fbergmann / virtualleaf Goto Github PK

This is a fork from https://github.com/litsol/virtualleaf to integrate the root example code from supplement s1 of De Vos et al. (reference 2 below).

The original Qmake files are still present and you are free to use them. I added a CMake build system, that allows the project to be compiled with all systems supporting it. I've used Ninja and Visual Studio 2016.

Simply configure like so:

	mkdir build
	cd build
	cmake -G Ninja  -DLIBXML2_LIBRARY=<path to>\libxml2.lib -DLIBXML2_INCLUDE_DIR=<path to>\include -DZLIB_LIBRARY=<path to>\zdll.lib -DZLIB_INCLUDE_DIR=<path to>\include\ -DQT_QMAKE_EXECUTABLE=<path to>\bin\qmake.exe -DCMAKE_INSTALL_PREFIX=../install -DCMAKE_BUILD_TYPE=Release ..

and compile running ninja and ninja install. Now you should be able to run

	cd ../install/bin
	VirtualLeaf

1. VirtualLeaf: An Open-Source Framework for Cell-Based Modeling of Plant Tissue Growth and Development
2. Putting Theory to the Test: Which Regulatory Mechanisms Can Drive Realistic Growth of a Root?

Since the original code of virtual leaf, and the supplement are licensed as GPL, so are the modifications made here.

• win_getopt.h to compile with msvc with license:

     /*
     * Copyright (c) 2002 Todd C. Miller <[email protected]>
     *
     * Permission to use, copy, modify, and distribute this software for any
     * purpose with or without fee is hereby granted, provided that the above
     * copyright notice and this permission notice appear in all copies.
     *
     * THE SOFTWARE IS PROVIDED "AS IS" AND THE AUTHOR DISCLAIMS ALL WARRANTIES
     * WITH REGARD TO THIS SOFTWARE INCLUDING ALL IMPLIED WARRANTIES OF
     * MERCHANTABILITY AND FITNESS. IN NO EVENT SHALL THE AUTHOR BE LIABLE FOR
     * ANY SPECIAL, DIRECT, INDIRECT, OR CONSEQUENTIAL DAMAGES OR ANY DAMAGES
     * WHATSOEVER RESULTING FROM LOSS OF USE, DATA OR PROFITS, WHETHER IN AN
     * ACTION OF CONTRACT, NEGLIGENCE OR OTHER TORTIOUS ACTION, ARISING OUT OF
     * OR IN CONNECTION WITH THE USE OR PERFORMANCE OF THIS SOFTWARE.
     *
     * Sponsored in part by the Defense Advanced Research Projects
     * Agency (DARPA) and Air Force Research Laboratory, Air Force
     * Materiel Command, USAF, under agreement number F39502-99-1-0512.
     */
    /*-
     * Copyright (c) 2000 The NetBSD Foundation, Inc.
     * All rights reserved.
     *
     * This code is derived from software contributed to The NetBSD Foundation
     * by Dieter Baron and Thomas Klausner.
     *
     * 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.
     *
     * THIS SOFTWARE IS PROVIDED BY THE NETBSD FOUNDATION, INC. 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 FOUNDATION 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.
     */