bhive01 · January 12, 2016 21:22
diff --git a/0_circle.jpg b/0_circle.jpg
diff --git a/10_circle.jpg b/10_circle.jpg
diff --git a/11_circle.jpg b/11_circle.jpg
diff --git a/12_circle.jpg b/12_circle.jpg
diff --git a/13_circle.jpg b/13_circle.jpg
diff --git a/14_circle.jpg b/14_circle.jpg
diff --git a/15_circle.jpg b/15_circle.jpg
diff --git a/16_circle.jpg b/16_circle.jpg
diff --git a/17_circle.jpg b/17_circle.jpg
diff --git a/18_circle.jpg b/18_circle.jpg
diff --git a/19_circle.jpg b/19_circle.jpg
diff --git a/1_circle.jpg b/1_circle.jpg
diff --git a/20_circle.jpg b/20_circle.jpg
diff --git a/21_circle.jpg b/21_circle.jpg
diff --git a/22_circle.jpg b/22_circle.jpg
diff --git a/23_circle.jpg b/23_circle.jpg
diff --git a/24_circle.jpg b/24_circle.jpg
diff --git a/25_circle.jpg b/25_circle.jpg
diff --git a/26_circle.jpg b/26_circle.jpg
diff --git a/27_circle.jpg b/27_circle.jpg
diff --git a/28_circle.jpg b/28_circle.jpg
diff --git a/29_circle.jpg b/29_circle.jpg
diff --git a/2_circle.jpg b/2_circle.jpg
diff --git a/30_circle.jpg b/30_circle.jpg
diff --git a/31_circle.jpg b/31_circle.jpg
diff --git a/32_circle.jpg b/32_circle.jpg
diff --git a/33_circle.jpg b/33_circle.jpg
diff --git a/34_circle.jpg b/34_circle.jpg
diff --git a/35_circle.jpg b/35_circle.jpg
diff --git a/36_circle.jpg b/36_circle.jpg
diff --git a/37_circle.jpg b/37_circle.jpg
diff --git a/38_circle.jpg b/38_circle.jpg
diff --git a/39_circle.jpg b/39_circle.jpg
diff --git a/3_circle.jpg b/3_circle.jpg
diff --git a/40_circle.jpg b/40_circle.jpg
diff --git a/41_circle.jpg b/41_circle.jpg
diff --git a/42_circle.jpg b/42_circle.jpg
diff --git a/43_circle.jpg b/43_circle.jpg
diff --git a/44_circle.jpg b/44_circle.jpg
diff --git a/45_circle.jpg b/45_circle.jpg
diff --git a/46_circle.jpg b/46_circle.jpg
diff --git a/47_circle.jpg b/47_circle.jpg
diff --git a/48_circle.jpg b/48_circle.jpg
diff --git a/49_circle.jpg b/49_circle.jpg
diff --git a/4_circle.jpg b/4_circle.jpg
diff --git a/50_circle.jpg b/50_circle.jpg
diff --git a/51_circle.jpg b/51_circle.jpg
diff --git a/52_circle.jpg b/52_circle.jpg
diff --git a/53_circle.jpg b/53_circle.jpg
diff --git a/54_circle.jpg b/54_circle.jpg
diff --git a/55_circle.jpg b/55_circle.jpg
diff --git a/5_circle.jpg b/5_circle.jpg
diff --git a/6_circle.jpg b/6_circle.jpg
diff --git a/7_circle.jpg b/7_circle.jpg
diff --git a/8_circle.jpg b/8_circle.jpg
diff --git a/9_circle.jpg b/9_circle.jpg
diff --git a/ExtractCircles.ijm b/ExtractCircles.ijm
 run("Options...", "iterations=1 count=1 edm=Overwrite");
 run("Line Width...", "line=1");
 run("Colors...", "foreground=black background=white selection=magenta");
 run("Clear Results");
 run("Close All");
 print("\\Clear");
 run("ROI Manager...");
 run("Input/Output...", "jpeg=90 gif=-1 file=.csv use_file copy_row save_column save_row");
 run("Set Measurements...", "area mean standard modal min centroid center perimeter bounding fit shape feret's integrated median skewness kurtosis area_fraction stack redirect=None decimal=3");

 open();


 orig = getTitle();

 run("Duplicate...", "title=findcircles");
 selectWindow("findcircles");

 run("8-bit");

 setAutoThreshold("Huang");
 setOption("BlackBackground", false);
 run("Convert to Mask");

 run("Analyze Particles...", "size=12000-Infinity add");

 selectWindow("findcircles");
 run("Close");

 for (i=0; i<roiManager("count"); i++) {
 	selectWindow(orig);
 	run("Select None");
 	roiManager("select", i)
 	run("Duplicate...", "title=isolatecircle");
 	saveAs("jpg", File.directory+File.separator+i+"_circle");
 	run("Close");
 	
 }






diff --git a/matisse crack.jpg b/matisse crack.jpg
	run("Options...", "iterations=1 count=1 edm=Overwrite");
	run("Line Width...", "line=1");
	run("Colors...", "foreground=black background=white selection=magenta");
	run("Clear Results");
	run("Close All");
	print("\\Clear");
	run("ROI Manager...");
	run("Input/Output...", "jpeg=90 gif=-1 file=.csv use_file copy_row save_column save_row");
	run("Set Measurements...", "area mean standard modal min centroid center perimeter bounding fit shape feret's integrated median skewness kurtosis area_fraction stack redirect=None decimal=3");

	open();


	orig = getTitle();

	run("Duplicate...", "title=findcircles");
	selectWindow("findcircles");

	run("8-bit");

	setAutoThreshold("Huang");
	setOption("BlackBackground", false);
	run("Convert to Mask");

	run("Analyze Particles...", "size=12000-Infinity add");

	selectWindow("findcircles");
	run("Close");

	for (i=0; i<roiManager("count"); i++) {
	selectWindow(orig);
	run("Select None");
	roiManager("select", i)
	run("Duplicate...", "title=isolatecircle");
	saveAs("jpg", File.directory+File.separator+i+"_circle");
	run("Close");

	}