public void run(ImageProcessor ip) {
dimz = stack.getSize();
dimy = stack.getWidth();
dimx = stack.getHeight();
SaveDialog sd = new SaveDialog("Save Measurements as Text...", "res", ".dat");
String name = sd.getFileName();
if (name == null) return;
String directory = sd.getDirectory();
nb = calculnb(stack); // -1;
IJ.showStatus("Measure parameters for the " + nb + " objects ...");
if (nb < 1) {
IJ.showMessage("volume must be labeled");
} else {
double[] volume_m = new double[nb];
int[] volume_p = new int[nb];
double[] surface = new double[nb];
double[] surfacenb = new double[nb];
double[][][] I = new double[3][3][nb];
double[][] J = new double[3][nb];
double[][][] dir = new double[3][3][nb];
double[] xg = new double[nb];
double[] yg = new double[nb];
double[] zg = new double[nb];
byte[] bord = new byte[nb];
// double[] a = new double[nb];
// double[] b = new double[nb];
// double[] c = new double[nb];
// double[] Fab = new double[nb];
// double[] Fac = new double[nb];
// double[] Fbc = new double[nb];
// double[] sp = new double[nb];
double[][] lmin = new double[nb][3];
double[][] lmax = new double[nb][3];
IJ.showStatus("Measure surfaces ...");
calculmarchsurfstack(stack, nb, surface, volume_m);
calculmarchsurfstacknb(stack, nb, surfacenb);
// calculvolumestack(stack,nb,volume_p);
IJ.showStatus("Measure volumes and inertia ...");
calculcgstack(stack, nb, volume_p, xg, yg, zg);
calculinertiestack(stack, nb, xg, yg, zg, I);
inertie(nb, I, J, dir);
IJ.showStatus("Measure bounding boxes ...");
boitestack(stack, nb, xg, yg, zg, dir, lmin, lmax);
borderstack(stack, nb, bord);
IJ.showStatus("Save results ...");
sauvegarde(
volume_p, volume_m, surface, surfacenb, xg, yg, zg, J, dir, nb, bord, lmin, lmax,
directory, name);
volume_m = null;
volume_p = null;
surface = null;
xg = null;
yg = null;
zg = null;
}
}
private String getPath(String fileName) {
SaveDialog sd = new SaveDialog("Save as ", fileName, ".rf");
String outFileName = sd.getFileName();
if (outFileName == null) {
return null;
}
String directory = sd.getDirectory();
String path = directory + outFileName;
return path;
}
public void run(String arg) {
if (IJ.versionLessThan("1.49d")) return;
if (!showDialog()) return;
SaveDialog sd = new SaveDialog("Save as Bricks...", "", "");
basename = sd.getFileName();
directory = sd.getDirectory();
if (basename == null || directory == null) return;
build_bricks();
}
public boolean install(String path) {
boolean isURL = path.contains("://");
String lcPath = path.toLowerCase();
if (isURL) path = Opener.updateUrl(path);
boolean isTool =
lcPath.endsWith("tool.ijm")
|| lcPath.endsWith("tool.txt")
|| lcPath.endsWith("tool.class")
|| lcPath.endsWith("tool.jar");
boolean isMacro = lcPath.endsWith(".txt") || lcPath.endsWith(".ijm");
byte[] data = null;
String name = path;
if (isURL) {
int index = path.lastIndexOf("/");
if (index != -1 && index <= path.length() - 1) name = path.substring(index + 1);
data = download(path, name);
} else {
File f = new File(path);
name = f.getName();
data = download(f);
}
if (data == null) return false;
if (name.endsWith(".txt") && !name.contains("_"))
name = name.substring(0, name.length() - 4) + ".ijm";
if (name.endsWith(".zip")) {
if (!name.contains("_")) {
IJ.error("Plugin Installer", "No underscore in file name:\n \n " + name);
return false;
}
name = name.substring(0, name.length() - 4) + ".jar";
}
String dir = null;
boolean isLibrary = name.endsWith(".jar") && !name.contains("_");
if (isLibrary) {
dir = Menus.getPlugInsPath() + "jars";
File f = new File(dir);
if (!f.exists()) {
boolean ok = f.mkdir();
if (!ok) dir = Menus.getPlugInsPath();
}
}
if (isTool) {
dir = Menus.getPlugInsPath() + "Tools" + File.separator;
File f = new File(dir);
if (!f.exists()) {
boolean ok = f.mkdir();
if (!ok) dir = null;
}
if (dir != null && isMacro) {
String name2 = getToolName(data);
if (name2 != null) name = name2;
}
}
if (dir == null) {
SaveDialog sd =
new SaveDialog("Save Plugin, Macro or Script...", Menus.getPlugInsPath(), name, null);
String name2 = sd.getFileName();
if (name2 == null) return false;
dir = sd.getDirectory();
}
// IJ.log(dir+" "+Menus.getPlugInsPath());
if (!savePlugin(new File(dir, name), data)) return false;
if (name.endsWith(".java")) IJ.runPlugIn("ij.plugin.Compiler", dir + name);
Menus.updateImageJMenus();
if (isTool) {
if (isMacro) IJ.runPlugIn("ij.plugin.Macro_Runner", "Tools/" + name);
else if (name.endsWith(".class")) {
name = name.replaceAll("_", " ");
name = name.substring(0, name.length() - 6);
IJ.run(name);
}
}
return true;
}