remove rotation reference from autoselection job

src/main/java/feedback/fly/embryo/jobs/Job_SelectMultipleEmbryosAutoRotation.java

@@ -24,7 +24,6 @@ import ij.plugin.filter.ParticleAnalyzer;
 import ij.plugin.filter.RankFilters;
 import ij.plugin.frame.RoiManager;
 import ij.process.ImageProcessor;
-import ij.process.ImageStatistics;
 import loci.plugins.BF;
 import loci.plugins.in.ImporterOptions;
 
@@ -66,7 +65,6 @@ public class Job_SelectMultipleEmbryosAutoRotation  extends Job_Default{
 	private Roi wellRoi;
 	private Roi[] embryoRois;
 	private Roi[] selectedEmbryoRois;
-	private Double[] rotations;
 	
 	
 	//private boolean selectionMade=false;
@@ -103,7 +101,6 @@ public class Job_SelectMultipleEmbryosAutoRotation  extends Job_Default{
 	protected void cleanIterOutput(){
 		img=null;
 		selectedPoints=null;
-		rotations=null;
 		wellRoi=null;
 		embryoRois=null;
 		selectedEmbryoRois=null;
@@ -166,14 +163,11 @@ public class Job_SelectMultipleEmbryosAutoRotation  extends Job_Default{
 		
 		double x,y;
 		selectedPoints=new Point2D.Double[selectedEmbryoRois.length];
-		rotations=new Double[selectedEmbryoRois.length];
 		for (int i=0;i<selectedEmbryoRois.length;i++){
 			x=selectedEmbryoRois[i].getContourCentroid()[0];
 			y=selectedEmbryoRois[i].getContourCentroid()[1];
 			selectedPoints[i]=new Point2D.Double(x, y);
 			img.setRoi(selectedEmbryoRois[i]);
-			ImageStatistics stat=img.getStatistics(ImageStatistics.ELLIPSE);
-			rotations[i]=stat.angle;
 		}
 		
 		
@@ -282,7 +276,7 @@ public class Job_SelectMultipleEmbryosAutoRotation  extends Job_Default{
 		
 		//PointRoi saveRoi=null;
 		//form  comma-separated strings with coordinates
-		String xstr="", ystr="",zstr="",rotstr="";
+		String xstr="", ystr="",zstr="";
 		
 		// submit 3d points in future
 		for (int i=0;i<selectedEmbryoRois.length;i++){
@@ -290,16 +284,14 @@ public class Job_SelectMultipleEmbryosAutoRotation  extends Job_Default{
 				xstr+=";";
 				ystr+=";";
 				zstr+=";";
-				rotstr+=";";
 			}
 			xstr+=selectedPoints[i].x;
 			ystr+=selectedPoints[i].y;
-			zstr+="0";
-			rotstr+=rotations[i];
+			zstr+=img.getNSlices()/2; //central slice by default
 		}
 
 		
-		ZeissKeys.submitCommandsToMicroscope("trigger1", xstr,ystr,zstr,rotstr,"","","","","");
+		ZeissKeys.submitCommandsToMicroscope("trigger1", xstr,ystr,zstr,"","","","","","");
 		
 		saveRoisForImage(newImgFile, getOverlay().toArray());
 		//saveRoiForImage(newImgFile,saveRoi);
@@ -307,7 +299,6 @@ public class Job_SelectMultipleEmbryosAutoRotation  extends Job_Default{
 		this.setSharedValue("Zoom Points", selectedPoints);
 		this.setSharedValue("Zoom Counter", -1);
 		this.setSharedValue("Selected Embryo Rois", selectedEmbryoRois);
-		this.setSharedValue("Rotations", rotations);
 	}
 	
 	@Override