still working on textures

src/main/java/com/elphel/imagej/tileprocessor/OpticalFlow.java

@@ -8044,7 +8044,7 @@ public class OpticalFlow {
 			payload_blue_sky = new double[tiles];
 			Arrays.fill(payload_blue_sky,Double.NaN);
 		}
-		
+		combo_dsn_final[COMBO_DSN_INDX_BLUE_SKY] = payload_blue_sky;
 		
 		// restore modified parameters
 		clt_parameters.img_dtt.bimax_combine_mode = save_bimax_combine_mode;

src/main/java/com/elphel/imagej/tileprocessor/QuadCLT.java

@@ -1788,7 +1788,9 @@ public class QuadCLT extends QuadCLTCPU {
 			final boolean     filter_bg, // remove bg tiles (possibly occluded)
 			final double      max_distortion, // maximal neighbor tiles offset as a fraction of tile size (8) 
 			final int []      cluster_index,  // [tilesX*tilesY]
-			final boolean []  border, // border tiles
+			final boolean []  border, // border tiles for clusters?
+			final int         discard_frame_edges, // do not use tiles that have pixels closer to the frame margins 
+			final int         keep_frame_tiles, // do not discard pixels for border tiles in reference frame 
 			final boolean     keep_channels,
 			final int         debugLevel){
 		// FIXME: Move to clt_parameters;
@@ -1990,8 +1992,12 @@ public class QuadCLT extends QuadCLTCPU {
 		final int tilesX =    scene.getTileProcessor().getTilesX();
 		final int tilesY =    scene.getTileProcessor().getTilesY();
 		final int tiles =     tilesX*tilesY;
-		int tile_size =       scene.getTileProcessor().getTileSize();
+		final int tile_size =       scene.getTileProcessor().getTileSize();
 		int tile_len =        tile_size*tile_size;
+		// 		final int transform_size = clt_parameters.transform_size;
+		final int full_width =  tilesX * tile_size; 
+		final int full_height = tilesY * tile_size; 
+
 		final double [][][][] texture_tiles88 = new double [tilesY][tilesX][][]; // here - non-overlapped!
 		// copy from windowed output to 
 		final TpTask[] ftp_tasks =    tp_tasks[0];
@@ -2033,7 +2039,7 @@ public class QuadCLT extends QuadCLTCPU {
 		}		      
 		ImageDtt.startAndJoin(threads);
 
-		if (max_distortion > 0) {//  remove distorted tiles
+		if ((max_distortion > 0) || (discard_frame_edges > 0)) {//  remove distorted tiles
 			double max_distortion2 = max_distortion * max_distortion; 
 			final TileNeibs tn =         new TileNeibs(tilesX, tilesY);
 			final boolean [] distorted = new boolean [tiles];
@@ -2078,6 +2084,19 @@ public class QuadCLT extends QuadCLTCPU {
 											}
 										}
 									}
+									// see if the tile should be removed because it is too close to the edge of the scene frame
+									if (!distorted[nTile] && (discard_frame_edges > 0)) {
+										if ((tileX >= keep_frame_tiles) && (tileY >= keep_frame_tiles) &&
+												(tileX < (tilesX - keep_frame_tiles)) && (tileY < (tilesY - keep_frame_tiles))) {
+											if (
+													(centerXY[0] < discard_frame_edges) ||
+													(centerXY[1] < discard_frame_edges) ||
+													(centerXY[0] > (full_width - discard_frame_edges-1)) ||													
+													(centerXY[1] > (full_height - discard_frame_edges-1))) {
+												distorted[nTile] = true;												
+											}
+										}
+									}
 								} else {
 									if (debugLevel > -3) {
 										System.out.println("Non-null texture for no-cluster, nTile="+nTile+

