Files @ 6bcb69712a0e
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Location: EI/VirtualLeaf/src/wallitem.cpp - annotation

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
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/*
 *
 *  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 <QDebug>
#include <string>
#include <QGraphicsScene>
#include <QVector>
#include "canvas.h"
#include "wallitem.h"
#include "parameter.h"
#include "node.h"
#include "transporterdialog.h"

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

WallItem::WallItem( Wall *w, int wallnumber, QGraphicsScene *canvas )
  : QGraphicsLineItem( 0, canvas ), SimItemBase( w, canvas){

  wn = wallnumber;

  extern Parameter par;

  setColor();

  // line with "PIN1"is a bit inside the cell wall
  Vector edgevec = (*(w->N2())) - (*(w->N1()));
  Vector perp = edgevec.Normalised().Perp2D();

  Vector offs = Cell::Offset();
  double factor = Cell::Factor();

  Vector from = ( offs + *(w->N1()) ) * factor + (wn==1?-1:1) * par.outlinewidth * 0.5 * factor * perp;
  Vector to = ( offs + *(w->N2()) ) *factor + (wn==1?-1:1) * par.outlinewidth * 0.5 * factor * perp;


  Vector tmp_centroid = ( *(w->N2()) + *(w->N1()) )/2.;
  Vector centroid = ( offs + tmp_centroid ) * factor;

  QString text=QString("%1").arg(w->Index());
  setLine(( from.x ),
	  ( from.y ),
	  ( to.x ),
	  ( to.y ) );
  setZValue(12);
}


void WallItem::setColor(void) {

  QColor diffcolor;
  static const QColor purple("Purple");
  static const QColor blue("blue");

  Wall *w=&getWall();
  double tr = wn==1?w->Transporters1(1):w->Transporters2(1);
  CellBase *c = wn==1?w->C1():w->C2();
  diffcolor.setRgb( (int)( ( tr / (1 + tr) )*255.), 0, 0);
  if (w->AuxinSource() && c->BoundaryPolP()) {
    setPen( QPen(purple , par.outlinewidth) );
  } else {
    if (w->AuxinSink() && c->BoundaryPolP()) {
      setPen( QPen(blue, par.outlinewidth));
    } else {
      setPen (QPen(diffcolor, par.outlinewidth) );
    }
  }
}

void WallItem::OnClick(QMouseEvent *e) {

  Wall *w=&getWall();
#ifdef QDEBUG
  qDebug() << "Wall ID = " << w->Index() << ", this = " << w << endl;
  qDebug() << "Wall item = " << this << endl;
  qDebug() << "C1 = " << w->C1()->Index() << ", C2 = " << w->C2()->Index() << endl;
  qDebug() << "N1 = " << w->N1()->Index() << ", N2 = " << w->N2()->Index() << endl;
#endif
  CellBase *c = wn==1?w->C1():w->C2();
  
  
  if (e->button() == Qt::RightButton) {
    QString message;
    if (wn==1) {
      message=QString("Transporter 1 = %1, color = %2, length = %3\n").arg(w->Transporters1(1)).arg(pen().color().red()).arg(getWall().Length());
    } else {
      message=QString("Transporter 2 = %1, color = %2, length = %3\n").arg(w->Transporters2(1)).arg(pen().color().red()).arg(getWall().Length());
    }

    //extern MainBase *main_window;

  } else {
    if (e->button() == Qt::LeftButton) {
 
      if (e->modifiers() == Qt::ControlModifier) {
	// let's consider wall type cycling an "easter egg". 
	// Ctrl modifier key required 

	if (c->BoundaryPolP()) {
	  w->cycleWallType();
	} else {
	  if (e->modifiers() == Qt::ShiftModifier) {
	    wn==1?w->setTransporters1(1,0):w->setTransporters2(1,0);					

	  } else {
	    // set high amount of PIN1
	    //cerr << "Setting PIN1\n";
	    wn==1?w->setTransporters1(1,10):w->setTransporters2(1,10);
	  }
	}
	setColor();
      } else {
	TransporterDialog dialog(w, c, wn);
	dialog.exec();
      }

    }
 
  }
  setColor();
  update(boundingRect());

}

  /* finis */