[med-svn] r1161 - in trunk/packages/njplot/tags: . 2.2-1
tille at alioth.debian.org
tille at alioth.debian.org
Fri Jan 18 16:20:53 UTC 2008
Author: tille
Date: 2008-01-18 16:20:52 +0000 (Fri, 18 Jan 2008)
New Revision: 1161
Added:
trunk/packages/njplot/tags/2.2-1/
trunk/packages/njplot/tags/2.2-1/changelog
trunk/packages/njplot/tags/2.2-1/compat
trunk/packages/njplot/tags/2.2-1/control
trunk/packages/njplot/tags/2.2-1/copyright
trunk/packages/njplot/tags/2.2-1/dirs
trunk/packages/njplot/tags/2.2-1/docs
trunk/packages/njplot/tags/2.2-1/examples
trunk/packages/njplot/tags/2.2-1/get-orig-source
trunk/packages/njplot/tags/2.2-1/install
trunk/packages/njplot/tags/2.2-1/links
trunk/packages/njplot/tags/2.2-1/manpages
trunk/packages/njplot/tags/2.2-1/menu
trunk/packages/njplot/tags/2.2-1/njplot.desktop
trunk/packages/njplot/tags/2.2-1/njplot.mime
trunk/packages/njplot/tags/2.2-1/njplot.sharedmimeinfo
trunk/packages/njplot/tags/2.2-1/rules
trunk/packages/njplot/tags/2.2-1/unrooted.desktop
trunk/packages/njplot/tags/2.2-1/watch
Log:
Tagged 2.2-1
Added: trunk/packages/njplot/tags/2.2-1/changelog
===================================================================
--- trunk/packages/njplot/tags/2.2-1/changelog (rev 0)
+++ trunk/packages/njplot/tags/2.2-1/changelog 2008-01-18 16:20:52 UTC (rev 1161)
@@ -0,0 +1,191 @@
+njplot (2.2-1) unstable; urgency=low
+
+ [ Andreas Tille ]
+ * Added Vcs-Browser, Vcs-Svn
+ * Added -DHELPFILENAME=\"/usr/share/njplot/njplot.help\" to
+ build options
+
+ [ Charles Plessy ]
+ * New upstream version:
+ - NJplot can display several tree windows simultaneously.
+ * debian/control:
+ - added myseld as Uploader.
+ - allowed the upload by Debian Maintainers.
+ - Removed the [biology] tag and the Homepage pseudo-field from the
+ description.
+ - Checked conformance with Policy 3.7.3.
+ - Dropped build dependency on dpatch
+ * MIME support:
+ - debian/njplot.sharedmimeinfo declares that .phb and .ph files
+ are Clustal W phylogenetic trees.
+ - debian/njplot.mime, debian/njplot.desktop and
+ debian/unrooted.desktop declare that NJplot and Unrooted can
+ open Clustal W phylogenetic trees.
+ * Removed debian/README.Debian, as its contents were obsolete.
+
+ -- Andreas Tille <tille at debian.org> Tue, 15 Jan 2008 09:39:01 +0100
+
+njplot (2.0-2) unstable; urgency=low
+
+ [ Nelson A. de Oliveira ]
+ * Fixed watch file
+ Closes: #450104
+
+ -- Andreas Tille <tille at debian.org> Wed, 07 Nov 2007 08:04:06 +0100
+
+njplot (2.0-1) unstable; urgency=low
+
+ * New upstream version that startet proper version numbering
+ * debian/menu: Apps/Science -> Applications/Science/Biology
+ * Added debian/watch because upstream startet proper version numbering
+ * Upstream included man pages, so remove debian/*.1
+
+ -- Andreas Tille <tille at debian.org> Tue, 09 Oct 2007 22:42:13 +0200
+
+njplot (0.20070618-1) unstable; urgency=low
+
+ * New upstream version
+ * New debian/README.Debian explaining the issue how a rebuilded
+ upstream source is needed.