src/main/java/com/elphel/imagej/tileprocessor/QuadCLTCPU.java

@@ -12056,6 +12056,7 @@ public class QuadCLTCPU {
 								  clt_parameters.maxZtoXY,      // double          maxZtoXY,       // 10.0. <=0 - do not use
 								  clt_parameters.maxZ,
 								  clt_parameters.limitZ,
+								  null, // dbg_disp_tri_slice, //   double [][]     dbg_disp_tri_slice,
 								  debugLevel + 1); //   int             debug_level) > 0
 					  } catch (IOException e) {
 						  // TODO Auto-generated catch block
@@ -12155,6 +12156,7 @@ public class QuadCLTCPU {
 						  clt_parameters.maxZtoXY,      // double          maxZtoXY,       // 10.0. <=0 - do not use
 						  clt_parameters.maxZ,
 						  clt_parameters.limitZ,
+						  null, //   double [][]     dbg_disp_tri_slice,
 						  debugLevel + 1); //   int             debug_level) > 0
 			} catch (IOException e) {
 				e.printStackTrace();
@@ -12204,6 +12206,7 @@ public class QuadCLTCPU {
 			  double          maxZtoXY,        // 10.0. <=0 - do not use
 			  double          maxZ,            // far clip (0 - do not clip). Negative - limit by max
 			  boolean         limitZ,
+			  double [][]     dbg_disp_tri_slice,
 			  int             debug_level
 			  ) throws IOException
 	  {
@@ -12315,19 +12318,20 @@ public class QuadCLTCPU {
 			  }
 		  }
 
-		  if (show_triangles) {
+		  if (show_triangles || (dbg_disp_tri_slice != null)) {
 			  double [] ddisp = (disparity == null)?(new double[1]):disparity;
 			  if (disparity == null) {
 				  ddisp[0] = min_disparity;
 			  }
 			  tp.testTriangles(
-					  texturePath,
+					  (show_triangles? texturePath: null),
 					  bounds,
 					  selected,
 					  ddisp, // disparity, // if disparity.length == 1 - use for all
 					  tile_size,
 					  indices,
-					  triangles);
+					  triangles,
+					  dbg_disp_tri_slice); // double [][] debug_triangles);
 		  }
 		  if (x3dOutput != null) {
 		  x3dOutput.addCluster(

src/main/java/com/elphel/imagej/tileprocessor/TileCluster.java

@@ -32,15 +32,19 @@ class TileCluster{
 	double []  disparity;            // all and only unused - NaN 
 	int []     cluster_index = null; // for debug purposes, index of the source cluster
 	int        index = -1;
+	boolean    is_sky = false;
 	ArrayList<IndexedRectanle> clust_list;
 	class IndexedRectanle{
 		int index;
 		Rectangle bounds;
+		boolean is_sky;
 		IndexedRectanle (
 				int index,
-				Rectangle bounds){
+				Rectangle bounds,
+				boolean is_sky){
 			this.index = index;
 			this.bounds = bounds;
+			this.is_sky = is_sky;
 		}
 	}
 	// to use cluster_index - set index >= 0, <0 - do not use.
@@ -48,9 +52,11 @@ class TileCluster{
 			Rectangle  bounds,
 			int index, // <0 to skip
 			boolean [] border,
-			double []  disparity){
+			double []  disparity,
+			boolean is_sky){
 		this.bounds =    bounds;
 		this.index = index;
+		this.is_sky = is_sky;
 		/**
 		if (index >= 0) {
 			this.cluster_index = new int [bounds.width * bounds.height];
@@ -72,10 +78,31 @@ class TileCluster{
 		}
 		this.disparity = disparity;
 	}
+	public boolean isSky() {
+		return is_sky;
+	}
+	
+	public int getSkyClusterIndex() {
+		if (clust_list == null) {
+			return -2;
+		}
+		for (int i = 0; i < clust_list.size(); i++) {
+			if (clust_list.get(i).is_sky) {
+				return i;
+			}
+		}
+		return -1;
+	}
 	
