--- avogadro-1.0.0.orig/debian/compat
+++ avogadro-1.0.0/debian/compat
@@ -0,0 +1 @@
+5
--- avogadro-1.0.0.orig/debian/python-avogadro.install
+++ avogadro-1.0.0/debian/python-avogadro.install
@@ -0,0 +1,2 @@
+usr/lib/python*/*-packages
+usr/share/libavogadro/engineScripts/wireframe.py 
--- avogadro-1.0.0.orig/debian/python-avogadro.dirs
+++ avogadro-1.0.0/debian/python-avogadro.dirs
@@ -0,0 +1,2 @@
+/usr/share/libavogadro/extensionScripts
+/usr/share/libavogadro/engineScripts
--- avogadro-1.0.0.orig/debian/avogadro.manpages
+++ avogadro-1.0.0/debian/avogadro.manpages
@@ -0,0 +1 @@
+debian/avogadro.1
--- avogadro-1.0.0.orig/debian/avogadro.xpm
+++ avogadro-1.0.0/debian/avogadro.xpm
@@ -0,0 +1,231 @@
+/* XPM */
+static char * avogadro_xpm[] = {
+"32 32 196 2",
+"  	c None",
+". 	c #000000",
+"+ 	c #EE2F00",
+"@ 	c #EE3000",
+"# 	c #F14205",
+"$ 	c #FA8B19",
+"% 	c #FEAA21",
+"& 	c #FD9C1D",
+"* 	c #F4590B",
+"= 	c #F14706",
+"- 	c #F24C08",
+"; 	c #EF3401",
+"> 	c #FD9B1D",
+", 	c #FFAE22",
+"' 	c #FFAC22",
+") 	c #F24A07",
+"! 	c #EF3802",
+"~ 	c #F24907",
+"{ 	c #EF3702",
+"] 	c #FA8517",
+"^ 	c #FFAC21",
+"/ 	c #F24E08",
+"( 	c #F77513",
+"_ 	c #681500",
+": 	c #F77413",
+"< 	c #FC981C",
+"[ 	c #FFAB21",
+"} 	c #FEA41F",
+"| 	c #F03E04",
+"1 	c #FD9E1E",
+"2 	c #FC951B",
+"3 	c #F14807",
+"4 	c #F77212",
+"5 	c #A02000",
+"6 	c #200600",
+"7 	c #0A0200",
+"8 	c #721600",
+"9 	c #F03B03",
+"0 	c #F66A10",
+"a 	c #FC991C",
+"b 	c #FA8A18",
+"c 	c #F5640E",
+"d 	c #EF3301",
+"e 	c #EE3100",
+"f 	c #F66D11",
+"g 	c #F77011",
+"h 	c #EE3101",
+"i 	c #FB911A",
+"j 	c #FEA921",
+"k 	c #FA8918",
+"l 	c #F0540A",
+"m 	c #991F00",
+"n 	c #250700",
+"o 	c #0B0200",
+"p 	c #6F1600",
+"q 	c #DC3D05",
+"r 	c #F87B14",
+"s 	c #FC971C",
+"t 	c #F6680F",
+"u 	c #F77112",
+"v 	c #FC9B1D",
+"w 	c #EF3502",
+"x 	c #F6670F",
+"y 	c #EF3A03",
+"z 	c #F87A14",
+"A 	c #F24B07",
+"B 	c #A62100",
+"C 	c #DE3F05",
+"D 	c #F87C14",
+"E 	c #FB931B",
+"F 	c #F0550A",
+"G 	c #BF2600",
+"H 	c #9B1F00",
+"I 	c #DB3D05",
+"J 	c #F98016",
+"K 	c #FB8E1A",
+"L 	c #BC2600",
+"M 	c #F04105",
+"N 	c #FEA620",
+"O 	c #F24F08",
+"P 	c #F14305",
+"Q 	c #FDA01E",
+"R 	c #F35209",
+"S 	c #090200",
+"T 	c #651400",
+"U 	c #D53804",
+"V 	c #FB8F1A",
+"W 	c #F24D08",
+"X 	c #F5670F",
+"Y 	c #EC4F09",
+"Z 	c #8E1C00",
+"` 	c #F5610D",
+" .	c #FC9A1D",
+"..	c #F24F09",
+"+.	c #F3550A",
+"@.	c #FD9D1E",
+"#.	c #F25009",
+"$.	c #220700",
+"%.	c #AF2501",
+"&.	c #F45E0D",
+"*.	c #F98517",
+"=.	c #F98216",
+"-.	c #D83904",
+";.	c #4E0F00",
+">.	c #FFAD22",
+",.	c #FDA11F",
+"'.	c #F14406",
+").	c #050100",
+"!.	c #EB4D08",
+"~.	c #F6690F",
+"{.	c #A82301",
+"].	c #1B0500",
+"^.	c #F45C0C",
+"/.	c #F03D04",
+"(.	c #FB901A",
+"_.	c #F66B10",
+":.	c #C82800",
+"<.	c #2A0800",
+"[.	c #C02D02",
+"}.	c #FA8617",
+"|.	c #DF3B04",
+"1.	c #B62701",
+"2.	c #E44507",
+"3.	c #5D1200",
+"4.	c #F03C03",
+"5.	c #D75C0E",
+"6.	c #EB4E09",
+"7.	c #F25B0C",
+"8.	c #891B00",
+"9.	c #140400",
+"0.	c #531000",
+"a.	c #DD3E05",
+"b.	c #E93903",
+"c.	c #F76F11",
+"d.	c #F77312",
+"e.	c #D23603",
+"f.	c #3B0C00",
+"g.	c #150400",
+"h.	c #A32200",
+"i.	c #F66E11",
+"j.	c #FB8E19",
+"k.	c #9D2000",
+"l.	c #0E0300",
+"m.	c #601300",
+"n.	c #EA4C08",
+"o.	c #F3530A",
+"p.	c #F14907",
+"q.	c #EE530A",
+"r.	c #661400",
+"s.	c #80480D",
+"t.	c #83400A",
+"u.	c #2C0900",
+"v.	c #D13603",
+"w.	c #E64406",
+"x.	c #3D0C00",
+"y.	c #341704",
+"z.	c #4B3109",
+"A.	c #451201",
+"B.	c #440D00",