+ * debian/get-orig-source: Code to obtain the orig.tar.gz
+ * debian/control: Replaced XBCS-URL by Homepage
+ * Switched to cdbs, dpatch
+ * debian/control: team maintainance
+ Maintainer: Debian-Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+ Uploaders: Andreas Tille <tille at debian.org>
+
+ -- Andreas Tille <tille at debian.org> Mon, 01 Oct 2007 20:45:37 +0200
+
+njplot (0.20060606-3) unstable; urgency=low
+
+ * Fixed .desktop file (Thanks to Adri2000 <adri2000 at gmail.com>)
+ Closes: #401231
+
+ -- Andreas Tille <tille at debian.org> Tue, 12 Dec 2006 08:08:34 +0100
+
+njplot (0.20060606-2) unstable; urgency=low
+
+ * Added desktop files (thanks to Charles Plessy)
+ Closes: #380633
+
+ -- Andreas Tille <tille at debian.org> Tue, 1 Aug 2006 08:07:30 +0200
+
+njplot (0.20060606-1) unstable; urgency=low
+
+ * New upstream version
+ * Removed 'binary' from package description because njplot
+ now can draw all types of trees
+ * Replace dependencies "libvibrant6-dev | vibrant-dev, ncbi-tools6-dev"
+ by libncbi6-dev
+ * Replace dependency lesstif-dev by lesstif2-dev
+ Closes: #374230
+ * Standards-Version: 3.7.2 - no changes needed
+ * debian/compat: 5
+
+ -- Andreas Tille <tille at debian.org> Mon, 10 Jul 2006 08:25:26 +0200
+
+njplot (0.20051109-1) unstable; urgency=low
+
+ * New upstream version
+ * Build-Depends: libxt-dev instead of xlibs-dev
+ Closes: #347123
+ * Standards-Version: 3.6.2, no changes necessary
+
+ -- Andreas Tille <tille at debian.org> Mon, 9 Jan 2006 08:21:08 +0100
+
+njplot (0.20041129-2) unstable; urgency=low
+
+ * According to the ncbi maintainer switched back from
+ priority extra to optional because the package depends
+ now are adjusted
+ * Build-Depends now libvibrant6-dev | vibrant-dev
+
+ -- Andreas Tille <tille at debian.org> Wed, 1 Dec 2004 22:04:35 +0100
+
+njplot (0.20041129-1) unstable; urgency=low
+
+ * Fixed upstream version
+ * Standards-Version: 3.6.1.1
+ * Did not patched upstream makefile that much but moved own
+ patches to debian/rules
+ * Package was optional and has a Depends on vibrant6 (>= 6.1.20020828)
+ which is extra --> moved package to extra
+ * Added quotes to menu items
+ * Added information from the homepage
+
+ -- Andreas Tille <tille at debian.org> Wed, 1 Dec 2004 14:56:41 +0100
+
+njplot (0.20030331-1) unstable; urgency=low
+
+ * What difference does it make to the dead, the orphans and the homeless,
+ whether the mad destruction is wrought under the name of totalitarianism
+ or the holy name of liberty or democracy?
+ -- Mahatma Gandhi (1869 - 1948), "Non-Violence in Peace and War"
+ * New upstream version.
+
+ -- Andreas Tille <tille at debian.org> Wed, 23 Apr 2003 15:19:03 +0200
+
+njplot (0.20021017-1) unstable; urgency=low
+
+ * The "I'm against war" release
+ Mankind must put an end to war before war puts an end to mankind.
+ -- John F. Kennedy
+ * New upstream release
+ * New maintainer
+ * Build-Depends: debhelper (>= 4.0)
+ * Standards-Version: 3.5.9
+ * debian/compat now stores debhelper compatibility version
+ * Compliant to developers reference "6.3.2. Upstream home page" and
+ XBCS-URL: http://pbil.univ-lyon1.fr/software/njplot.html
+ * Added README from FTP-Server to docs
+ * Added examples from FTP-Server to examples
+ * use dh_installman instead of dh_installmanpages
+ * moved njplot.help to /usr/share/njplot
+ * added menu
+
+ -- Andreas Tille <tille at debian.org> Mon, 14 Apr 2003 08:06:48 +0200
+
+njplot (0.0-4) unstable; urgency=low
+
+ * Added CPPFLAGS=-DWIN_MOTIF in rules file
+ (closes: #134083)
+
+ -- Francesco Paolo Lovergine <frankie at debian.org> Mon, 18 Feb 2002 13:17:50 +0100
+
+njplot (0.0-3) unstable; urgency=low
+
+ * Maintainer set to Debian QA Group <packages at qa.debian.org>.
