/*
+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
+ LBP CNRS 7213             http://www-lbp.u-strasbg.fr/                            +
+ Dev by Philippe Carl      philippe.carl@unistra.fr                                +
+ Features                  Macro illustrating the definition of ROIs within the    +
+                           ScatterPlot picture as well as the macro exporting      +
+                           possibilities for a 16 bit picture                      +
+ Last update               01/02/2021                                              +
+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
*/

	path = "http://punias.free.fr/ImageJ/";
	open(path + "images/Green.tif");
	open(path + "images/Red.tif");
	run("Colocalization Finder", "image_1=Green.tif image_2=Red.tif scatterplot_size=[_512 x 512_]");
//	run("Colocalization Finder", "image_1=Green.tif image_2=Red.tif scatterplot_size=[1024 x 1024]");
	call("Colocalization_Finder.setScatterPlotRoi",   500, '',   250, '');
	nbResults	=		call("Colocalization_Finder.getResultsLinesCount");
	output		= "" +	call("Colocalization_Finder.analyzeByMacro", "true", "true");
	while(nbResults ==	call("Colocalization_Finder.getResultsLinesCount") || output.contains("comparison already running!"))
	{
		wait(10);
		output = "" +	call("Colocalization_Finder.analyzeByMacro", "true", "true");
	}
	print(output);
	call("Colocalization_Finder.setScatterPlotRoi", 1000, '',   500, '');
	nbResults	=		call("Colocalization_Finder.getResultsLinesCount");
	output		= "" +	call("Colocalization_Finder.analyzeByMacro", "true", "true");
	while(nbResults ==	call("Colocalization_Finder.getResultsLinesCount") || output.contains("comparison already running!"))
	{
		wait(10);
		output = "" +	call("Colocalization_Finder.analyzeByMacro", "true", "true");
	}
	print(output);
	call("Colocalization_Finder.setScatterPlotRoi", 1500, '',   750, '');
	nbResults	=		call("Colocalization_Finder.getResultsLinesCount");
	output		= "" +	call("Colocalization_Finder.analyzeByMacro", "true", "true");
	while(nbResults ==	call("Colocalization_Finder.getResultsLinesCount") || output.contains("comparison already running!"))
	{
		wait(10);
		output = "" +	call("Colocalization_Finder.analyzeByMacro", "true", "true");
	}
	print(output);
	call("Colocalization_Finder.setScatterPlotRoi", 2000, '', 1000, '');
	nbResults	=		call("Colocalization_Finder.getResultsLinesCount");
	output		= "" +	call("Colocalization_Finder.analyzeByMacro", "true", "true");
	while(nbResults ==	call("Colocalization_Finder.getResultsLinesCount") || output.contains("comparison already running!"))
	{
		wait(10);
		output = "" +	call("Colocalization_Finder.analyzeByMacro", "true", "true");
	}
	print(output);
	call("Colocalization_Finder.setScatterPlotRoi", 2500, '', 1250, '');
	nbResults	=		call("Colocalization_Finder.getResultsLinesCount");
	output		= "" +	call("Colocalization_Finder.analyzeByMacro", "true", "true");
	while(nbResults ==	call("Colocalization_Finder.getResultsLinesCount") || output.contains("comparison already running!"))
	{
		wait(10);
		output = "" +	call("Colocalization_Finder.analyzeByMacro", "true", "true");
	}
	print(output);
	call("Colocalization_Finder.setScatterPlotRoi", 3000, '', 1500, '');
	nbResults	=		call("Colocalization_Finder.getResultsLinesCount");
	output		= "" +	call("Colocalization_Finder.analyzeByMacro", "true", "false");
	while(nbResults ==	call("Colocalization_Finder.getResultsLinesCount") || output.contains("comparison already running!"))
	{
		wait(10);
		output = "" +	call("Colocalization_Finder.analyzeByMacro", "true", "false");
	}
	print(output);