add rough script

src/test/java/develop/TestTransformPlanes.java

@@ -0,0 +1,72 @@
+package develop;
+
+import com.google.gson.Gson;
+import com.google.gson.GsonBuilder;
+import de.embl.schwab.crosshair.io.SettingsToSave;
+import ij.IJ;
+import net.imglib2.RealPoint;
+import org.scijava.vecmath.Vector3d;
+
+import javax.swing.*;
+import java.io.FileNotFoundException;
+import java.io.FileReader;
+import java.io.FileWriter;
+import java.io.IOException;
+import java.util.Map;
+
+public class TestTransformPlanes {
+
+    public static void main( String[] args ) {
+        String filePath = "Z:\\schwab\\microCT\\PLATY_K1_2K_1um\\crosshair\\before_target_flipped_vertical.json";
+        String newPath = "Z:\\schwab\\microCT\\PLATY_K1_2K_1um_registration\\cropped_data\\transformed_before_planes.json";
+        Gson gson = new Gson();
+        try {
+            FileReader fileReader = new FileReader(filePath);
+            SettingsToSave settingsToSave = gson.fromJson(fileReader, SettingsToSave.class);
+            System.out.println("here");
+
+            Vector3d cropTransform = new Vector3d(611, 674, 62);
+            double[] cropTransformDouble = new double[3];
+            cropTransform.get(cropTransformDouble);
+            for (String key: settingsToSave.getPlanePoints().keySet()) {
+                Vector3d currentVector = settingsToSave.getPlanePoints().get(key);
+                currentVector.sub(cropTransform);
+            }
+
+            for (RealPoint point: settingsToSave.getBlockVertices()) {
+                point.move(-cropTransform.getX(), 0);
+                point.move(-cropTransform.getY(), 1);
+                point.move(-cropTransform.getZ(), 2);
+            }
+
+            for (RealPoint point: settingsToSave.getPoints()) {
+                point.move(-cropTransform.getX(), 0);
+                point.move(-cropTransform.getY(), 1);
+                point.move(-cropTransform.getZ(), 2);
+            }
+
+            for (String key: settingsToSave.getNamedVertices().keySet()) {
+                RealPoint point = settingsToSave.getNamedVertices().get(key);
+                point.move(-cropTransform.getX(), 0);
+                point.move(-cropTransform.getY(), 1);
+                point.move(-cropTransform.getZ(), 2);
+            }
+
+            System.out.println("here");
+
+            FileWriter fileWriter = new FileWriter(newPath);
+            Gson gsonOut = new GsonBuilder().setPrettyPrinting().create();
+            gsonOut.toJson(settingsToSave, fileWriter);
+            fileWriter.flush();
+            fileWriter.close();
+
+        } catch (FileNotFoundException e1) {
+            e1.printStackTrace();
+        } catch (IOException e) {
+            e.printStackTrace();
+        }
+
+
+    }
+
+}