+
+ -- Adrian Bunk <bunk at fs.tum.de> Fri, 24 Aug 2001 23:36:54 +0200
+
+njplot (0.0-2) unstable; urgency=low
+
+ * Package adopted by new maintainer; closes: #92803, #48172
+ * Removed some unnecessary files in the debian directory.
+ * Updated to latest standards version (changed control and rules).
+ * Added Build-Depends; closes: #84579
+ * Modified dirs and copyright file.
+ * Wrote manpages for njplot and unrooted; closes: #34614
+ * Shifted package from section x11 to science.
+
+ -- Dr. Guenter Bechly <gbechly at debian.org> Tue, 10 Apr 2001 18:13:39 +0200
+
+njplot (0.0-1.1) unstable; urgency=low
+
+ * NMU.
+ * Recompile against lesstif1. Closes: #48172
+ * Updated to standards-version 3.0.1.
+ * FHS compliant.
+ * Lintian 1.9.2 clean.
+
+ -- Adam Heath <doogie at debian.org> Mon, 25 Oct 1999 16:32:42 -0500
+
+njplot (0.0-1) unstable; urgency=low
+
+ * Initial Release.
+
+ -- Stephane Bortzmeyer <bortzmeyer at debian.org> Sat, 6 Mar 1999 20:46:41 +0100
+
+Local variables:
+mode: debian-changelog
+End:
Added: trunk/packages/njplot/tags/2.2-1/compat
===================================================================
--- trunk/packages/njplot/tags/2.2-1/compat (rev 0)
+++ trunk/packages/njplot/tags/2.2-1/compat 2008-01-18 16:20:52 UTC (rev 1161)
@@ -0,0 +1 @@
+5
Added: trunk/packages/njplot/tags/2.2-1/control
===================================================================
--- trunk/packages/njplot/tags/2.2-1/control (rev 0)
+++ trunk/packages/njplot/tags/2.2-1/control 2008-01-18 16:20:52 UTC (rev 1161)
@@ -0,0 +1,21 @@
+Source: njplot
+Section: science
+Priority: optional
+Maintainer: Debian-Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+XS-DM-Upload-Allowed: Yes
+Uploaders: Andreas Tille <tille at debian.org>, Charles Plessy <charles-debian-nospam at plessy.org>
+Build-Depends: cdbs, debhelper (>= 5), libncbi6-dev, libvibrant6-dev, lesstif2-dev, libxt-dev
+Standards-Version: 3.7.3
+Homepage: http://pbil.univ-lyon1.fr/software/njplot.html
+Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/njplot/
+Vcs-Svn: svn://svn.debian.org/debian-med/trunk/packages/njplot/
+
+Package: njplot
+Architecture: any
+Depends: ${shlibs:Depends}
+Description: A tree drawing program
+ NJplot is able to draw any tree expressed in the standard
+ phylogenetic tree format (e.g., the format used by the Phylip package).
+ NJplot is especially convenient for rooting the unrooted trees
+ obtained from parsimony, distance or maximum likelihood tree-building
+ methods.
Added: trunk/packages/njplot/tags/2.2-1/copyright
===================================================================
--- trunk/packages/njplot/tags/2.2-1/copyright (rev 0)
+++ trunk/packages/njplot/tags/2.2-1/copyright 2008-01-18 16:20:52 UTC (rev 1161)
@@ -0,0 +1,19 @@
+This package was debianized by Stephane Bortzmeyer bortzmeyer at debian.org on
+Sat, 6 Mar 1999 20:46:41 +0100.
+
+The original tar archive is at
+ ftp://pbil.univ-lyon1.fr/pub/mol_phylogeny/njplot/njplot-unrooted.tar
+
+Reference server: http://pbil.univ-lyon1.fr/software/njplot.html
+
+Upstream Author:
+Manolo Gouy <mgouy at biomserv.univ-lyon1.fr>
+
+Copyright: Artistic
+
+This software is copyright (c) by Manolo Gouy
+
+You are free to distribute this software under the terms of
+the Artistic Licence.