+"C.	c #4A2A07",
+"D.	c #382206",
+"E.	c #120400",
+"F.	c #DE3101",
+"G.	c #F87813",
+"H.	c #F3560A",
+"I.	c #480E00",
+"J.	c #EE3201",
+"K.	c #F98116",
+"L.	c #F97E15",
+"M.	c #FDA21F",
+"N.	c #F87613",
+"O.	c #F03C04",
+"P.	c #FEA31F",
+"Q.	c #F4580B",
+"R.	c #010000",
+"S.	c #211003",
+"T.	c #410E00",
+"U.	c #2F0900",
+"V.	c #180500",
+"W.	c #410D00",
+"X.	c #230901",
+"Y.	c #ED4305",
+"Z.	c #160400",
+"`.	c #971E00",
+" +	c #961E00",
+".+	c #170400",
+"++	c #ED4506",
+"@+	c #F14606",
+"#+	c #F87C15",
+"$+	c #B57817",
+"%+	c #B27316",
+"&+	c #FB941B",
+"*+	c #EF3903",
+"=+	c #EF3602",
+"-+	c #440E00",
+";+	c #420D00",
+"                                                                ",
+"                          . . . . . .                           ",
+"            + @ +         . . . . . .                           ",
+"          # $ % & *     . . . . . . . .                         ",
+"  @ = - ; > , , , ' )   . . . . . . . .             + ! ~ - {   ",
+"+ ] , ^ / , , , , , ( _ . . . . . . . .       @ - : < [ [ , } | ",
+"+ 1 2 { 3 , , , , , 4 5 6 . . . . . . 7 8 9 0 a b c = d e f , - ",
+"  g & h @ i , , , j 3 k l m n . . o p q r s t 9 +         u v h ",
+"  w a x   y z < k A B C D E F G H I J K l L         + + M N O   ",
+"    P Q R     +     . S T U r V W X Y Z 6 .       `  .i ..+.    ",
+"      3 @.#.        . . $.%.&.A *.=.-.;.. .     3 >., , ,.h     ",
+"        '. .*     . ).8 !.E ~.d + #.E 0 {.]..   ^., , , , 9     ",
+"          /.(._.:.<.[.r }.|.        1._.i 2.3.  4.N , , V +     ",
+"            ; z 5.6.2 7.8.9.        . 0.a.V f b.c.# d._.!       ",
+"              h ( $ e.f..             . g.h.i.V |               ",
+"            /.j.f k.l.. ].            g.. . m.n.< o.            ",
+"          p.a q.r.. . . s.#.+       /.t.. . . u.v.i t +         ",
+"        o.v w.x.. . . . y.z.A.u.g.B.C.D.. . . . E.F.}.G.@       ",
+"      H.& # I.. . . . . . . . . . . . . . . . . .   J.K.L.@     ",
+"    O M.'.  . . . . . . . . . . . . . . . . . . . .   J.b N.+   ",
+"  O.P.Q.    . . . . . . . . . . . . . . . . . . . .     y ,.^.  ",
+"  r 2 +   R.. . . . S.T.U.. . . . . . V.W.X.. . . . ).    ~.P.w ",
+"+ Q v - Y.Z.. . . . `.                     +. . . . .+++@+#+, / ",
+"  4 [ , $+. . . . .                         . . . . . %+>., &+*+",
+"    d =+-+. . . . .                         . . . . . ;+d =++   ",
+"        . . . . .                             . . . . .         ",
+"        . . . . .                             . . . . .         ",
+"      . . . . . .                               . . . . .       ",
+"        . . . .                                   . . .         ",
+"                                                                ",
+"                                                                ",
+"                                                                "};
--- avogadro-1.0.0.orig/debian/libavogadro-dev.install
+++ avogadro-1.0.0/debian/libavogadro-dev.install
@@ -0,0 +1,5 @@
+usr/include
+usr/lib/*.so
+usr/lib/avogadro/*.cmake
+usr/lib/avogadro/*/cmake
+usr/lib/avogadro/*/*.cmake
--- avogadro-1.0.0.orig/debian/rules
+++ avogadro-1.0.0/debian/rules
@@ -0,0 +1,29 @@
+#!/usr/bin/make -f
+
+include /usr/share/cdbs/1/rules/debhelper.mk
+include /usr/share/cdbs/1/rules/utils.mk
+include /usr/share/cdbs/1/class/cmake.mk
+include /usr/share/cdbs/1/rules/simple-patchsys.mk
+
+LDFLAGS += -Wl,-z,defs
+LDFLAGS += -Wl,--as-needed
+
+# Generate more tight versioned dependency?
