Before converting to dual-band comparison

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

@@ -720,6 +720,9 @@ min_str_neib_fpn	0.35
 	public Color annotate_color_mono =   new Color( 255, 180,  50); // reddish over grey
 	public boolean annotate_transparent_mono =  false; // // black if not transparent
 	
+	public String    terr_model_path =  "/media/elphel/SSD3-4GB/lwir16-proc/berdich3/models/models_1697875868-1697879449-b/1697877487_245877/v35";
+	public String    terr_model_state = "1697877487_245877-TERR-VEG-STATE"; 
+	public String    terr_segments_dir = "sections"; 
 	// terrain/vegetation parameters
 	public boolean   terr_um_en =             true;
 	public double    terr_um_sigma =           1.0; 
@@ -748,6 +751,7 @@ min_str_neib_fpn	0.35
 	public double    terr_alpha_push =        12;    // push from alpha==0.5
 	public double    terr_alpha_push_neutral = 0.5;  // alpha point from which push (closer to opaque)
 	public double    terr_alpha_weight_center =1.5;  // weight of center alpha pixel relative to each of the 4 ortho ones
+	public boolean   terr_en_holes =           true; // enable small holes // maybe second pass after good fit with vegetation and search for correct offset?
 	public double    terr_alpha_mm_hole    =   0.1;  // NaN to disable. Local "almost minimum" (lower than this fraction between min and max neighbor) is not subject to alpha_lpf
 	public double    terr_terr_lpf =           0.1;  // pull terrain to average of 4 neighbors (very small)
 	public double    terr_veget_lpf =          0.2;  // pull vegetation to average of 4 neighbors (very small - maybe not needed)
@@ -1950,7 +1954,13 @@ min_str_neib_fpn	0.35
 				"Put monochrome timestamp over image (unchecked - use black background). Color - always black.");
 		
 // vegetation	
+		
+		
 		gd.addTab("Vegetation","See through foliage parameters");
+		gd.addStringField ("Model path", terr_model_path, 120, "Model directory path with version.");
+		gd.addStringField ("Model state file", terr_model_state, 50, "Model vegetation source data (w/o extension).");
+		gd.addStringField ("Segments subdir",  terr_segments_dir, 50, "Model vegetation source data (w/o extension).");
+		
 		gd.addCheckbox    ("Enable UM",          terr_um_en,           "Enable unsharp mask filter.");
 		gd.addNumericField("UM sigma",           terr_um_sigma, 5,7,   "pix", "Unsharp mask sigma.");
 		gd.addNumericField("UM weight",          terr_um_weight, 5,7,  "",    "Unsharp mask weight.");
@@ -1979,6 +1989,7 @@ min_str_neib_fpn	0.35
 		gd.addNumericField("Push alpha",           terr_alpha_push, 5,7,"", 	"Quadratic loss for middle alpha (push to 0.0 or 1.0.");
 		gd.addNumericField("Neutral alpha",        terr_alpha_push_neutral, 5,7,"", "Alpha point from which to push (default 0.5).");
 		gd.addNumericField("Alpha center weight",  terr_alpha_weight_center, 5,7,"","Weight of center alpha pixel relative to each of the 4 ortho ones.");
+		gd.addCheckbox    ("Hole search enable",   terr_en_holes,               "Search for small semi-transparent holes, disable diffusion of local alpha minimums.");
 		gd.addNumericField("Alpha MM fraction",    terr_alpha_mm_hole, 5,7,"",	"Disable diffusion for local \"almost minimum\" (lower than this fraction between min and max neighbors).");
 		gd.addNumericField("Terrain diffusion",    terr_terr_lpf, 5,7,"",       "LPF for terrain pixels (diffusion to 4 neighbors).");
 		gd.addNumericField("Vegetation diffusion", terr_veget_lpf, 5,7,"", 		"LPF for vegetation pixels (diffusion to 4 neighbors).");
@@ -2631,6 +2642,9 @@ min_str_neib_fpn	0.35
 		this.annotate_transparent_mono= gd.getNextBoolean();
 		
 // vegetation
+		terr_model_path =          gd.getNextString();
+		terr_model_state =         gd.getNextString();
+		terr_segments_dir =        gd.getNextString();
 		terr_um_en =               gd.getNextBoolean();// boolean
 		terr_um_sigma =            gd.getNextNumber();// double 
 		terr_um_weight =           gd.getNextNumber();// double 
@@ -2659,6 +2673,8 @@ min_str_neib_fpn	0.35
 		terr_alpha_push =          gd.getNextNumber();// double 
 		terr_alpha_push_neutral =  gd.getNextNumber();// double 
 		terr_alpha_weight_center = gd.getNextNumber();// double 
+		terr_en_holes =            gd.getNextBoolean();// boolean
+		
 		terr_alpha_mm_hole =       gd.getNextNumber();// double 
 		terr_terr_lpf =            gd.getNextNumber();// double 
 		terr_veget_lpf =           gd.getNextNumber();// double 
@@ -3279,6 +3295,10 @@ min_str_neib_fpn	0.35
 		properties.setProperty(prefix+"annotate_transparent_mono",this.annotate_transparent_mono+"");// boolean
 		
