EI/VirtualLeaf Files · src/Neighbor.cpp · Centrum Wiskunde & Informatica (CWI)

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Roeland Merks

In response to referee's comment:

"However, (although it is probably not important for model developers), I was
still unable to load the model ‘Meinhardt 1976 with growth’ example from the
‘Models’ drop down menu, I got the ‘Fatal error’ message ‘stepwise underflow in

rkqs, with h=0.000000 and htry = 0.100000’. The model did work when I selected
the Meinhardt model in both the Models and the File -> Read leaf menus together,
it would be preferable if the models loaded from the Models menu worked

automatically. I am not sure that the update referred to in the author’s
response permits the loading of ‘My First Model in Virtual Leaf’ from the
‘Models’ drop down menu; I only got a cell that wiggled."

I made the following changes:

- meinhardt_plugin now reads "meinhardt_init.xml" by default
- changed the name of 'My First Model in Virtual Leaf’ to '0: Empty model template (does nothing)' to make it clear that the wiggle cell is the intended behavior for this model example.
- Added default parameter files for Tutorial1A-D and Tutorial2 to prevent variable behavior depending on the last parameter settings used.

--
user: Roeland Merks <roeland.merks@cwi.nl>
branch 'default'
added data/leaves/tutorial1_init.xml
added data/leaves/tutorial2_init.xml
changed data/leaves/auxin_growth.xml
changed data/leaves/meinhardt_init.xml
changed src/TutorialCode/Tutorial0/tutorial0.cpp
changed src/TutorialCode/Tutorial1A/tutorial1A.h
changed src/TutorialCode/Tutorial1B/tutorial1B.h
changed src/TutorialCode/Tutorial1C/tutorial1C.h
changed src/TutorialCode/Tutorial1D/tutorial1D.h
changed src/TutorialCode/Tutorial2/tutorial2.h
changed src/build_models/meinhardtplugin.h

/*
 *
 *  This file is part of the Virtual Leaf.
 *
 *  VirtualLeaf 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.
 *
 *  VirtualLeaf 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 the Virtual Leaf.  If not, see <http://www.gnu.org/licenses/>.
 *
 *  Copyright 2010 Roeland Merks.
 *
 */

#include "Neighbor.h"
#include "cell.h"
#include <string>

static const std::string _module_id("$Id$");

Neighbor::Neighbor(void):
  cell(0), nb1(0), nb2(0){}

Neighbor::Neighbor(Cell *c, Node *n1, Node *n2):
  cell(c), nb1(n1), nb2(n2){}

Neighbor::Neighbor(const Neighbor &src):
  cell(src.cell), nb1(src.nb1), nb2(src.nb2){} // copy constructor

bool Neighbor::CellEquals(int i) const { return cell->Index() == i; } 
bool Neighbor::Cmp(Neighbor &c) const { return cell->Index() < c.cell->Index(); } // Compare cell indices not pointers.
bool Neighbor::Eq(Neighbor &c) const { return cell->Index() == c.cell->Index(); }
Cell* Neighbor::getCell(void) const { return cell; } 

bool neighbor_cell_eq(const Neighbor &n1, const Neighbor &n2) {
  return (n1.getCell())->Index() == (n2.getCell())->Index(); // Compare cell indices not pointers.
}

/* finis */