+# DEB_DH_MAKESHLIBS_ARGS_libavogadro1 = -V
+
+DEB_SHLIBDEPS_LIBRARY_avogadro = libavogadro1
+DEB_SHLIBDEPS_INCLUDE_avogadro = debian/libavogadro1/usr/lib
+DEB_DH_INSTALL_SOURCEDIR = debian/tmp
+DEB_CMAKE_EXTRA_FLAGS = -DENABLE_GLSL=ON -DENABLE_RPATH=OFF -DENABLE_UPDATE_CHECKER=OFF
+
+PYVER = $(shell pyversions -dv)
+DEB_DH_GENCONTROL_ARGS_python-avogadro = -- -V'pyavo:Depends=python$(PYVER)-numpy, python-qt4'
+
+binary-install/python-avogadro::
+	dh_sip
+	dh_pycentral -ppython-avogadro
+
+common-binary-post-install-arch:: list-missing
+
+clean::
+	$(RM) conf.log conf.pri
--- avogadro-1.0.0.orig/debian/watch
+++ avogadro-1.0.0/debian/watch
@@ -0,0 +1,4 @@
+# See uscan(1) for format
+
+version=3
+http://sf.net/avogadro/avogadro-([\d\.]+)\.tar.gz
--- avogadro-1.0.0.orig/debian/avogadro.install
+++ avogadro-1.0.0/debian/avogadro.install
@@ -0,0 +1,6 @@
+usr/bin
+usr/share/applications
+usr/share/avogadro/i18n
+usr/share/pixmaps
+
+../../debian/avogadro.xpm usr/share/pixmaps/
--- avogadro-1.0.0.orig/debian/avogadro.1
+++ avogadro-1.0.0/debian/avogadro.1
@@ -0,0 +1,29 @@
+.TH "AVOGADRO" "1" "22 January 2009" "" "User commands"
+
+.SH NAME
+avogadro \- Molecular Graphics and Modelling System
+
+.SH SYNOPSIS
+\fBavogadro\fR [\fBoptions\fR] [\fIfiles\fR]
+
+.SH DESCRIPTION
+.PP
+\fBavogadro\fR is a molecular graphics and modelling system targeted at molecules
+and biomolecules.  It can visualize properties like molecular orbitals or
+electrostatic potentials and features an intuitive molecular builder.
+
+.SH OPTIONS
+.PP
+Listed below are the command line options for \fBavogadro\fR:
+.TP
+.B \-\-help, \-h
+Show help options.
+.TP
+.B \-\-version, \-v
+Show version information.
+
+.SH AUTHOR
+.PP
+This manual page was written by Jordan Mantha <\&laserjock@ubuntu.com\&>.
+.PP
+Released under the GNU General Public License, version 2 or later.
--- avogadro-1.0.0.orig/debian/libavogadro1.install
+++ avogadro-1.0.0/debian/libavogadro1.install
@@ -0,0 +1,5 @@
+usr/lib/*.so.*
+usr/lib/avogadro/*/extensions
+usr/lib/avogadro/*/tools
+usr/lib/avogadro/*/engines
+usr/lib/avogadro/*/colors
--- avogadro-1.0.0.orig/debian/control
+++ avogadro-1.0.0/debian/control
@@ -0,0 +1,96 @@
+Source: avogadro
+Section: science
+Priority: optional
+Maintainer: Ubuntu MOTU Developers <ubuntu-motu@lists.ubuntu.com>
+XSBC-Original-Maintainer: Debichem Team <debichem-devel@lists.alioth.debian.org>
+Uploaders: Jordan Mantha <laserjock@ubuntu.com>,
+ Michael Banck <mbanck@debian.org>,
+ Daniel Leidert (dale) <daniel.leidert@wgdd.de>
+Build-Depends: cdbs (>= 0.4.50), debhelper (>= 5.0.38), cmake (>= 2.6.0),
+ patchutils, pkg-config, libboost-python-dev, libeigen2-dev (>= 2.0~beta6),
+ libglew1.5-dev, libqt4-dev (>= 4.4.0), qt4-dev-tools, zlib1g-dev,
+ libqt4-opengl-dev, libopenbabel-dev (>= 2.2.0), python-dev, python-central,
+ python-numpy, python-sip4-dev, sip4
+Standards-Version: 3.8.3
+XS-Python-Version: current
+Homepage: http://avogadro.sourceforge.net/
+Vcs-Browser: http://svn.debian.org/wsvn/debichem/
+Vcs-Svn: svn://svn.debian.org/svn/debichem/unstable/avogadro/
+DM-Upload-Allowed: yes
+
+Package: avogadro
+Architecture: any
+Depends: ${shlibs:Depends}, ${misc:Depends}, libavogadro1 (= ${binary:Version})
+Recommends: avogadro-data (>= 1.0.0-2)
+Description: Molecular Graphics and Modelling System
+ Avogadro is a molecular graphics and modelling system targetted at molecules
+ and biomolecules.  It can visualize properties like molecular orbitals or
+ electrostatic potentials and features an intuitive molecular builder.
+ .
+ Features include:
+  * Molecular modeller with automatic force-field based geometry optimization 
+  * Molecular Mechanics including constraints and conformer searches
+  * Visualization of molecular orbitals and general isosurfaces
+  * Visualization of vibrations and plotting of vibrational spectra
+  * Support for crystallographic unit cells
+  * Input generation for the Gaussian, GAMESS and MOLPRO quantum chemistry 
+    packages
+  * Flexible plugin architecture and Python scripting
+ .
+ File formats Avogadro can read include PDB, XYZ, CML, CIF, Molden, as well as
+ Gaussian, GAMESS and MOLPRO output.
+
+Package: avogadro-data
+Architecture: all
+Depends: ${misc:Depends}
+Conflicts: avogadro (<< 1.0.0-2), libavogadro0 (<< 1.0.0-2)
+Replaces: avogadro (<< 1.0.0-2), libavogadro0 (<< 1.0.0-2)
+Description: Molecular Graphics and Modelling System (Data Files)
+ Avogadro is a molecular graphics and modelling system targetted at molecules
+ and biomolecules.  It can visualize properties like molecular orbitals or
+ electrostatic potentials and features an intuitive molecular builder.
+ .
+ This package contains data files like molecular builder fragments or
+ OpenGL shaders.
+
+Package: libavogadro1
+Conflicts: libavogadro0
+Replaces: libavogadro0
+Architecture: any
+Section: libs
+Depends: ${shlibs:Depends}, ${misc:Depends}
+Recommends: python-avogadro, avogadro-data (>= 1.0.0-2)
+Description: Molecular Graphics and Modelling System (library)
+ Avogadro is a molecular graphics and modelling system targetted at small
+ to medium molecules.  It can visualize properties like molecular orbitals or
+ electrostatic potentials and features an intuitive molecular builder.
