public override void Init()
{
// First we use PDBtoDen to create a density grid.
pdb2den = new GameObject();
pdb2den.AddComponent <PDBtoDEN>();
genDensity = pdb2den.GetComponent <PDBtoDEN>();
float delta_scalar = 2.0f;
delta = new Vector3(delta_scalar, delta_scalar, delta_scalar);
genDensity.TranPDBtoDEN(delta_scalar);
delta = PDBtoDEN.delta;
fudgeFactor = PDBtoDEN.fudgeFactor;
// We get that grid and its delta.
density = PDBtoDEN.GridS;
//delta = PDBtoDEN.delta;
inverseDelta = new Vector3(1f / delta.x,
1f / delta.y,
1f / delta.z);
// We need to refresh the molecule's origin when it's not the first molecule for which we generate a volumetric density.
origin = MoleculeModel.MinValue;
// We determine the amplitude of the density.
foreach (float f in density)
{
if (f > maxDensity)
{
maxDensity = f;
}
if (f < minDensity)
{
minDensity = f;
}
}
densityAmplitude = maxDensity - minDensity;
// Creating the dynamic particle list, building the static particle array,
// setting it to the particle system, and enabling the renderer.
SetParticleSystem();
} // End of Init
/// <summary>
/// Initializes a new instance of the <see cref="AmbientOcclusion"/> class.
/// </summary>
public AmbientOcclusion()
{
// First we use PDBtoDen to create a density grid.
pdb2den = new GameObject();
pdb2den.AddComponent <PDBtoDEN>();
genDensity = pdb2den.GetComponent <PDBtoDEN>();
float delta_scalar;
int moleculeSize = MoleculeModel.atomsLocationlist.Count;
if (moleculeSize < 2000)
{
delta_scalar = 0.2f;
}
else if (moleculeSize < 5000)
{
delta_scalar = 0.4f;
}
else if (moleculeSize < 10000)
{
delta_scalar = 0.2f;
}
else
{
delta_scalar = 0.16f;
}
//fudgeFactor = PDBtoDEN.fudgeFactor /delta_scalar; ???
delta = new Vector3(delta_scalar, delta_scalar, delta_scalar);
genDensity.TranPDBtoDEN(delta_scalar, false);
density = PDBtoDEN.GridS;
fudgeFactor = PDBtoDEN.fudgeFactor;
// We need to refresh the molecule's origin when it's not the first molecule for which we generate a volumetric density.
origin = MoleculeModel.MinValue;
xDim = density.GetLength(0);
yDim = density.GetLength(1);
zDim = density.GetLength(2);
Debug.Log("Density grid size :");
Debug.Log(xDim.ToString());
Debug.Log(yDim.ToString());
Debug.Log(zDim.ToString());
occlusion = new float[xDim, yDim, zDim];
for (int i = 1; i < (xDim - 1); i++)
{
for (int j = 1; j < (yDim - 1); j++)
{
for (int k = 1; k < (zDim - 1); k++)
{
if (weighted)
{
occlusion[i, j, k] = WeightedAverageOfSurroundingCubes(i, j, k);
}
else
{
occlusion[i, j, k] = AverageOfSurroundingCubes(i, j, k);
}
}
}
}
FillFacesWithZeros();
SetOcclusionGridBounds();
balls = GameObject.FindObjectsOfType(typeof(BallUpdate)) as BallUpdate[];
BuildColorList();
reset = false;
}
