JSIM Software License

Copyright (C) 1999-2009 University of Washington

Developed by the National Simulation Resource

Department of Bioengineering, Box 355061

University of Washington, Seattle, WA 98195-5061.

Dr. J. B. Bassingthwaighte, Director

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 the University of Washington 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 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.

ADDITIONAL CONDITIONS

Certain third party code is integrated in this software. Use of this software is conditioned upon complying with the license agreements for those third party codes listed in Table 1.

Table 1

External code | License Name | License url | Distribution Format
Radau |  | http://www.unige.ch/~hairer/prog/licence.txt | source
Dopri5 |  | http://www.unige.ch/~hairer/prog/licence.txt | source
CVODE solver | SUNDIALS License | http://www.llnl.gov/CASC/sundials/download/license.html | source
Toms731 solver | ACM Software Copyright and License Agreement | http://www.acm.org/pubs/copyright_policy/softwareCRnotice.html | source
NelderMead optimizer |  | http://www.ee.ucl.ac.uk/~mflanaga/java/ | source

For your convenience, certain third party codes are distributed along with this software. Use of this software is conditioned upon complying with the license agreements for those third party codes listed in Table 2.

Table 2

External code | License name | License url | Distribution Format
Java | Sun Microsystems, inc. Binary code license agreement | http://www.java.com/en/download/license.jsp | binary
CUP parser generator | CUP Parser Generator Copyright Notice, License, and Disclaimer | http://www.cs.princeton.edu/~appel/modern/java/CUP/#LICENSE | binary
JLex lexical analyzer generator | Jlex copyright notice, license and disclaimer | http://www.cs.princeton.edu/~appel/modern/java/JLex/#LICENSE | binary
Scientific Graphics Toolkit | U.S. Department of Commerce (DOC) Software License for EPIC Software | http://www.epic.noaa.gov/java/license.html | binary
Xerces2 Java Parser | Apache license, version 2.0 | http://www.apache.org/licenses/LICENSE-2.0.html | binary
JigCell SBML Parser |  | https://biospice.org/BioCOMPLicense.html | binary
JAMA Java Matrix package |  | http://math.nist.gov/javanumerics/jama/ | binary