+On Debian systems, the complete text of the Artistic
+Licence can be found in /usr/share/common-licenses/Artistic file.
Added: trunk/packages/njplot/tags/2.2-1/dirs
===================================================================
--- trunk/packages/njplot/tags/2.2-1/dirs (rev 0)
+++ trunk/packages/njplot/tags/2.2-1/dirs 2008-01-18 16:20:52 UTC (rev 1161)
@@ -0,0 +1,4 @@
+usr/bin
+usr/share/doc/njplot
+usr/share/njplot
+usr/share/man/man1
Added: trunk/packages/njplot/tags/2.2-1/docs
===================================================================
--- trunk/packages/njplot/tags/2.2-1/docs (rev 0)
+++ trunk/packages/njplot/tags/2.2-1/docs 2008-01-18 16:20:52 UTC (rev 1161)
@@ -0,0 +1,3 @@
+README
+*.html
+*.gif
Added: trunk/packages/njplot/tags/2.2-1/examples
===================================================================
--- trunk/packages/njplot/tags/2.2-1/examples (rev 0)
+++ trunk/packages/njplot/tags/2.2-1/examples 2008-01-18 16:20:52 UTC (rev 1161)
@@ -0,0 +1,3 @@
+bigtree.phb
+example.phb
+multi.phb
Added: trunk/packages/njplot/tags/2.2-1/get-orig-source
===================================================================
--- trunk/packages/njplot/tags/2.2-1/get-orig-source (rev 0)
+++ trunk/packages/njplot/tags/2.2-1/get-orig-source 2008-01-18 16:20:52 UTC (rev 1161)
@@ -0,0 +1,42 @@
+#!/bin/sh -e
+echo This is outdated, because upstream switched to proper version numbering
+exit
+
+NAME=njplot
+UTARBALL="$NAME"-unrooted.tar
+rm -rf tmp
+mkdir -p tmp
+cd tmp
+wget --quiet ftp://pbil.univ-lyon1.fr/pub/mol_phylogeny/"$NAME"/"$UTARBALL"
+tar -xf "$UTARBALL"
+rm -f "$UTARBALL"
+VERSION=`ls -lt | grep '^.rw.r' | sed -e '2,$d' -e 's/^.[-rwxr]\{9\} [0-9] \w\+ \w\+[[:space:]]\+[0-9]\+ \([0-9]\{4\}\)-\([0-9]\{2\}\)-\([0-9]\{2\}\).*/0.\1\2\3/'`
+mkdir "$NAME"-"$VERSION"
+mv *.c makefile "$NAME"-"$VERSION"
+cd "$NAME"-"$VERSION"
+
+MOREFILES="$NAME.help README bigtest.phb multi.phb test.ph"
+for mf in $MOREFILES ; do
+ wget --quiet ftp://pbil.univ-lyon1.fr/pub/mol_phylogeny/"$NAME"/$mf
+done
+
+wget --quiet http://pbil.univ-lyon1.fr/software/njplot.html
+wget --quiet http://pbil.univ-lyon1.fr/binaries/njplot.gif
+wget --quiet http://pbil.univ-lyon1.fr/help/helpers.html
+sed -e '/<TABLE BORDER=4 CELLPADDING=8>/,/<\/TABLE>/d' njplot.html \
+ -e 's/"\/binaries\/\(njplot.gif"\)/"\1/' \
+ -e 's/"\/help\/\(helpers.html"\)/"\1/' \
+ -e 's/"\(\/comments.html"\)/"http:\/\/pbil.univ-lyon1.fr\1/' \
+ -e 's/"\(\/pbil.html">\)<IMG SRC="\/binaries\/home.gif">/"http:\/\/pbil.univ-lyon1.fr\1PBIL home page/' \
+ -e '/<I>Back to PBIL home page<\/I>/d' \
+ > njplot_.html
+touch -r njplot.html njplot_.html
+mv njplot_.html njplot.html
+
+cd ..
