WatershedStructure.java

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package watershed;

/*
 * Watershed algorithm
 *
 * Copyright (c) 2003 by Christopher Mei (christopher.mei@sophia.inria.fr)
 *
 * This plugin is free software; you can redistribute it and/or modify
 * it under the terms of the GNU General Public License version 2 
 * as published by the Free Software Foundation.
 *
 * This program 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 this plugin; if not, write to the Free Software
 * Foundation, Inc., 675 Mass Ave, Cambridge, MA 02139, USA.
 */

import java.awt.Rectangle;
import java.util.ArrayList;
import java.util.Collections;

public class WatershedStructure {
        private ArrayList watershedStructure;

        public WatershedStructure(short[] pixels, int width, int height) {

                Rectangle r = new Rectangle(0, 0, width, height);

                int offset, topOffset, bottomOffset, i;

                watershedStructure = new ArrayList(r.width * r.height);

                for (int y = r.y; y < (r.y + r.height); y++) {
                        offset = y * width;

                        for (int x = r.x; x < (r.x + r.width); x++) {
                                i = offset + x;

                                int indiceY = y - r.y;
                                int indiceX = x - r.x;

                                watershedStructure.add(new WatershedPixel(indiceX, indiceY,
                                                pixels[i]));
                        }
                }

                for (int y = 0; y < r.height; y++) {

                        offset = y * width;
                        topOffset = offset + width;
                        bottomOffset = offset - width;

                        for (int x = 0; x < r.width; x++) {
                                WatershedPixel currentPixel = (WatershedPixel) watershedStructure
                                                .get(x + offset);

                                if (x + 1 < r.width) {
                                        currentPixel
                                                        .addNeighbour((WatershedPixel) watershedStructure
                                                                        .get(x + 1 + offset));

                                        if (y - 1 >= 0)
                                                currentPixel
                                                                .addNeighbour((WatershedPixel) watershedStructure
                                                                                .get(x + 1 + bottomOffset));

                                        if (y + 1 < r.height)
                                                currentPixel
                                                                .addNeighbour((WatershedPixel) watershedStructure
                                                                                .get(x + 1 + topOffset));
                                }

                                if (x - 1 >= 0) {
                                        currentPixel
                                                        .addNeighbour((WatershedPixel) watershedStructure
                                                                        .get(x - 1 + offset));

                                        if (y - 1 >= 0)
                                                currentPixel
                                                                .addNeighbour((WatershedPixel) watershedStructure
                                                                                .get(x - 1 + bottomOffset));

                                        if (y + 1 < r.height)
                                                currentPixel
                                                                .addNeighbour((WatershedPixel) watershedStructure
                                                                                .get(x - 1 + topOffset));
                                }

                                if (y - 1 >= 0)
                                        currentPixel
                                                        .addNeighbour((WatershedPixel) watershedStructure
                                                                        .get(x + bottomOffset));

                                if (y + 1 < r.height)
                                        currentPixel
                                                        .addNeighbour((WatershedPixel) watershedStructure
                                                                        .get(x + topOffset));
                        }
                }

                Collections.sort(watershedStructure);
                // IJ.showProgress(0.8);
        }

        @Override
        public String toString() {
                StringBuffer ret = new StringBuffer();

                for (int i = 0; i < watershedStructure.size(); i++) {
                        ret.append(((WatershedPixel) watershedStructure.get(i)).toString());
                        ret.append("\n");
                        ret.append("Neighbours :\n");

                        ArrayList neighbours = ((WatershedPixel) watershedStructure.get(i))
                                        .getNeighbours();

                        for (int j = 0; j < neighbours.size(); j++) {
                                ret.append(((WatershedPixel) neighbours.get(j)).toString());
                                ret.append("\n");
                        }
                        ret.append("\n");
                }
                return ret.toString();
        }

        public int size() {
                return watershedStructure.size();
        }

        public WatershedPixel get(int i) {
                return (WatershedPixel) watershedStructure.get(i);
        }
}