Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
Upstream-Name: Mothur
Upstream-Contact: Patrick D. Schloss <pschloss@umich.edu>
Source: http://www.mothur.org/wiki/Download_mothur
Files-Excluded:
    .* */.*
    */*.o
    __MACOSX/
    mothur
    uchime_src/mk.std[eo]*
    uchime_src.zip

Files: *
Copyright: © 2009-2012 Schloss Lab UMASS Amhers., Patrick Schloss <pschloss@umich.edu>
License: GPL-3
 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 3 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, see <http://www.gnu.org/licenses/>.
Comment: On Debian systems, the full text of the GNU General Public License version 3
 can be found in the file `/usr/share/common-licenses/GPL-3'.
 .
 The license is statet in the file mothur.cpp and at the project web page
 http://www.mothur.org/wiki/Mothur_license
 Please note that not every single file in the source is edited to
 reflect the license, however we got confirmation about this license
 from upstream.

Files: clearcut.* cmdargs.* common.h dayhoff.h distclearcut.* dmat.* fasta.* prng.*
Copyright: © 2004,  Luke Sheneman
           ©  1997 - 2002, Makoto Matsumoto and Takuji Nishimura
License: Clearcut
 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. 
  + The names of its contributors may not 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 OWNER 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.  

Files: getopt_long.*
Copyright: © 2004 Koji Arai
License: MIT
 Permission is hereby granted, free of charge, to any person
 obtaining a copy of this software and associated documentation files
 (the "Software"), to deal in the Software without restriction,
 including without limitation the rights to use, copy, modify, merge,
 publish, distribute, sublicense, and/or sell copies of the Software,
 and to permit persons to whom the Software is furnished to do so,
 subject to the following conditions:
 .
 The above copyright notice and this permission notice shall be
 included in all copies or substantial portions of the Software.
 .
 THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
 EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF
 MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND
 NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS
 BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN
 ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN
 CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
 SOFTWARE.
Comment: This getopt_long() is compatible with GNU's, however, added original
 extension (short 1 byte option).

Files: debian/*
Copyright: © 2010 Sri Girish Srinivasa Murthy <srigirish@evolbio.mpg.de>
           © 2011-2012 Andreas Tille <tille@debian.org>
License: GPL-3
 On Debian systems, the full text of the GNU General Public License version 3
 can be found in the file `/usr/share/common-licenses/GPL-3'.