+
+GZIP=-9 tar -czf "$NAME"_"$VERSION".orig.tar.gz "$NAME"-"$VERSION"
+
+mv "$NAME"_"$VERSION".orig.tar.gz ..
+cd ..
+rm -rf tmp
Added: trunk/packages/njplot/tags/2.2-1/install
===================================================================
--- trunk/packages/njplot/tags/2.2-1/install (rev 0)
+++ trunk/packages/njplot/tags/2.2-1/install 2008-01-18 16:20:52 UTC (rev 1161)
@@ -0,0 +1,3 @@
+njplot unrooted newickto* usr/bin
+njplot.help usr/share/njplot
+debian/*.desktop usr/share/applications
Added: trunk/packages/njplot/tags/2.2-1/links
===================================================================
--- trunk/packages/njplot/tags/2.2-1/links (rev 0)
+++ trunk/packages/njplot/tags/2.2-1/links 2008-01-18 16:20:52 UTC (rev 1161)
@@ -0,0 +1,2 @@
+usr/share/man/man1/njplot.1.gz usr/share/man/man1/newicktops.1.gz
+usr/share/man/man1/njplot.1.gz usr/share/man/man1/newicktotxt.1.gz
Added: trunk/packages/njplot/tags/2.2-1/manpages
===================================================================
--- trunk/packages/njplot/tags/2.2-1/manpages (rev 0)
+++ trunk/packages/njplot/tags/2.2-1/manpages 2008-01-18 16:20:52 UTC (rev 1161)
@@ -0,0 +1 @@
+*.1
Added: trunk/packages/njplot/tags/2.2-1/menu
===================================================================
--- trunk/packages/njplot/tags/2.2-1/menu (rev 0)
+++ trunk/packages/njplot/tags/2.2-1/menu 2008-01-18 16:20:52 UTC (rev 1161)
@@ -0,0 +1,6 @@
+?package(njplot):needs="X11" section="Applications/Science/Biology"\
+ title="NJPlot" command="/usr/bin/njplot"\
+ hints="Phylogenetic tree drawing program"
+?package(njplot):needs="X11" section="Applications/Science/Biology"\
+ title="NJPlot unrooted" command="/usr/bin/unrooted"\
+ hints="Phylogenetic tree drawing program"
Added: trunk/packages/njplot/tags/2.2-1/njplot.desktop
===================================================================
--- trunk/packages/njplot/tags/2.2-1/njplot.desktop (rev 0)
+++ trunk/packages/njplot/tags/2.2-1/njplot.desktop 2008-01-18 16:20:52 UTC (rev 1161)
@@ -0,0 +1,17 @@
+[Desktop Entry]
+Version=1.0
+Terminal=false
+Icon=njplot
+Exec=njplot %f
+Name=NJplot
+GenericName=Tree Plotter
+GenericName[en]=Tree Plotter
+GenericName[fr]=Traceur d'arbres
+GenericName[pt_BR]=Plotador de árvores
+Comment=Displays, modifies and exports in PostScript format phylogenetic trees
+Comment[en]=Displays, modifies and exports in PostScript format phylogenetic trees
+Comment[fr]=Affiche, modifie et exporte au format PostScript des arbres phyolgénétiques
+Comment[pt_BR]=Exibe, modifica e exporta em formato PostScript árvores filogenéticas
+Type=Application
+Categories=Biology;Science;Education;
+MimeType=text/x-clustalw-tree;chemical/njplot;
Added: trunk/packages/njplot/tags/2.2-1/njplot.mime
===================================================================
--- trunk/packages/njplot/tags/2.2-1/njplot.mime (rev 0)
+++ trunk/packages/njplot/tags/2.2-1/njplot.mime 2008-01-18 16:20:52 UTC (rev 1161)
@@ -0,0 +1,2 @@
+text/x-clustalw-tree; njplot '%s'; description=Clustal W Phylogenetic Tree ; nametemplate=%s.phb
+chemical/njplot; njplot '%s' ; description=Phylogenetic Tree ; nametemplate=%s.phb
Added: trunk/packages/njplot/tags/2.2-1/njplot.sharedmimeinfo
===================================================================