+ .
+ This package provides the shared library.
+
+Package: libavogadro-dev
+Architecture: any
+Section: libdevel
+Priority: extra
+Depends: ${misc:Depends}, libavogadro1 (= ${binary:Version}), libqt4-dev (>= 4.4.0), libeigen2-dev (>= 2.0~beta6), libopenbabel-dev (>= 2.2.0)
+Description: Molecular Graphics and Modelling System (development files)
+ Avogadro is a molecular graphics and modelling system targetted at small
+ to medium molecules.  It can visualize properties like molecular orbitals or
+ electrostatic potentials and features an intuitive molecular builder.
+ .
+ This package provides the development and header files.
+
+Package: python-avogadro
+Architecture: any
+Section: python
+Priority: extra
+Depends: ${misc:Depends}, ${python:Depends}, ${shlibs:Depends}, ${pyavo:Depends}
+Replaces: libavogadro0 (<< 0.9.8)
+Conflicts: libavogadro0 (<< 0.9.8)
+Provides: ${python:Provides}
+XB-Python-Version: ${python:Versions}
+Description: Molecular Graphics and Modelling System (Python module)
+ Avogadro is a molecular graphics and modelling system targetted at small
+ to medium molecules.  It can visualize properties like molecular orbitals or
+ electrostatic potentials and features an intuitive molecular builder.
+ .
+ This package provides the Python module.
--- avogadro-1.0.0.orig/debian/pycompat
+++ avogadro-1.0.0/debian/pycompat
@@ -0,0 +1 @@
+2
--- avogadro-1.0.0.orig/debian/copyright
+++ avogadro-1.0.0/debian/copyright
@@ -0,0 +1,176 @@
+This package was debianized by Jordan Mantha <mantha@ubuntu.com> on
+Sat, 10 Nov 2007 16:09:59 -0800
+
+It was downloaded from: http://sourceforge.net/projects/avogadro/
+
+Upstream Authors:
+
+  Geoffrey Hutchison et al.
+  For the full list see /usr/share/doc/avogadro/AUTHORS.
+
+Copyright:
+
+  Copyright (C) 2006-2009 The Avogadro Project.
+  Copyright (C) 2007 Shahzad Ali.
+  Copyright (C) 2008 Michael Banck.
+  Copyright (C) 2007 Ross Braithwaite.
+  Copyright (C) 2007 James Bunt.
+  Copyright (C) 2006-2008 Donald Ephraim Curtis.
+  Copyright (C) 2008 Albert De Fusco.
+  Copyright (C) 2007-2009 Marcus D. Hanwell.
+  Copyright (C) 2006-2009 Geoffrey R. Hutchison.
+  Copyright (C) 2006-2008 Benoit Jacob.
+  Copyright (C) 2008 Naomi Fox.
+  Copyright (C) 2007 Carsten.
+  Copyright (C) 2007-2009 Tim Vandermeersch.
+  Copyright (C) 1992-2008 Trolltech ASA.
+  
+  libavogadro/src/extensions/gamessinputdata.h:
+  Copyright (C) 2004 Iowa State University
+
+  libavogadro/src/extensions/shaders/vmd.frag,
+  libavogadro/src/extensions/shaders/vmd.vert:
+  Copyright (C) 1995-2007 The Board of Trustees of the University of Illinois.
+
+  libavogadro/src/extensions/shaders/plasma.vert,
+  libavogadro/src/extensions/shaders/gooch.frag,
+  libavogadro/src/extensions/shaders/plasma.frag,
+  libavogadro/src/extensions/shaders/gooch.vert:
+  Copyright (C) 2002-2004 3Dlabs Inc. Ltd.
+
+  testfiles/*:
+  Copyright (C) 2006 Jerome Pansanel.
+
+  avogadro/gl2ps/*:
+  Copyright (C) 1999-2006 Christophe Geuzaine.
+
+  cmake/modules/MacroEnsureVersion.cmake
+  Copyright (C) 2006 David Faure <faure@kde.org>.
+  Copyright (C) 2007 Will Stephenson <wstephenson@kde.org>.
+
+  cmake/modules/FindEigen2.cmake:
+  Copyright (C) 2006, 2007 Montel Laurent <montel@kde.org>.
+  
+  cmake/modules/FindOpenBabel2.cmake
+  Copyright (C) 2006, 2007 Carsten Niehaus <cniehaus@gmx.de>.
+  Copyright (C) 2008 Marcus D. Hanwell <marcus@cryos.org>.
+
+  debian/*:
+  Copyright (C) 2007 Jordan Mantha <mantha@ubuntu.com>.
+  Copyright (C) 2008,2009 debichem team <debichem-devel@lists.alioth.debian.org>
+
+License:
+
+**/*: GPL2 (several files), GPL2+
+
+  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 2 of the License, or
+  (at your option) any later version.
+
+  This program 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, write to the Free Software Foundation,
+  Inc., 51 Franklin St, Fifth Floor, Boston, MA 02110-1301, USA.
+  
+  On Debian systems, the complete text of the GNU General Public
+  License (latest version) can be found in `/usr/share/common-licenses/GPL'.
+
+avogadro/gl2ps/*,
+libavogadro/src/extensions/basisset.cpp,
+libavogadro/src/extensions/basisset.h,
+libavogadro/src/extensions/gaussianfchk.cpp,
+libavogadro/src/extensions/gaussianfchk.h,
+libavogadro/src/extensions/mopacaux.cpp,
+libavogadro/src/extensions/mopacaux.h,
+libavogadro/src/extensions/slaterset.cpp,
+libavogadro/src/extensions/slaterset.h,
+libavogadro/src/extensions/supercelldialog.cpp,
+libavogadro/src/extensions/supercelldialog.h,
+libavogadro/src/extensions/vdwsurface.cpp,
+libavogadro/src/extensions/vdwsurface.h,
+libavogadro/src/meshgenerator.cpp,
+libavogadro/src/meshgenerator.h,
+libavogadro/src/periodictableview.cpp,
+libavogadro/src/periodictableview.h: LGPL2.1+
+
+  This library is free software; you can redistribute it and/or modify
+  it under the terms of the GNU Library General Public License as
+  published by the Free Software Foundation; either version 2.1 of the
+  License, or (at your option) any later version.
