Files @ 6bcb69712a0e
Branch filter:

Location: EI/VirtualLeaf/src/rungekutta.h

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
/*
 *
 *  $Id$
 *
 *  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.
 *
 */


#ifndef _RUNGEKUTTA_H_
#define _RUNGEKUTTA_H_

class RungeKutta  {

 public:
  RungeKutta(void) {
    kmax=kount=0;
    dxsav=0.;
    xp=0;
    yp=0;
  }
  virtual ~RungeKutta() {}

  void odeint(double ystart[], int nvar, double x1, double x2, double eps, double h1,
	      double hmin, int *nok, int *nbad);


 protected:
  // implement "derivs" in a derived class
  virtual void derivs(double x, double *y, double *dxdy) = 0;
  int kmax,kount;
  double *xp,**yp,dxsav;

 private:
  void rkqs(double *y, double *dydx, int n, double *x, double htry, double eps,
	    double *yscal, double *hdid, double *hnext);

  void rkck(double *y, double *dydx, int n, double x, double h, double yout[],
	    double *yerr);

  static const double Safety;
  static const double PGrow;
  static const double Pshrnk;
  static const double Errcon;
  static const double Maxstp;
  static const double Tiny;
};
#endif

/* finis */