Author: moeller Date: 2011-03-02 23:13:49 +0000 (Wed, 02 Mar 2011) New Revision: 6151
Added: trunk/packages/dotur/ trunk/packages/dotur/trunk/ trunk/packages/dotur/trunk/debian/ trunk/packages/dotur/trunk/debian/README.Debian trunk/packages/dotur/trunk/debian/README.source trunk/packages/dotur/trunk/debian/changelog trunk/packages/dotur/trunk/debian/compat trunk/packages/dotur/trunk/debian/control trunk/packages/dotur/trunk/debian/copyright trunk/packages/dotur/trunk/debian/docs trunk/packages/dotur/trunk/debian/patches/ trunk/packages/dotur/trunk/debian/patches/Makefile.patch trunk/packages/dotur/trunk/debian/patches/compilation.patch trunk/packages/dotur/trunk/debian/patches/series trunk/packages/dotur/trunk/debian/rules trunk/packages/dotur/trunk/debian/source/ trunk/packages/dotur/trunk/debian/source/format trunk/packages/dotur/trunk/debian/watch Log: First short at the package dotor - one of those that help qiime. Property changes on: trunk/packages/dotur/trunk/debian ___________________________________________________________________ Added: mergeWithUpstream + 1 Added: trunk/packages/dotur/trunk/debian/README.Debian =================================================================== --- trunk/packages/dotur/trunk/debian/README.Debian (rev 0) +++ trunk/packages/dotur/trunk/debian/README.Debian 2011-03-02 23:13:49 UTC (rev 6151) @@ -0,0 +1,7 @@ +dotur for Debian +---------------- + +The package was only prepared for internal purposes. Please feel invited +to complete it. + + -- Steffen Moeller <[email protected]> Wed, 02 Mar 2011 23:48:37 +0100 Added: trunk/packages/dotur/trunk/debian/README.source =================================================================== --- trunk/packages/dotur/trunk/debian/README.source (rev 0) +++ trunk/packages/dotur/trunk/debian/README.source 2011-03-02 23:13:49 UTC (rev 6151) @@ -0,0 +1,7 @@ +dotur for Debian +---------------- + +The patches provide a Makefile and fix some build errors with gcc > 4.3. + + + Added: trunk/packages/dotur/trunk/debian/changelog =================================================================== --- trunk/packages/dotur/trunk/debian/changelog (rev 0) +++ trunk/packages/dotur/trunk/debian/changelog 2011-03-02 23:13:49 UTC (rev 6151) @@ -0,0 +1,5 @@ +dotur (1.53-1) UNRELEAED; urgency=low + + * Initial release (Closes: #nnnn) <nnnn is the bug number of your ITP> + + -- Steffen Moeller <[email protected]> Wed, 02 Mar 2011 23:48:37 +0100 Added: trunk/packages/dotur/trunk/debian/compat =================================================================== --- trunk/packages/dotur/trunk/debian/compat (rev 0) +++ trunk/packages/dotur/trunk/debian/compat 2011-03-02 23:13:49 UTC (rev 6151) @@ -0,0 +1 @@ +7 Added: trunk/packages/dotur/trunk/debian/control =================================================================== --- trunk/packages/dotur/trunk/debian/control (rev 0) +++ trunk/packages/dotur/trunk/debian/control 2011-03-02 23:13:49 UTC (rev 6151) @@ -0,0 +1,21 @@ +Source: dotur +Section: science +Priority: extra +Maintainer: Steffen Moeller <[email protected]> +Build-Depends: debhelper (>= 7.0.50~) +Standards-Version: 3.9.1 +Homepage: http://www.plantpath.wisc.edu/fac/joh/DOTUR/ +Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/dotur/trunk/?rev=0&sc=0 +Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/dotur/trunk/ + +Package: dotur +Architecture: any +Depends: ${shlibs:Depends}, ${misc:Depends} +Description: distance based OTU and richness estimation + DOTUR is a computer program that takes a distance matrix describing + the genetic distance between DNA sequence data and assigns sequences to + operational taxonomic units (OTUs) using either the furthest, average, + or nearest neighbor algorithms for all possible distances that can be + described using the distance matrix. Using the OTU composition data, + DOTUR constructs collector's and rarefaction curves for sampling + intensity, richness estimators, and diversity indices. Added: trunk/packages/dotur/trunk/debian/copyright =================================================================== --- trunk/packages/dotur/trunk/debian/copyright (rev 0) +++ trunk/packages/dotur/trunk/debian/copyright 2011-03-02 23:13:49 UTC (rev 6151) @@ -0,0 +1,32 @@ +Format: http://dep.debian.net/deps/dep5 +Upstream-Name: dotur +Source: <url://example.com> + +Files: * +Copyright: <years> <put author's name and email