+
+  This library 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
+  Lesser General Public License for more details.
+
+  You should have received a copy of the GNU Lesser General Public
+  License along with this library; if not, write to the Free Software
+  Foundation, Inc., 51 Franklin St, Fifth Floor, Boston, MA  02110-1301  USA
+
+  On Debian systems, the complete text of the GNU Lesser General Public
+  License (latest version) can be found in `/usr/share/common-licenses/LGPL'.
+
+libavogadro/src/extensions/shaders/gooch.frag,
+libavogadro/src/extensions/shaders/gooch.vert,
+libavogadro/src/extensions/shaders/plasma.frag,
+libavogadro/src/extensions/shaders/plasma.vert: BSD-C3
+
+  Redistribution and use in source and binary forms, with or without
+  modification, are permitted provided that the following conditions
+  are met:
+      
+      Redistributions of source code must retain the above copyright
+      notice, this list of conditions and the following disclaimer.
+
+      Redistributions in binary form must reproduce the above
+      copyright notice, this list of conditions and the following
+      disclaimer in the documentation and/or other materials provided
+      with the distribution.
+
+      Neither the name of 3Dlabs Inc. Ltd. nor the names of its
+      contributors may be used to endorse or promote products derived
+      from this software without specific prior written permission.
+
+  THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS
+  "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT
+  LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS
+  FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE
+  COPYRIGHT HOLDERS OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT,
+  INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING,
+  BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES;
+  LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER
+  CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT
+  LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN
+  ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE
+  POSSIBILITY OF SUCH DAMAGE.
+
+cmake/*: BSD-C3
+
+  Redistribution and use in source and binary forms, with or without
+  modification, are permitted under the terms of the BSD License.
+
+  THIS SOFTWARE IS PROVIDED BY THE REGENTS AND CONTRIBUTORS ``AS IS'' AND
+  ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
+  IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
+  ARE DISCLAIMED.  IN NO EVENT SHALL THE REGENTS OR CONTRIBUTORS BE LIABLE
+  FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL
+  DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS
+  OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION)
+  HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT
+  LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY
+  OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF
+  SUCH DAMAGE.
+
+  On Debian systems, the complete text of the 3-clause BSD license can be
+  found in `/usr/share/common-licenses/BSD'.
+
+==============================================================================
+
+The Debian packaging is Copyright (C) 2007-2009 by Jordan Mantha
+<mantha@ubuntu.com> and Debichem Team <debichem-devel@lists.alioth.debian.org>
+and is licensed under the GPL, see above.
--- avogadro-1.0.0.orig/debian/avogadro.menu
+++ avogadro-1.0.0/debian/avogadro.menu
@@ -0,0 +1,7 @@
+?package(avogadro):\
+  needs="X11"\
+  section="Applications/Science/Chemistry"\
+  title="Avogadro"\
+  longtitle="3D Molecular Editor and Visualizer"\
+  icon="/usr/share/pixmaps/avogadro.xpm"\
+  command="/usr/bin/avogadro"
--- avogadro-1.0.0.orig/debian/changelog
+++ avogadro-1.0.0/debian/changelog
@@ -0,0 +1,357 @@
+avogadro (1.0.0-2ubuntu3) lucid; urgency=low
+
+  * Remove faulty depends for python2.6-qt4 and python2.6-sip4 in debian/rules
+  * Use dh_sip in debian/rules
+
+ -- Jonathan Thomas <echidnaman@kubuntu.org>  Thu, 22 Apr 2010 00:29:35 -0400
+
+avogadro (1.0.0-2ubuntu2) lucid; urgency=low
+
+  * Add sip_4.10_support.patch from upstream. Fixes FTBFS with new SIP
+    versions
+
+ -- Jonathan Thomas <echidnaman@kubuntu.org>  Tue, 20 Apr 2010 23:38:34 -0400
+
+avogadro (1.0.0-2ubuntu1) lucid; urgency=low
+
+  * Sync with Debian
+  * Edit python-avogadro.install for python 2.6 directories
+
+ -- Jonathan Riddell <jriddell@ubuntu.com>  Wed, 06 Jan 2010 14:36:13 +0000
+
+avogadro (1.0.0-2) unstable; urgency=low
+
+  [ Michael Banck ]
+  * debian/libavogadro0.install: Wildcard the API directory.
+  * debian/libavogadro-dev.install: Likewise.
+  * debian/libavogadro0.install: Renamed to ...
+  * debian/libavogadro1.install: ... this.
+  * debian/control (libavogadro0): Renamed package to libavogadro1.  Update
+    all references.
+  * debian/rules: Likewise.
+  * debian/control (libavogadro1): Replace and Conflict with libavogadro0.
+  * debian/control (avogadro-data): New package.
+  * debian/control (avogadro): Recommend avogadro-data.
+  * debian/control (libavogadro1): Likewise.
+  * debian/libavogadro1.install: No longer ship /usr/share/libavogadro.
+  * debian/avogadro.install: Only ship i18n directory from
+    /usr/share/avogadro.
+  * debian/avogadro-data.install: New file.
+  * debian/python-avogadro.install: Install wireframe.py explicitely
+    ommitting example.py (closes: #555627).
+  * debian/libavogadro-dev.install: Ship AvogadroBuildSettings.cmake,
+    AvogadroLibraryDeps.cmake and AvogadroUse.cmake as well.
+  * debian/control (avogadro-date): Replace and Conflict with prior versions
+    of the avogadro and libavogadro0 packages.