 		// vegetation
+		properties.setProperty(prefix+"terr_model_path",             terr_model_path+"");         // String
+		properties.setProperty(prefix+"terr_model_state",            terr_model_state+"");        // String
+		properties.setProperty(prefix+"terr_segments_dir",           terr_segments_dir+"");       // String
+		
 		properties.setProperty(prefix+"terr_um_en",                  terr_um_en+"");              // boolean
 		properties.setProperty(prefix+"terr_um_sigma",               terr_um_sigma+"");           // double 
 		properties.setProperty(prefix+"terr_um_weight",              terr_um_weight+"");          // double 
@@ -3305,7 +3325,7 @@ min_str_neib_fpn	0.35
 		properties.setProperty(prefix+"terr_alpha_push",             terr_alpha_push+"");         // double 
 		properties.setProperty(prefix+"terr_alpha_push_neutral",     terr_alpha_push_neutral+""); // double 
 		properties.setProperty(prefix+"terr_alpha_weight_center",    terr_alpha_weight_center+"");// double 
-		properties.setProperty(prefix+"terr_alpha_mm_hole",          terr_alpha_mm_hole+"");      // double 
+		properties.setProperty(prefix+"terr_en_holes",               terr_en_holes+"");           // boolean
 		properties.setProperty(prefix+"terr_terr_lpf",               terr_terr_lpf+"");           // double 
 		properties.setProperty(prefix+"terr_veget_lpf",              terr_veget_lpf+"");          // double 
 		properties.setProperty(prefix+"terr_terr_pull0",             terr_terr_pull0+"");         // double 
@@ -3948,6 +3968,10 @@ min_str_neib_fpn	0.35
 		if (properties.getProperty(prefix+"annotate_transparent_mono")!=null) this.annotate_transparent_mono=Boolean.parseBoolean(properties.getProperty(prefix+"annotate_transparent_mono"));
 		
 		// vegetation
+		if (properties.getProperty(prefix+"terr_model_path")!=         null) terr_model_path=(String) properties.getProperty(prefix+"terr_model_path");
+		if (properties.getProperty(prefix+"terr_model_state")!=        null) terr_model_state=(String) properties.getProperty(prefix+"terr_model_state");
+		if (properties.getProperty(prefix+"terr_segments_dir")!=       null) terr_segments_dir=(String) properties.getProperty(prefix+"terr_segments_dir");
+		
 		if (properties.getProperty(prefix+"terr_um_en")!=              null) terr_um_en=Boolean.parseBoolean(properties.getProperty(prefix+"terr_um_en"));
 		if (properties.getProperty(prefix+"terr_um_sigma")!=           null) terr_um_sigma=Double.parseDouble(properties.getProperty(prefix+"terr_um_sigma"));
 		if (properties.getProperty(prefix+"terr_um_weight")!=          null) terr_um_weight=Double.parseDouble(properties.getProperty(prefix+"terr_um_weight"));
@@ -3974,6 +3998,7 @@ min_str_neib_fpn	0.35
 		if (properties.getProperty(prefix+"terr_alpha_push")!=         null) terr_alpha_push=Double.parseDouble(properties.getProperty(prefix+"terr_alpha_push"));
 		if (properties.getProperty(prefix+"terr_alpha_push_neutral")!= null) terr_alpha_push_neutral=Double.parseDouble(properties.getProperty(prefix+"terr_alpha_push_neutral"));
 		if (properties.getProperty(prefix+"terr_alpha_weight_center")!=null) terr_alpha_weight_center=Double.parseDouble(properties.getProperty(prefix+"terr_alpha_weight_center"));
+		if (properties.getProperty(prefix+"terr_en_holes")!= null)     terr_en_holes=Boolean.parseBoolean(properties.getProperty(prefix+"terr_en_holes"));
 		if (properties.getProperty(prefix+"terr_alpha_mm_hole")!=      null) terr_alpha_mm_hole=Double.parseDouble(properties.getProperty(prefix+"terr_alpha_mm_hole"));
 		if (properties.getProperty(prefix+"terr_terr_lpf")!=           null) terr_terr_lpf=Double.parseDouble(properties.getProperty(prefix+"terr_terr_lpf"));
 		if (properties.getProperty(prefix+"terr_veget_lpf")!=          null) terr_veget_lpf=Double.parseDouble(properties.getProperty(prefix+"terr_veget_lpf"));
@@ -4584,6 +4609,10 @@ min_str_neib_fpn	0.35
 		imp.annotate_transparent_mono = this. annotate_transparent_mono;
 		
 		// vegetation
+		imp.terr_model_path =                    this. terr_model_path;
+		imp.terr_model_state =                   this. terr_model_state;
+		imp.terr_segments_dir =                  this. terr_segments_dir;
+		
 		imp.terr_um_en =                         this.terr_um_en;    
 		imp.terr_um_sigma =                      this.terr_um_sigma; 
 		imp.terr_um_weight =                     this.terr_um_weight;
@@ -4610,6 +4639,7 @@ min_str_neib_fpn	0.35
 		imp.terr_alpha_push =                    this.terr_alpha_push;                           
 		imp.terr_alpha_push_neutral =            this.terr_alpha_push_neutral;                           
 		imp.terr_alpha_weight_center =           this.terr_alpha_weight_center;
+		imp.terr_en_holes =                      this.terr_en_holes;
 		imp.terr_alpha_mm_hole =                 this.terr_alpha_mm_hole;                           
 		imp.terr_terr_lpf =                      this.terr_terr_lpf;                           
 		imp.terr_veget_lpf =                     this.terr_veget_lpf;