here> + <years> <likewise for another author> +License: GPL-2.0+ + +Files: debian/* +Copyright: 2011 Steffen Moeller <[email protected]> +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". + +# Please also look if there are files or directories which have a +# different copyright/license attached and list them here. Added: trunk/packages/dotur/trunk/debian/docs =================================================================== --- trunk/packages/dotur/trunk/debian/docs (rev 0) +++ trunk/packages/dotur/trunk/debian/docs 2011-03-02 23:13:49 UTC (rev 6151) @@ -0,0 +1 @@ +README Added: trunk/packages/dotur/trunk/debian/patches/Makefile.patch =================================================================== --- trunk/packages/dotur/trunk/debian/patches/Makefile.patch (rev 0) +++ trunk/packages/dotur/trunk/debian/patches/Makefile.patch 2011-03-02 23:13:49 UTC (rev 6151) @@ -0,0 +1,11 @@ +Index: dotur-1.53/Makefile +=================================================================== +--- /dev/null 1970-01-01 00:00:00.000000000 +0000 ++++ dotur-1.53/Makefile 2011-03-03 00:05:18.000000000 +0100 +@@ -0,0 +1,6 @@ ++ ++dotur: dotur.C ++ $(CXX) $(CFLAGS) -o $@ $< ++ ++clean: ++ rm -f dotur Added: trunk/packages/dotur/trunk/debian/patches/compilation.patch =================================================================== --- trunk/packages/dotur/trunk/debian/patches/compilation.patch (rev 0) +++ trunk/packages/dotur/trunk/debian/patches/compilation.patch 2011-03-02 23:13:49 UTC (rev 6151) @@ -0,0 +1,36 @@ +Index: dotur-1.53/dotur.C +=================================================================== +--- dotur-1.53.orig/dotur.C 2011-03-03 00:04:37.000000000 +0100 ++++ dotur-1.53/dotur.C 2011-03-03 00:05:36.000000000 +0100 +@@ -3,13 +3,15 @@ + + using namespace std; + ++#include <cstdlib> ++#include <algorithm> + #include "otu.h" + #include "richness.h" + #include <iostream> + #include <fstream> + #include <iomanip> + #include <vector> +-#include <string> ++#include <cstring> + #include <sstream> + #include <list> + #include <ctime> +Index: dotur-1.53/otu.h +=================================================================== +--- dotur-1.53.orig/otu.h 2011-03-03 00:04:37.000000000 +0100 ++++ dotur-1.53/otu.h 2011-03-03 00:05:36.000000000 +0100 +@@ -1,8 +1,9 @@ ++#include <cstdlib> + #include <iostream> + #include <fstream> + #include <iomanip> + #include <vector> +-#include <string> ++#include <cstring> + #include <sstream> + #include <list> + #include <cmath> Added: trunk/packages/dotur/trunk/debian/patches/series =================================================================== --- trunk/packages/dotur/trunk/debian/patches/series (rev 0) +++ trunk/packages/dotur/trunk/debian/patches/series 2011-03-02 23:13:49 UTC (rev 6151) @@ -0,0 +1,2 @@ +Makefile.patch +compilation.patch Added: trunk/packages/dotur/trunk/debian/rules =================================================================== --- trunk/packages/dotur/trunk/debian/rules (rev 0) +++ trunk/packages/dotur/trunk/debian/rules 2011-03-02 23:13:49 UTC (rev 6151) @@ -0,0 +1,13 @@ +#!/usr/bin/make -f +# -*- makefile -*- +# Sample debian/rules that uses debhelper. +# This file was originally written by Joey Hess and Craig Small. +# As a special exception, when this file is copied by dh-make into a +# dh-make output file, you may use that output file without restriction. +# This special exception was added by Craig Small in version 0.37 of dh-make. + +# Uncomment this to turn on verbose mode. +#export DH_VERBOSE=1 + +%: + dh $@ Property changes on: trunk/packages/dotur/trunk/debian/rules ___________________________________________________________________ Added: svn:executable + * Added: trunk/packages/dotur/trunk/debian/source/format =================================================================== --- trunk/packages/dotur/trunk/debian/source/format (rev 0) +++ trunk/packages/dotur/trunk/debian/source/format 2011-03-02 23:13:49 UTC (rev 6151) @@ -0,0 +1 @@ +3.0 (quilt) Added: trunk/packages/dotur/trunk/debian/watch =================================================================== --- trunk/packages/dotur/trunk/debian/watch (rev 0) +++ trunk/packages/dotur/trunk/debian/watch 2011-03-02 23:13:49 UTC (rev 6151) @@ -0,0 +1,2 @@ +version=3 +http://www.plantpath.wisc.edu/fac/joh/DOTUR/dotur-([\d.]+).tgz _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/mailman/listinfo/debian-med-commit
