private void UpdateCheckBoxes()
{
int i = 1;
if (_medium == null)
{
return;
}
ArrayList molecules = _medium.getMolecules();
if (molecules == null)
{
return;
}
foreach (Molecule mol in molecules)
{
Vector3 pos = new Vector3(gameObject.transform.position.x - 0.14f, gameObject.transform.position.y + i * 0.05f - 0.07f, gameObject.transform.position.z);
Transform CB = Instantiate(_checkBoxPrefab, pos, gameObject.transform.rotation) as Transform;
CB.parent = gameObject.transform;
CB.name = mol.getName() + "CheckBox";
UILabel l = CB.Find("Label").GetComponent <UILabel>();
l.text = mol.getName();
i++;
}
}
//! Processing a reaction.
/*!
* \param molecules A list of molecules (not usefull here)
*
* A diffusion reaction based on fick model is calculated by using this formula :
* dn/dt = c1 - c2 * P * A
* Where:
* - dn is the difference of concentration that will be applied
* - c1 and c2 the concentration the molecules in the 2 Mediums
* - P is the permeability coefficient
* - A is the contact surface size between the two Mediums
*/
public override void react(ArrayList molecules)
{
ArrayList molMed1 = _medium1.getMolecules();
ArrayList molMed2 = _medium2.getMolecules();
Molecule mol2;
float c1;
float c2;
float result;
if (_P == 0f || _surface == 0f)
{
return;
}
foreach (Molecule mol1 in molMed1)
{
c1 = mol1.getConcentration();
mol2 = ReactionEngine.getMoleculeFromName(mol1.getName(), molMed2);
if (mol2 != null && mol2.getFickFactor() > 0f)
{
c2 = mol2.getConcentration();
result = (c2 - c1) * _P * _surface * mol2.getFickFactor() * _reactionSpeed * ReactionEngine.reactionsSpeed;
if (enableSequential)
{
mol2.addConcentration(-result);
mol1.addConcentration(result);
}
else
{
mol2.subNewConcentration(result);
mol1.addNewConcentration(result);
}
}
}
}
public void setMedium(Medium medium)
{
_molecules = medium.getMolecules();
if (_molecules == null)
return ;
foreach (Molecule mol in _molecules)
_curves.AddLast(new Curve(mol, gameObject.GetComponent<Transform>().localPosition, _VectrosityCam));
}
/*
* \brief This function do the reaction.
* \details The ActiveTransportReaction is a reaction that is exactly the same as EnzymeReaction.
* The only difference is that the production are added to the destination medium and not to the
* medium where the reaction is going on.
* \param molecules dont usefull, can be set to null
* \sa execEnzymeReaction
*/
public override void react(ArrayList molecules)
{
if (!_isActive)
{
return;
}
ArrayList molSrcMed = _srcMedium.getMolecules();
ArrayList molDstMed = _dstMedium.getMolecules();
Molecule substrate = ReactionEngine.getMoleculeFromName(_substrate, molSrcMed);
if (substrate == null)
{
return;
}
float delta = execEnzymeReaction(molSrcMed) * _reactionSpeed * ReactionEngine.reactionsSpeed;
float energyCoef;
float energyCostTot;
if (delta > 0f && _energyCost > 0f && enableEnergy)
{
energyCostTot = _energyCost * delta;
energyCoef = _medium.getEnergy() / energyCostTot;
if (energyCoef > 1f)
{
energyCoef = 1f;
}
_medium.subEnergy(energyCostTot);
}
else
{
energyCoef = 1f;
}
delta *= energyCoef;
if (enableSequential)
{
substrate.subConcentration(delta);
}
else
{
substrate.subNewConcentration(delta);
}
foreach (Product pro in _products)
{
Molecule mol = ReactionEngine.getMoleculeFromName(pro.getName(), molDstMed);
if (enableSequential)
{
mol.addConcentration(delta);
}
else
{
mol.addNewConcentration(delta);
}
}
}
/*!
\brief This method gets all molecular concentrations
\sa Molecule
\sa Molecule.getConcentration()
*/
public void initMolecules()
{
LinkedList<Medium> mediums = _reactionEngine.getMediumList();
_mediumRef = ReactionEngine.getMediumFromId(_mediumId, mediums);
if(_mediumRef != null && _molecules == null)
{
_molecules = _mediumRef.getMolecules();
}
}
/*!
* \brief This method gets all molecular concentrations
* \sa Molecule
* \sa Molecule.getConcentration()
*/
public void initMolecules()
{
LinkedList <Medium> mediums = _reactionEngine.getMediumList();
_mediumRef = ReactionEngine.getMediumFromId(_mediumId, mediums);
if (_mediumRef != null && _molecules == null)
{
_molecules = _mediumRef.getMolecules();
}
}
public void setMedium(Medium medium)
{
_molecules = medium.getMolecules();
if (_molecules == null)
{
return;
}
foreach (Molecule mol in _molecules)
{
_curves.AddLast(new Curve(mol, gameObject.GetComponent <Transform>().localPosition, _VectrosityCam));
}
}
public ArrayList getMoleculesFromMedium(int id)
{
//"warn" parameter is true to indicate that there is no such Medium
//as the one needed to get molecules
Medium medium = LinkedListExtensions.Find <Medium>(
_mediums
, m => m.getId() == id
, true
, " RE::getMoleculesFromMedium(" + id + ")");
if (medium != null)
{
return(medium.getMolecules());
}
else
{
return(null);
}
}
public void setMedium(int mediumId)
{
if (!safeLazyInit())
{
return;
}
_mediumId = mediumId;
Medium medium = ReactionEngine.getMediumFromId(_mediumId, _mediums);
if (medium == null)
{
Logger.Log("VectrosityPanel Can't find the given medium (" + _mediumId + ")", Logger.Level.ERROR);
return;
}
_molecules = medium.getMolecules();
if (_molecules == null)
{
Logger.Log("VectrosityPanel Can't find molecules in medium (" + _mediumId + ")", Logger.Level.ERROR);
return;
}
VectrosityPanelLine line;
foreach (Molecule m in _molecules)
{
line = _lines.Find(l => m.getName() == l.moleculeName);
if (null == line)
{
_lines.Add(new Line(width, height, infos, _mediumId, m.getName()));
}
}
drawLines(true);
lineCount = _lines.Count;
}