-	public Rectangle  getBounds() {return bounds;}
+	public Rectangle  getBounds() {
+		return bounds;
+	}
+	public Rectangle  getBounds(int gap) {
+		return new Rectangle (bounds.x - gap, bounds.y - gap, bounds.width + 2* gap,  bounds.height + 2* gap);
+	}
 	public boolean [] getBorder() {return border;}
 	public double []  getDisparity() {return disparity;}
+	public void       setDisparity(double [] disparity) {this.disparity = disparity;}
 	public double []  getSubDisparity(int indx) { // disparity should be NaN for unused !
 		if (clust_list == null) {
 			return null;
@@ -95,6 +122,32 @@ class TileCluster{
 		return sub_disparity;
 	}
 
+	public void setSubDisparity(int indx, double [] sub_disparity) { // disparity should be NaN for unused !
+		if (clust_list == null) {
+			return;
+		}
+		Rectangle sub_bounds = clust_list.get(indx).bounds;
+		int src_x = sub_bounds.x - bounds.x;
+		for (int dst_y = 0; dst_y < sub_bounds.height; dst_y++) {
+			int src_y = dst_y + sub_bounds.y - bounds.y;
+			System.arraycopy(
+					sub_disparity,
+					dst_y * sub_bounds.width,
+					disparity,
+					src_y * bounds.width + src_x,
+					sub_bounds.width);
+		}		
+	}
+	
+	
+	
+	public boolean isSubSky(int indx) {
+		if (clust_list == null) {
+			return false;
+		}
+		return clust_list.get(indx).is_sky;
+	}
+	
 	public boolean []  getSubBorder(int indx) { // disparity should be NaN for unused !
 		if (clust_list == null) {
 			return null;
@@ -113,7 +166,7 @@ class TileCluster{
 		}		
 		return sub_border;
 	}
-	
+	// returns selected for all non-NAN, so it is possible to use NEGATIVE_INFINITY for non-NaN
 	public boolean []  getSubSelected(int indx) { // disparity should be NaN for unused !
 		if (clust_list == null) {
 			return null;
@@ -141,6 +194,15 @@ class TileCluster{
 		return selected;
 	}
 	
+	public Rectangle getSubBounds (int indx) {
+		if (clust_list == null) {
+			return null;
+		} else {
+			Rectangle sub_bounds = clust_list.get(indx).bounds;
+			return sub_bounds;
+		}
+	}
+	
 	public Rectangle [] getSubBounds() {
 		if (clust_list == null) {
 			return null;
@@ -163,6 +225,9 @@ class TileCluster{
 			return sub_indices;
 		}
 	}
+	public void resetClusterIndex() { // to rebuild cluster index from disparity
+		this.cluster_index = null; 
+	}
 	public int [] getClusterIndex() { // (Now not) just a debug feature, no need to optimize?
 		if (clust_list == null) {
 			return null;
@@ -183,6 +248,36 @@ class TileCluster{
 			}
 		}
 		return cluster_index;
+	}
+	
+	public void increaseBounds() {
+		int num_subs = getSubBounds().length;
+		for (int indx = 0; indx < num_subs; indx++) {
+			increaseBounds(indx);
+		}
+	}
+
+	public void increaseBounds(int sub_index) {
+		Rectangle bounds = getSubBounds(sub_index);
+		Rectangle ext_bounds = new Rectangle (bounds.x - 1, bounds.y - 1, bounds.width + 2, bounds.height + 2);
+		if (ext_bounds.x < 0) {
+			ext_bounds.width += ext_bounds.x;
+			ext_bounds.x = 0;
+		}
+		if ((ext_bounds.x + ext_bounds.width) > this.bounds.width) {
+			ext_bounds.width = this.bounds.width - ext_bounds.x;
+		}
+		if (ext_bounds.y < 0) {
+			ext_bounds.height += ext_bounds.y;
+			ext_bounds.y = 0;
+		}
+		if ((ext_bounds.y + ext_bounds.height) > this.bounds.height) {
+			ext_bounds.height = this.bounds.height - ext_bounds.y;
+		}
+		bounds.x =      ext_bounds.x;
+		bounds.y =      ext_bounds.y;
+		bounds.width =  ext_bounds.width;
+		bounds.height = ext_bounds.height;
 