--- trunk/packages/njplot/tags/2.2-1/njplot.sharedmimeinfo (rev 0)
+++ trunk/packages/njplot/tags/2.2-1/njplot.sharedmimeinfo 2008-01-18 16:20:52 UTC (rev 1161)
@@ -0,0 +1,14 @@
+<?xml version="1.0"?>
+<mime-info xmlns='http://www.freedesktop.org/standards/shared-mime-info'>
+ <mime-type type="text/x-clustalw-tree">
+ <comment>Phylogenetic tree in Clustal W format</comment>
+ <comment xml:lang="fr">Arbre phylogénétique au format Clustal W</comment>
+ <comment xml:lang="de">Phylogenetischer Baum im Clustal W Format</comment>
+ <magic priority="50">
+ <match type="string" offset="0" value="(\n"/>
+ </magic>
+ <glob pattern="*.phb"/>
+ <glob pattern="*.ph"/>
+ <sub-class-of type="text/plain"/>
+ </mime-type>
+</mime-info>
Added: trunk/packages/njplot/tags/2.2-1/rules
===================================================================
--- trunk/packages/njplot/tags/2.2-1/rules (rev 0)
+++ trunk/packages/njplot/tags/2.2-1/rules 2008-01-18 16:20:52 UTC (rev 1161)
@@ -0,0 +1,20 @@
+#!/usr/bin/make -f
+# debian/rules for njplot using cdbs
+# Andreas Tille <tille at debian.org>, GPL
+
+# include /usr/share/cdbs/1/rules/dpatch.mk
+include /usr/share/cdbs/1/rules/debhelper.mk
+include /usr/share/cdbs/1/class/makefile.mk
+
+# despite the fact that cdbs should use distclean as default, the clean target is called
+# so force distclean
+DEB_MAKE_CLEAN_TARGET = distclean
+
+DEB_OPT_FLAG=-c -I/usr/include/ncbi -DNO_PDF -DWIN_MOTIF -DHELPFILENAME=\\\"/usr/share/njplot/njplot.help\\\"
+
+get-orig-source:
+ . debian/get-orig-source
+
+# in case the original makefile is in place which has no clean target
+#clean::
+# rm -f *.o njplot unrooted newicktops newicktotxt add_root
Property changes on: trunk/packages/njplot/tags/2.2-1/rules
___________________________________________________________________
Name: svn:executable
+ *
Added: trunk/packages/njplot/tags/2.2-1/unrooted.desktop
===================================================================
--- trunk/packages/njplot/tags/2.2-1/unrooted.desktop (rev 0)
+++ trunk/packages/njplot/tags/2.2-1/unrooted.desktop 2008-01-18 16:20:52 UTC (rev 1161)
@@ -0,0 +1,20 @@
+[Desktop Entry]
+Version=1.0
+Terminal=false
+Icon=unrooted
+Exec=unrooted %f
+Name=NJplot (unrooted)
+Name[en]=NJplot (unrooted)
+Name[fr]=NJplot (non enraciné)
+Name[pt_BR]=NJplot (não enraizado)
+GenericName=Tree Plotter
+GenericName[en]=Tree Plotter
+GenericName[fr]=Traceur d'arbres
+GenericName[pt_BR]=Plotador de árvores
+Comment=Displays and exports in PostScript format unrooted phylogenetic trees
+Comment[en]=Displays and exports in PostScript format unrooted phylogenetic trees
+Comment[fr]=Affiche et exporte au format PostScript des arbres phyolgénétiques non enracinés
+Comment[pt_BR]=Exibe e exporta em formato PostScript árvores filogenéticas não enraizadas
+Type=Application
+Categories=Biology;Science;Education;
+MimeType=text/x-clustalw-tree;chemical/njplot;
Added: trunk/packages/njplot/tags/2.2-1/watch
===================================================================
--- trunk/packages/njplot/tags/2.2-1/watch (rev 0)
+++ trunk/packages/njplot/tags/2.2-1/watch 2008-01-18 16:20:52 UTC (rev 1161)
@@ -0,0 +1,2 @@
+version=3
+ftp://pbil.univ-lyon1.fr/pub/mol_phylogeny/njplot/njplot-(.*)\.tar.gz
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