+  * debian/python-avogadro.dirs: New file.
+
+  [ Daniel Leidert ]
+  * debian/python-avogadro.files: Dropped.
+  * debian/python-avogadro.install: Install scripts from debian/tmp.
+  * debian/rules (binary-install/python-avogadro): Adjusted for changes above.
+
+ -- Michael Banck <mbanck@debian.org>  Fri, 13 Nov 2009 19:57:07 +0100
+
+avogadro (1.0.0-1) unstable; urgency=low
+
+  * New upstream release.
+  * debian/patches/sip_4.9_support.patch: Removed, applied upstream.
+  * debian/patches/fix_empty_second_window.patch: Likewise.
+  * debian/patches/fix_molpro_input_generator.patch: Likewise.
+  * debian/libavogadro0.install: Adjust for additional API directory.
+  * debian/libavogadro-dev.install: Likewise.
+
+ -- Michael Banck <mbanck@debian.org>  Fri, 23 Oct 2009 23:59:03 +0200
+
+avogadro (0.9.9-1) unstable; urgency=low
+
+  * New upstream release.
+    + Fixes german umlauts in the interface (closes: #538075).
+
+  [ Michael Banck ]
+  * debian/patches/vibrations_ordering.patch: Removed, applied upstream.
+  * debian/patches/sip_4.9_support.patch: New patch, recognize new SIP
+    version, taken from upstream (closes: #551244).
+  * debian/rules (binary-fixup/python-avogadro): Removed rule, no longer
+    needed.
+  * debian/libavogadro0.install: Put extensions, engines and tools into
+    library package.
+  * debian/libavogadro-dev.install: Put cmake files into development package.
+  * debian/avogadro.install: No longer put /usr/lib/avogadro into application
+    package.
+  * debian/patches/fix_empty_second_window.patch: New patch, fixes opening an
+    empty second window when Avogadro gets opened with a molecule, taken from
+    upstream.
+  * debian/patches/fix_molpro_input_generator.patch: New patch, makes the
+    Molpro input generator work again, taken from upstream.
+
+  [ Daniel Leidert ]
+  * debian/control: Added python-avogadro package (closes: #513441).
+    (Build-Depends): Added python-dev and python-central. Increase dh version
+    to >= 5.0.38 for the latter.
+    (Standrads-Version): Bumped to 3.8.3.
+    (Depends): Move Python (module) dependencies to python-avogadro.
+    (Recommends): Let libavogadro0 recommend python-avogadro.
+  * debian/rules: Added targets and rules to create new python-avogadro
+    package. Make sure we comply to the Python policy and depend on
+    pythonX.Y-foo for the moment.
+  * debian/libavogadro0.install: Don't install Python module.
+  * debian/pycomat: Added with compat leven 2.
+  * debian/python-avogadro.files: Added to move Python scripts over to
+    python-avogadro.
+  * debian/python-avogadro.install: Added to install Python module.
+
+ -- Michael Banck <mbanck@debian.org>  Thu, 22 Oct 2009 14:44:53 +0200
+
+avogadro (0.9.7-1ubuntu2) karmic; urgency=low
+
+  * Build with -DENABLE_PYTHON=OFF, Python bits do not build with Sip 4.9
+
+ -- Jonathan Riddell <jriddell@ubuntu.com>  Wed, 14 Oct 2009 00:55:35 +0100
+
+avogadro (0.9.7-1ubuntu1) karmic; urgency=low
+
+  * Merge from debian unstable, Ubuntu remaining changes:
+    - debian/control: Replace dependency on python2.5 with python2.6.
+    - debian/libavogadro0.install: Install the Python 2.6 extension.
+
+ -- Alessio Treglia <quadrispro@ubuntu.com>  Mon, 20 Jul 2009 11:12:09 +0200
+
+avogadro (0.9.7-1) unstable; urgency=low
+
+  * New upstream release.
+
+  [ Daniel Leidert ]
+  * debian/rules (binary-fixup/libavogadro0): Don't install
+    extensionScripts/example.py for the moment (closes: #536281).
+
+  [ Michael Banck ]
+  * debian/patches/orbitalextension_link_zlib.patch: Removed, applied
+    upstream.
+  * debian/patches/sip_4.8_support.patch: Likewise.
+  * debian/control (Build-Depends): Removed libboost-python1.37-dev and
+    libboost-python1.38-dev, added qt4-dev-tools.
+  * debian/avogadro.examples: New file.
+
+ -- Michael Banck <mbanck@debian.org>  Sun, 19 Jul 2009 17:34:22 +0200
+
+avogadro (0.9.6-1ubuntu1) karmic; urgency=low
+
+  * Merge from debian unstable, Ubuntu remaining changes:
+    - debian/libavogadro0.install: Install the Python 2.6 extension.
+    - debian/control: Don't depend on python2.5, use python2.6 instead. 
+
+ -- Alessio Treglia <quadrispro@ubuntu.com>  Mon, 29 Jun 2009 09:09:30 +0200
+
+avogadro (0.9.6-1) unstable; urgency=low
+
+  * New upstream release.
+  * debian/patches/ignore_f_orbitals.patch: Removed, applied upstream.
+  * debian/patches/ignore_missing_intensities.patch: Likewise.
+  * debian/patches/molpro_orbitals.patch: Likewise.
+  * debian/patches/install_desktop_on_kfreebsd.patch: Likewise.
+  * debian/libavogadro0.install: Wildcard python directory, the old
+    "Avogadro.so" no longer matches.
+  * debian/control (Build-Depends): Added zlib1g-dev.
+  * debian/patches/orbitalextension_link_zlib.patch: New patch, fixes build
+    failure due to a missing link to zlib, taken from upstream.
+  * debian/rules (DEB_CMAKE_EXTRA_FLAGS): Added -DENABLE_UPDATE_CHECKER=OFF.
+  * debian/patches/vibrations_ordering.patch: New patch, fixing sorting of
+    vibrations, taken from upstream.
