Format: https://www.debian.org/doc/packaging-manuals/copyright-format/1.0/ Upstream-Name: biojava6 Source: http://www.biojava.org/ Files-Excluded-forester: */*.class Comment: Biojava uses the forester library, which is handled within a MUT package. . Same for jcolorbrewer Files: * Copyright: 2000-2021 the Individual authors who contributed the code, as identified by the @authors tag of the respective source file. BioJava Developers Scooter Willis , Mark Chapman, Andy Yates, Richard Holland, Mark Reinhold, brandstaetter, Thomas Down, Unidata Program Center, Ronald Tschalar, Andreas Prlic, Amr AL-Hossary, Jianjiong Gao, Spencer Bliven, Jules Jacobsen , J.H.MATTHEWS,R.KRISHNAN,M.J.COSTANZO,B.E.MARYANOFF, A.TULINSKY, ap3, The MathWorks Inc. and the National Institute of Standards and Technology, Spencer Bliven , mulvaney, Peter Rose, Horvath Tamas, Peter Lackner, Koh Chuan Hock, Expasy4J, Benjamin Schuster-Böckle, Peter Troshin, Jose Manuel Duarte, D. Myers, Andrew Yates, Ulysse Carion, M. L Heuer, B. T. Boyle, emckee2006, paolopavan, J. Grzebyta, G. Waldon, D. Cameron, A. Drager, kevinwu1, Siarhei, R. Thornton, C. Foti, sroughley, ferlan, parit, M. Bizzari License: LGPL-2.1 Files: biojava-core/src/main/java/org/biojava/nbio/core/util/UncompressInputStream.java Copyright: 1996-2001 Ronald Tschalar License: LGPL-2+ Files: biojava-protein-disorder/src/main/java/org/* Copyright: 2009-2010 Peter Troshin License: LGPL-2.1 Files: biojava-structure-gui/src/main/java/org/biojava/nbio/structure/align/gui/MemoryMonitor.java Copyright: 2002 Sun Microsystems, Inc. License: BSD-3-clause+ Files: forester/* Copyright: 2000-2014 Christian M. Zmasek 2007-2014 Burnham Institute for Medical Research License: LGPL-2.1+ Files: forester/org/forester/application/rio.java forester/org/forester/io/parsers/phyloxml/PhyloXmlMapping.java forester/org/forester/io/parsers/tol/TolXmlMapping.java forester/org/forester/phylogeny/Phylogeny.java forester/org/forester/phylogeny/PhylogenyBranch.java forester/org/forester/phylogeny/PhylogenyNode.java forester/org/forester/phylogeny/data/BranchData.java forester/org/forester/phylogeny/data/Date.java forester/org/forester/phylogeny/data/Distribution.java forester/org/forester/phylogeny/data/NodeData.java forester/org/forester/phylogeny/data/Property.java forester/org/forester/rio/* forester/org/forester/sdi/* Copyright: 2008-2009 Christian M. Zmasek 2008-2009 Burnham Institute for Medical Research 2000-2001 Washington University School of Medicine License: LGPL-2.1+ Files: forester/org/forester/archaeopteryx/ColorSchemeChooser.java forester/org/forester/archaeopteryx/Configuration.java forester/org/forester/archaeopteryx/Constants.java forester/org/forester/archaeopteryx/MainFrameApplet.java forester/org/forester/archaeopteryx/MainPanel.java forester/org/forester/archaeopteryx/MainPanelApplets.java forester/org/forester/archaeopteryx/MouseListener.java forester/org/forester/archaeopteryx/NodeFrame.java forester/org/forester/archaeopteryx/PdfExporter.java forester/org/forester/archaeopteryx/TextFrame.java forester/org/forester/archaeopteryx/TreeFontSet.java forester/org/forester/util/SequenceAccessionTools.java Copyright: 2008-2009 Christian M. Zmasek 2008-2009 Burnham Institute for Medical Research 2003-2007 Ethalinda K.S. Cannon 2000-2001 Washington University School of Medicine License: LGPL-2.1+ Files: forester/org/forester/archaeopteryx/MainFrame.java forester/org/forester/archaeopteryx/webservices/PhylogeniesWebserviceClient.java forester/org/forester/evoinference/distance/* forester/org/forester/io/parsers/nhx/NHXParser.java forester/org/forester/sdi/GSDIR.java Copyright: 2008-2014 Christian M. Zmasek License: LGPL-2.1+ Files: forester/org/forester/archaeopteryx/MainFrameApplication.java forester/org/forester/archaeopteryx/TreeColorSet.java Copyright: 2008-2010 Christian M. Zmasek 2008-2010 Burnham Institute for Medical Research 2003-2010 Ethalinda K.S. Cannon License: LGPL-2.1+ Files: forester/org/forester/evoinference/distance/PairwiseDistanceCalculator.java forester/org/forester/sdi/GSDI.java forester/org/forester/sdi/TestGSDI.java Copyright: 2008-2012 Sanford-Burnham Medical Research Institute 2008-2012 Christian M Zmasek License: LGPL-2.1+ Files: forester/org/forester/util/SystemCommandExecutor.java forester/org/forester/util/ThreadedStreamHandler.java Copyright: 2010 alvin j. alexander, devdaily.com. License: LGPL-3+ Files: debian/* Copyright: 2015 Olivier Sallou 2022 Pierre Gruet License: GPL-2+ License: LGPL-2+ On Debian systems, the complete text of the GNU Lesser General Public License version 2 can be found in "/usr/share/common-licenses/LGPL-2". License: LGPL-2.1 On Debian systems, the complete text of the GNU Lesser General Public License version 2.1 can be found in "/usr/share/common-licenses/LGPL-2.1". License: LGPL-2.1+ On Debian systems, the complete text of the GNU Lesser General Public License version 2.1 can be found in "/usr/share/common-licenses/LGPL-2.1". License: GPL-2+ On Debian systems, the complete text of the GNU General Public License version 2 can be found in "/usr/share/common-licenses/GPL-2". 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: . -Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. . -Redistribution in binary form must reproduct 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 Sun Microsystems, Inc. or the names of contributors may be used to endorse or promote products derived from this software without specific prior written permission. . This software is provided "AS IS," without a warranty of any kind. ALL EXPRESS OR IMPLIED CONDITIONS, REPRESENTATIONS AND WARRANTIES, INCLUDING ANY IMPLIED WARRANTY OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE OR NON-INFRINGEMENT, ARE HEREBY EXCLUDED. SUN AND ITS LICENSORS SHALL NOT BE LIABLE FOR ANY DAMAGES OR LIABILITIES SUFFERED BY LICENSEE AS A RESULT OF OR RELATING TO USE, MODIFICATION OR DISTRIBUTION OF THE SOFTWARE OR ITS DERIVATIVES. IN NO EVENT WILL SUN OR ITS LICENSORS BE LIABLE FOR ANY LOST REVENUE, PROFIT OR DATA, OR FOR DIRECT, INDIRECT, SPECIAL, CONSEQUENTIAL, INCIDENTAL OR PUNITIVE DAMAGES, HOWEVER CAUSED AND REGARDLESS OF THE THEORY OF LIABILITY, ARISING OUT OF THE USE OF OR INABILITY TO USE SOFTWARE, EVEN IF SUN HAS BEEN ADVISED OF THE POSSIBILITY OF SUCH DAMAGES. . You acknowledge that Software is not designed, licensed or intended for use in the design, construction, operation or maintenance of any nuclear facility. Comment: The last paragraph is to be interpreted as a warranty disclaimer, see https://lists.debian.org/debian-legal/2012/09/msg00034.html License: LGPL-3+ On Debian systems the full text of the LGPL-3 can be found in /usr/share/common-licenses/LGPL-3