plato/trunk/debian/README.source
===================================================================
--- trunk/packages/plato/trunk/debian/README.source 2017-01-03 15:51:27 UTC (rev 23491)
+++ trunk/packages/plato/trunk/debian/README.source 2017-01-03 16:19:04 UTC (rev 23492)
@@ -1,9 +0,0 @@
-plato 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>
-
-
-
-
Modified: trunk/packages/plato/trunk/debian/compat
===================================================================
--- trunk/packages/plato/trunk/debian/compat 2017-01-03 15:51:27 UTC (rev 23491)
+++ trunk/packages/plato/trunk/debian/compat 2017-01-03 16:19:04 UTC (rev 23492)
@@ -1 +1 @@
-8
+10
Modified: trunk/packages/plato/trunk/debian/control
===================================================================
--- trunk/packages/plato/trunk/debian/control 2017-01-03 15:51:27 UTC (rev 23491)
+++ trunk/packages/plato/trunk/debian/control 2017-01-03 16:19:04 UTC (rev 23492)
@@ -1,19 +1,19 @@
Source: plato
-Section: science
-Priority: extra
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
-DM-Upload-Allowed: yes
Uploaders: Steffen Moeller <moeller at debian.org>
-Build-Depends: debhelper (>= 8.0.0),
- libboost-dev
-Standards-Version: 3.9.2
-Homepage: https://chgr.mc.vanderbilt.edu/plato
-Vcs-Svn: svn://svn.debian.org/debian-med/trunk/packages/plato/trunk/
-Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/plato/trunk
+Section: science
+Priority: optional
+Build-Depends: debhelper (>= 10),
+ libboost-dev
+Standards-Version: 3.9.8
+Vcs-Browser: https://anonscm.debian.org/viewvc/debian-med/trunk/packages/plato/trunk
+Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/plato/trunk/
+Homepage: https://ritchielab.psu.edu/plato
Package: plato
Architecture: any
-Depends: ${shlibs:Depends}, ${misc:Depends}
+Depends: ${shlibs:Depends},
+ ${misc:Depends}
Description: Analysis, translation, and organization of large-scale genetic data
PLATO is an acronym for "PLatform for the Analysis, Translation,
and Organization of large-scale data". Recent technological advances
@@ -55,7 +55,8 @@
Package: plato-dbg
Architecture: any
-Depends: ${misc:Depends}, plato (= ${binary:Version})
+Depends: ${misc:Depends},
+ plato (= ${binary:Version})
Description: debug information for plato
plato is dominate by a single binary. This package adds debug
symbols to it.
Modified: trunk/packages/plato/trunk/debian/copyright
===================================================================
--- trunk/packages/plato/trunk/debian/copyright 2017-01-03 15:51:27 UTC (rev 23491)
+++ trunk/packages/plato/trunk/debian/copyright 2017-01-03 16:19:04 UTC (rev 23492)
@@ -1,15 +1,16 @@
-Format: http://dep.debian.net/deps/dep5
+Format: https://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
Upstream-Name: plato
-Source: <url://example.com>
+Source: https://ritchielab.psu.edu/plato
Files: *
-Copyright: <years> <put author's name and email here>
- <years> <likewise for another author>
+Copyright: 2008-2016 Marylyn Ritchie and others
License: GPL-2+
Files: debian/*
Copyright: 2011 Steffen Moeller <moeller at debian.org>
License: GPL-2+
+
+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
@@ -20,11 +21,5 @@
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".
-
-# Please also look if there are files or directories which have a
-# different copyright/license attached and list them here.
Modified: trunk/packages/plato/trunk/debian/rules
===================================================================
--- trunk/packages/plato/trunk/debian/rules 2017-01-03 15:51:27 UTC (rev 23491)
+++ trunk/packages/plato/trunk/debian/rules 2017-01-03 16:19:04 UTC (rev 23492)
@@ -1,5 +1,4 @@
#!/usr/bin/make -f
-# -*- makefile -*-
# Uncomment this to turn on verbose mode.
export DH_VERBOSE=1
@@ -7,19 +6,8 @@
%:
dh $@
-
override_dh_auto_test:
# do not test, missing cdblib.h
-override_dh_strip:
- dh_strip --dbg-package plato-dbg
-
-VERSION=1.1
get-orig-source:
- [ -r ../plato-$(VERSION).tar.gz ] || wget -O ../plato-$(VERSION).tar.gz http://chgr.mc.vanderbilt.edu/ritchielab/software/builds/plato/plato-release$(VERSION).tar.gz
- cd .. && tar xzf plato-$(VERSION).tar.gz
- cd .. && mv plato-release plato-$(VERSION)
- cd ../plato-$(VERSION) && make clean
- find ../plato-$(VERSION) -name "*.cpp" -o -name "*.h" | xargs -r chmod -x
- find ../plato-$(VERSION) -name "*.svn" -a -type d | xargs -r rm -rf
- cd .. && tar cjf plato_$(VERSION).orig.tar.bz2 plato-$(VERSION)
+ echo "Download latest version from https://ritchielab.psu.edu/plato"
Added: trunk/packages/plato/trunk/debian/upstream/metadata
===================================================================
--- trunk/packages/plato/trunk/debian/upstream/metadata (rev 0)
+++ trunk/packages/plato/trunk/debian/upstream/metadata 2017-01-03 16:19:04 UTC (rev 23492)
@@ -0,0 +1,10 @@
+Reference:
+ Author: "Benjamin J. Grady and Eric Torstenson and Scott M. Dudek and Justin Giles and David Sexton and Marylyn D. Ritchie"
+ Title: "Finding unique filter sets in PLATO: a precursor to efficient interaction analysis in GWAS data"
+ Journal: Proceedings of the Pacific Symposium
+ Year: 2010
+ Pages: 315-26
+ DOI: 10.1142/9789814295291_0034
+ PMID: 19908384
+ URL: http://www.worldscientific.com/doi/abs/10.1142/9789814295291_0034
+ eprint: http://www.worldscientific.com/doi/pdf/10.1142/9789814295291_0034
Modified: trunk/packages/plato/trunk/debian/watch
===================================================================
--- trunk/packages/plato/trunk/debian/watch 2017-01-03 15:51:27 UTC (rev 23491)
+++ trunk/packages/plato/trunk/debian/watch 2017-01-03 16:19:04 UTC (rev 23492)
@@ -1,2 +1,6 @@
-version=3
-http://chgr.mc.vanderbilt.edu/ritchielab/software/builds/plato/plato-release([0-9.]+)\.tar\.gz
+# FIXME: Session handling prevents download of the real tar archive.
+# May be debian-mentors at lists.debian.org could be of any help
+
+version=4
+
+https://ritchielab.psu.edu/plato .*session.php.*file=plato-(\d[.\d]+)\.tar\.gz
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