+  * debian/patches/sip_4.8_support.patch: New patch, adding support for
+    python-sip4-4.8 (closes: #533939).
+  * debian/control (Build-Depends): Added sip4, needed by the build system to
+    detect the sip4 version.
+
+ -- Michael Banck <mbanck@debian.org>  Sun, 21 Jun 2009 19:01:36 +0200
+
+avogadro (0.9.4-3) unstable; urgency=low
+
+  * debian/avogadro.install: Include the .desktop file (closes: #528166).
+  * debian/patches/install_desktop_on_kfreebsd.patch: Added.
+    - avogadro/src/CMakeLists.txt: Install .desktop file and icon on kfreebsd
+      too to avoid an FTBFS.
+
+ -- Daniel Leidert (dale) <daniel.leidert@wgdd.de>  Thu, 14 May 2009 19:03:30 +0200
+
+avogadro (0.9.4-2ubuntu1) karmic; urgency=low
+
+  * Fix FTBFS due to change of phython default from 2.5 to 2.6 (LP: #372576)  
+  * debian/libavogadro0.install: update to install the Avogadro.so python2.6 extension
+  * debian/control: update libavogadro0 dependency on python2.6 
+
+ -- Manny Vindiola <mannyv@gmail.com>  Wed, 06 May 2009 02:11:52 -0400
+
+avogadro (0.9.4-2) unstable; urgency=low
+
+  [ Daniel Leidert ]
+  * debian/avogadro.desktop: Dropped. Upstream installs a valid one now.
+  * debian/avogadro.install: Don't install self-written .desktop file over the
+    one installed by upstream and install missing icon.
+  * debian/control (Build-Depends): (Re-)Add Boost 1.37 as alternative to 1.38
+    for Ubuntu.
+  * debian/rules: Removed hardcoded CC and CXX definitions. Set
+    LDFLAGS += -Wl,-z,defs -Wl,--as-needed.
+    (get-orig-source): Dropped (we don't need a special target for this).
+  * debian/copyright: Minor updates and cosmetics.
+
+  [ Michael Banck ]
+  * debian/control (Description): Updated to reflect recent feature additions.  
+  * debian/patches/ignore_missing_intensities.patch: New patch, takes into
+    account missing intensity information for vibrations so that Avogadro no
+    longer crashes, taken from upstream.
+
+ -- Michael Banck <mbanck@debian.org>  Tue, 05 May 2009 15:14:54 +0200
+
+avogadro (0.9.4-1) unstable; urgency=low
+
+  * New upstream release.
+
+  [ Daniel Leidert ]
+  * debian/control (Build-Depends): Use Boost 1.38.
+    (Standards-Version): Bumped to 3.8.1 (no other changes).
+    (Vcs-Svn): Fixed vcs-field-uses-not-recommended-uri-format.
+  * debain/rules (DEB_CMAKE_EXTRA_FLAGS): Disable rpath support.
+
+  [ Michael Banck ]
+  * debian/patches/molpro_orbitals.patch: Updated.
+  * debian/patches/ignore_f_orbitals.patch: New patch, tries to properly
+    ignore f-type orbitals when calculating molecular orbitals.
+
+ -- Jordan Mantha <laserjock@ubuntu.com>  Sun, 03 May 2009 19:52:02 -0700
+
+avogadro (0.9.3-1) unstable; urgency=low
+
+  * New upstream release.
+
+  [ Daniel Leidert ]
+  * debian/control (Build-Depends): Build-depend on boost1.37.
+    (Priority): libavogadro-dev must be priority extra as libeigen2-dev is,
+    see Debian policy section 2.5.
+
+  [ Jordan Mantha ]
+  * debian/libavogadro0.install: install the Avogadro.so python extension
+  * debian/control: add libavogadro0 dependency on python2.5 for extension
+
+  [ Michael Banck ]
+  * debian/patches/molpro_orbitals.patch: New patch, adds support for MOLPRO
+    molecular orbitals. 
+
+ -- Michael Banck <mbanck@debian.org>  Mon, 13 Apr 2009 16:11:30 +0200
+
+avogadro (0.9.2-1) unstable; urgency=low
+
+  * New upstream release 0.9.2.
+
+  * debian/control (Uploaders): Added myself.
+    (Section): Fixed binary-control-field-duplicates-source.
+    (Build-Depends): Use boost 1.35.
+  * debian/copyright: Updated and completed.
+  * debian/rules: List missing (not-installed) files.
+
+ -- Daniel Leidert (dale) <daniel.leidert@wgdd.de>  Fri, 06 Mar 2009 16:06:16 +0100
+
+avogadro (0.9.0-2) experimental; urgency=low
+
+  * debian/control: added python-sip4-dev for complete python support
+  * debian/avogadro.1: (thanks Daniel Leidert)
+     - typo fix and a few nit-picking formatting changes
+
+ -- Jordan Mantha <laserjock@ubuntu.com>  Fri, 23 Jan 2009 21:01:16 -0800
+
+avogadro (0.9.0-1) experimental; urgency=low
+
+  * remove patches included upstream:
+    - 01_AddHydrogens.patch
+    - 10_QVarLengthArray.patch
+    - 11_ExportGraphics.patch
+  * debian/control - update dependencies:
+     - bump Qt version
+     - switch from eigen to eigen2
+     - drop -1 from openbabel dependency
+     - add python-numpy for python support
+     - added libglew1.5-dev for GL shading support
+  * debian/rules - add cmake flag to turn on GL shadding support
+  * debian/control - fix lintian warnings:
+     - add ${misc:Depends} to libavogadro0 and libavogadro-dev
+     - s/python/Python/ in long description
+     - added manpage, avogadro.1
+
+ -- Jordan Mantha <laserjock@ubuntu.com>  Thu, 22 Jan 2009 10:43:40 -0800
+
+avogadro (0.8.1-5) unstable; urgency=low
+
+  * add patches/11_ExportGraphics.patch
+    fixes graphics export, by Tim Vandermeersch (Closes: #507046)
+  * debian/control: Updated descriptions
+  * debian/control: Added VCS-* links.
