public void reconstructOffline(ImagePlus imagePlus) throws Exception {
ImagePlusDataSink sink = new ImagePlusDataSink();
configure();
init();
for (int i = 0; i < imagePlus.getStackSize(); i++) {
backproject(ImageUtil.wrapImageProcessor(imagePlus.getStack().getProcessor(i + 1)), i);
}
waitForResult();
if (Configuration.getGlobalConfiguration().getUseHounsfieldScaling()) applyHounsfieldScaling();
int[] size = projectionVolume.getSize();
System.out.println(size[0] + " " + size[1] + " " + size[2]);
for (int k = 0; k < projectionVolume.getSize()[2]; k++) {
FloatProcessor fl =
new FloatProcessor(projectionVolume.getSize()[0], projectionVolume.getSize()[1]);
for (int j = 0; j < projectionVolume.getSize()[1]; j++) {
for (int i = 0; i < projectionVolume.getSize()[0]; i++) {
fl.putPixelValue(i, j, projectionVolume.getAtIndex(i, j, k));
}
}
sink.process(projectionVolume.getSubGrid(k), k);
}
sink.close();
ImagePlus revan =
ImageUtil.wrapGrid3D(sink.getResult(), "Reconstruction of " + imagePlus.getTitle());
revan.setTitle(imagePlus.getTitle() + " reconstructed");
revan.show();
reset();
}
public void run(String arg) {
boolean display = false;
File test = new File(arg);
display = !test.exists();
OpenDialog od = new OpenDialog("Open mkt file...", arg);
if (od != null) {
String file = od.getFileName();
if (file == null) return;
String directory = od.getDirectory();
directory = directory.replace('\\', '/'); // Windows safe
if (!directory.endsWith("/")) directory += "/";
arg = directory + file;
}
try {
FileProjectionSource fileSource = new MKTProjectionSource();
fileSource.initStream(arg);
ImagePlusDataSink sink = new ImagePlusDataSink();
Grid2D imp = fileSource.getNextProjection();
int i = 0;
while (imp != null) {
sink.process(imp, i);
i++;
imp = fileSource.getNextProjection();
}
sink.close();
setStack(ImageUtil.wrapGrid3D(sink.getResult(), "").getStack());
setTitle(new File(arg).getName());
fileSource.close();
if (display) show();
} catch (IOException e) {
// TODO Auto-generated catch block
e.printStackTrace();
} catch (Exception e) {
// TODO Auto-generated catch block
e.printStackTrace();
}
}