 	}
 
@@ -194,7 +289,7 @@ class TileCluster{
 		if (clust_list == null) {
 			clust_list =  new ArrayList<IndexedRectanle>();
 		}
-		clust_list.add(new IndexedRectanle(tileCluster.index, tileCluster.bounds));
+		clust_list.add(new IndexedRectanle(tileCluster.index, tileCluster.bounds, tileCluster.isSky()));
 		
 		int dst_x = tileCluster.bounds.x - bounds.x;
 		for (int src_y = 0; src_y < tileCluster.bounds.height; src_y++) {

src/main/java/com/elphel/imagej/tileprocessor/TileNeibs.java

 package com.elphel.imagej.tileprocessor;
+import java.awt.Rectangle;
 import java.util.ArrayList;
 import java.util.Arrays;
 
@@ -526,6 +527,37 @@ public class TileNeibs{
 		return bound_shape;
 	}
 
+	public static double[] getDoubleWindow(
+			Rectangle window,
+			double [] data,
+			int data_width) {
+		double [] window_data = new double [window.width * window.height];
+		for (int row = 0; row < window.height; row++) {
+			System.arraycopy(
+					data,
+					(window.y + row) * data_width + window.x,
+					window_data,
+					row * window.width,
+					window.width);
+		}
+		return window_data;
+	}
+	
+	public static void setDoubleWindow(
+			Rectangle window,
+			double [] window_data,
+			double [] data,
+			int       data_width) {
+		for (int row = 0; row < window.height; row++) {
+			System.arraycopy(
+					window_data,
+					row * window.width,
+					data,
+					(window.y + row) * data_width + window.x,
+					window.width);
+		}
+	}
+	
 
 	public int [] distanceFromEdge(
 			boolean [] tiles) {

src/main/java/com/elphel/imagej/tileprocessor/TileProcessor.java

@@ -8991,13 +8991,14 @@ ImageDtt.startAndJoin(threads);
 	static int iSign (int a) {return (a > 0) ? 1 : ((a < 0)? -1 : 0);}
 
 	public void testTriangles(
-			String     texturePath,
+			String     texturePath, // if not null - will show
 			Rectangle  bounds,
 			boolean [] selected,
 			double []  disparity,
 			int        tile_size,
 			int [][]  indices,
-			int [][]  triangles)
+			int [][]  triangles,
+			double [][] debug_triangles) // if not null - should be [2][width* height], will mark disparity and triangles
 	{
 		String [] titles = {"disparity","triangles"};
 		double [][] dbg_img = new double [titles.length][tilesX*tilesY*tile_size*tile_size];
@@ -9053,13 +9054,31 @@ ImageDtt.startAndJoin(threads);
 				}
 			}
 		}
-		ShowDoubleFloatArrays.showArrays(dbg_img,
+		if (texturePath != null) {
+			ShowDoubleFloatArrays.showArrays(
+					dbg_img,
 					tilesX * tile_size,
 					tilesY * tile_size,
 					true,
 					"triangles-"+texturePath,
 					titles);
 		}
+		if (debug_triangles != null) {
+			int indx_tri = (debug_triangles.length>1) ? 1 : 0;
+			for (int i = 0; i < debug_triangles[indx_tri].length; i++) {
+				if (dbg_img[1][i] > 0) {
+					debug_triangles[indx_tri][i] = dbg_img[1][i]; // 10.0 to have the same scale as disparity
+				}
+			}
+			if (indx_tri > 0) {
+				for (int i = 0; i < debug_triangles[indx_tri].length; i++) {
+					if (!Double.isNaN(dbg_img[0][i])) {
+						debug_triangles[0][i] = dbg_img[0][i]; // disparity if not NaN
+					}
+				}
+			}
+		}
+	}
 
 	
 	public static double [] fillNaNs(