/*
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 * and open the template in the editor.
 */

import analysers.AnalysisPlugin;
import ij.IJ;
import util.Cell;

/**
 * Compile using, e.g.
 * javac -cp /Users/mike/java/libraries/ij.jar:/Users/mike/java/libraries/LineageTracker_1.0.2.jar CountCells.java

 * @version March 21, 2011
 * @author Mike Downey
 */
public class CountCells extends AnalysisPlugin {

    int[] cellsInFrame;

    /**
     * Called when the 'Setup Analysis' button is clicked
     */
    @Override
    public void setup() {
        IJ.showMessage("Displays numbers of cells in each frame");
    }

    @Override
    public void analyze(Cell currentCell) {
        countCells();
        IJ.log("Frame, Cells");
        for (int i = 0; i < cellsInFrame.length; i++) {
            IJ.log(Integer.toString(i + 1) + " , " + cellsInFrame[i]);
        }
    }

    private void countCells() {
        cellsInFrame = new int[exp.getFrames()];
        for (Cell c : cells) {
            cellsInFrame[c.getFrame() - 1]++;
        }
    }

    @Override
    public void cellClicked(Cell currentCell) {
        int frame = currentCell.getFrame();
        countCells();
        IJ.log("Frame " + frame + " contains " + cellsInFrame[frame - 1] + " cells");
    }

    @Override
    public String getName() {
        return "Count Cells";
    }
}