+
+ -- Michael Banck <mbanck@debian.org>  Mon, 01 Dec 2008 01:42:41 +0100
+
+avogadro (0.8.1-4) unstable; urgency=low
+
+  * Upload to unstable
+  * debian/control: Bump cmake build dependency to 2.6.0 to work around
+    bug #479907 (Closes: #488990)
+
+ -- Jordan Mantha <laserjock@ubuntu.com>  Thu, 24 Jul 2008 12:15:32 -0700
+
+avogadro (0.8.1-3) experimental; urgency=low
+
+  * debian/control:
+    - bump standards version to 3.8.0 (no changes needed)
+    - bump openbabel dependency to >= 2.2.0-1
+
+ -- Jordan Mantha <laserjock@ubuntu.com>  Mon, 14 Jul 2008 21:07:23 -0700
+
+avogadro (0.8.1-2) experimental; urgency=low
+
+  * add debian/patches/10_QVarLengthArray.patch
+    from upstream r1513. fixes Align/Measure tool crash
+
+ -- Jordan Mantha <laserjock@ubuntu.com>  Wed, 02 Jul 2008 15:18:55 -0700
+
+avogadro (0.8.1-1) experimental; urgency=low
+
+  * New upstream release
+  * add debian/avogadro.desktop
+  * debian/avogadro.install:
+    - install avogadro.desktop, avogadro.png, and avogadro.xpm
+  * add avogadro.menu
+  * debian/control:
+    - update minimum versions of qt (4.3.4) and cmake (2.4.7) and openbabel
+      (2.2.0~beta6~r2551-2)
+    - add build dependency on libboost-python-dev to enable python terminal
+    - remove unneeded python-dev build dependency
+    - add build dependency on patchutils for simple-patchsys
+    - add python-qt4 depdency for python console garbage collection
+    - strict dependency on libavogadro0 for avogadro (${binary:Version})
+    - update libavogadro-dev dependencies
+  * debian/rules:
+    - include simple-patchsys CDBS rule
+  * debian/patches/:
+    - added 01_AddHydrogens.patch to fix openbabel/avogadro argument
+      mismatch
+  * debian/watch: update to use gzipped rather than b2ziped tarballs.
+
+ -- Jordan Mantha <laserjock@ubuntu.com>  Sat, 28 Jun 2008 15:12:07 -0700
+
+avogadro (0.8.0-1) experimental; urgency=low
+
+  * New upstream release
+  * debian/control:
+    - add build dependency on pkg-config, python-dev and libqt4-opengl-dev
+
+ -- Jordan Mantha <mantha@ubuntu.com>  Fri, 23 May 2008 18:49:09 -0700
+
+avogadro (0.6.1-1) experimental; urgency=low
+
+  * New upstream release
+
+ -- Jordan Mantha <mantha@ubuntu.com>  Sun, 09 Mar 2008 06:16:09 +0000
+
+avogadro (0.6.0-1) experimental; urgency=low
+
+  * Initial release. (Closes: #450814)
+
+ -- Jordan Mantha <mantha@ubuntu.com>  Mon, 03 Mar 2008 14:44:29 -0800
--- avogadro-1.0.0.orig/debian/avogadro.examples
+++ avogadro-1.0.0/debian/avogadro.examples
@@ -0,0 +1 @@
+testfiles/*
--- avogadro-1.0.0.orig/debian/avogadro-data.install
+++ avogadro-1.0.0/debian/avogadro-data.install
@@ -0,0 +1,3 @@
+usr/share/avogadro/fragments
+usr/share/avogadro/builder
+usr/share/libavogadro/shaders
--- avogadro-1.0.0.orig/debian/patches/sip_4.10_support.patch
+++ avogadro-1.0.0/debian/patches/sip_4.10_support.patch
@@ -0,0 +1,28 @@
+commit 6df73a72dcd6eaa1d8c58f73c05c93d13479bec6
+Author: Tim Vandermeersch <tim.vandermeersch@gmail.com>
+Date:   Sat Feb 20 21:42:00 2010 +0100
+
+    Make sure python support compiles with sip 4.10.
+
+diff --git a/cmake/modules/PythonDeps.cmake b/cmake/modules/PythonDeps.cmake
+index c93925d..32a28e6 100644
+--- a/cmake/modules/PythonDeps.cmake
++++ b/cmake/modules/PythonDeps.cmake
+@@ -59,14 +59,10 @@ else(Boost_PYTHON_FOUND AND PYTHONLIBS_FOUND AND NUMPY_FOUND)
+   if (EXISTS ${PYTHON_INCLUDE_PATH}/sip.h)
+     message(STATUS "Found sip.h header...")
+     execute_process(COMMAND sip -V OUTPUT_VARIABLE SIP_VERSION)
+-    if (${SIP_VERSION} MATCHES "4.8")
+-      message(STATUS "using sip version 4.8...")
++    if (${SIP_VERSION} VERSION_GREATER "4.8")
++      message(STATUS "using sip version 4.8 or above...")
+       add_definitions( -DSIP_4_8 )
+-    endif (${SIP_VERSION} MATCHES "4.8")
+-    if (${SIP_VERSION} MATCHES "4.9")
+-      message(STATUS "using sip version 4.9...")
+-      add_definitions( -DSIP_4_8 )
+-    endif (${SIP_VERSION} MATCHES "4.9")
++    endif (${SIP_VERSION} VERSION_GREATER "4.8")
+   else (EXISTS ${PYTHON_INCLUDE_PATH}/sip.h)
+     message(STATUS "sip.h header NOT found - Python support disabled")
+   #  message(STATUS "debian/ubuntu: install the python-sip4-dev package.")