int _transitionTime; //how much elapsed time between each snapshot
#endregion Fields
#region Constructors
public SlotViewer(Trajectory trajectory, Scene scene)
{
ATOM_STACKS = (Options.GetInstance().AtomStacks);
ATOM_SLICES = (Options.GetInstance().AtomSlices);
_scene = scene;
_trajectory = trajectory;
_snapshotIndexA = 0;
_snapshotIndexB = 1;
Console.WriteLine();
if (_trajectory.CountSnapshots() == 0)
throw new Exception("No snapshots to work with!");
else
Console.WriteLine("Creating viewer for trajectory with {0} snapshots...", _trajectory.CountSnapshots());
var RENDER_MODE = Options.GetInstance().RenderMode;
if (RENDER_MODE == RenderMode.BALL_N_STICK)
{
AddAllAtoms();
Console.WriteLine();
}
AddAllBonds();
Console.WriteLine();
Console.WriteLine("... done creating SlotViewer.");
}
public Trajectory Parse(bool filter = true)
{
Console.WriteLine("Parsing trajectory PyON... ");
Console.Clear();
var top = ParseTopology();
Trajectory trajectory = new Trajectory(top);
ParsePositions(trajectory);
Console.WriteLine("... done parsing trajectory.");
return trajectory;
}
private void ParsePositions(Trajectory trajectory)
{
Console.WriteLine("Parsing all snapshots... ");
Console.Clear();
string BEGIN = "PyON1positions\n[", END = "]\n---";
int index = _pyon.IndexOf(BEGIN, 0);
while (index != -1)
{
var range = new Pair<int, int>(index, _pyon.Length);
var snapshotRange = StringManip.Between(_pyon, range, BEGIN, END);
var snap = ParseSnapshot(snapshotRange, trajectory.GetTopology());
trajectory.AddSnapshot(snap);
index = _pyon.IndexOf(BEGIN, index + 1);
}
Console.WriteLine("... done parsing snapshots.");
Console.Clear();
}