Revamp debian/copyright

diff --git a/debian/copyright b/debian/copyright
index 9752a419e00b631cc746ce9edd7174ca2ad3a74a..9410768d30acdd18f3be04fcf1489f4388d381d8 100644 (file)
--- a/debian/copyright
+++ b/debian/copyright
@@ -5,13 +5,66 @@ Source: https://github.com/pysam-developers/pysam
 Files-Excluded: htslib/*
 
 Files: *
-Copyright: 2008-2010 Genome Research Ltd.
+Copyright: 2009-2015 Andreas Heger,
+                    Tildon Grant Belgrad,
+                    Martin Goodson,
+                    Kevin Jacobs
+          2008-2010 Genome Research Ltd.
 License: MIT
 
-Files: samtools/kprobaln.c.pysam.c samtools/kprobaln.h
+Files: pysam/cbcf.pxd pysam/cbcf.pyx
+Copyright: 2015 Kevin Jacobs <jacobs@bionformed.com>
+License: MIT
+
+Files: samtools/*
+Copyright: 2009-2012 Broad Institute
+          2008-2014 Genome Research Ltd.
+License: MIT
+
+Files: samtools/bam_cat.*
+Copyright: 2008-2009, 2011-2013 Genome Research Ltd.
+          2010 Illumina, Inc.
+License: MIT
+
+Files: samtools/bam_color.*
+Copyright: 2009, 2012 University of California - Los Angeles
+License: MIT
+
+Files: samtools/bam_index.*
+       samtools/bam_mate.*
+Copyright: 2008-2014 Genome Research Ltd.
+          2010-2011 Broad Institute
+          2012-2013 Peter Cock, The James Hutton Institute
+License: MIT
+
+Files: samtools/bam_tview.*
+       samtools/bam_tview_curses.*
+       samtools/bam_tview.h
+Copyright: 2008-2014 Genome Research Ltd.
+          2013 Pierre Lindenbaum <plindenbaum@yahoo.fr>
+License: MIT
+
+Files: samtools/bam_tview_html.*
+Copyright: 2013 Pierre Lindenbaum, Institut du Thorax, INSERM U1087, Université de Nantes
+License: MIT
+
+Files: samtools/kprobaln.c samtools/kprobaln.c.pysam.c samtools/kprobaln.h
 Copyright: 2003-2006, 2008-2010, by Heng Li <lh3lh3@live.co.uk>
 License: MIT
 
+Files: samtools/misc/ace2sam.*
+Copyright: 2011 Heng Li
+License: MIT
+
+Files: samtools/misc/md5.*
+Copyright: 1993 Colin Plumb
+License: public-domain
+
+Files: samtools/padding.*
+Copyright: 2011-2012 Broad Institute
+          2014 Genome Research Ltd.
+          2012-2013 Peter Cock, The James Hutton Institute
+
 Files: samtools/win32/zconf.h samtools/win32/zlib.h
 Copyright: 1995-2005 Jean-loup Gailly <jloup@gzip.org> and Mark Adler <madler@alumni.caltech.edu>
 License: BSDlike2
@@ -37,9 +90,38 @@ Copyright: 2008 wmcbrine
 License: public-domain
 Comment: These files are not used and could be stripped from the source
 
-Files: samtools/misc/md5.*
-Copyright: 1993 Colin Plumb
-License: public-domain
+Files: win32/stdint.h
+Copyright: 2005-2007 Paul Hsieh
+License: BSD-3-clause
+
+Files: win32/getopt.*
+Copyright: 1987-2001 Free Software Foundation, Inc.
+License: LGPL-2.1+
+
+License: BSD-3-clause
+ Redistribution and use in source and binary forms, with or without
+ modification, are permitted provided that the following conditions
+ are met:
+ 1. Redistributions of source code must retain the above copyright
+    notice, this list of conditions and the following disclaimer.
+ 2. 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.
+ 3. Neither the name of the University 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 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.
 
 License: MIT
  Permission is hereby granted, free of charge, to any person obtaining a copy
@@ -63,3 +145,21 @@ License: MIT
 License: public-domain
  No copyright is claimed.
  This code is in the public domain; do with it what you wish.
+
+License: LGPL-2.1+
+ This package is free software; you can redistribute it and/or
+ modify it under the terms of the GNU Lesser 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 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
+ Lesser 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 Lesser General
+ Public License can be found in "/usr/share/common-licenses/LGPL-2.1".
+