			classdef Muscle < handle
			% The Muscle class is linked to a segmented muscle file (a mask)
			% and to the slice it has been segmented out of.
			%
			% Then, this class can measured values linked to the PCSA and the
			% muscle's degeneration.

			properties
			name = '';
			segmentationSet = '';
			sliceName = '';

			PCSA = [];
			atrophy = [];
			fat = [];
			osteochondroma = [];
			degeneration = [];
			end



			properties (Hidden = true)
			dataPath = '';
			maskDataPath = '';
			contourDataPath = '';
			container = [];
			end


			methods

			function obj = Muscle(musclesContainer,muscleName,slicesWithMuscleName)
			obj.container = musclesContainer;
			obj.name = muscleName;
			obj.sliceName = slicesWithMuscleName;
			end

			function propagateDataPath(obj)
			% Update current dataPath
			% Propagate the path to objects in properties

			obj.dataPath = fullfile(obj.container.dataPath,obj.name);
			obj.maskDataPath = fullfile(obj.dataPath,'mask');
			obj.contourDataPath = fullfile(obj.dataPath,'contour');

			if not(isfolder(obj.dataPath))
			mkdir(obj.dataPath);
			end
			if not(isfolder(obj.maskDataPath))
			mkdir(obj.maskDataPath);
			end
			if not(isfolder(obj.contourDataPath))
			mkdir(obj.contourDataPath);
			end
			end


			function output = getValues(obj)
			output = cellfun(@(property) obj.(property), properties(obj),...
			'UniformOutput',false);
			end

			function measure(obj,segmentationSet)
			obj.segmentationSet = segmentationSet;
			measurer = MuscleMeasurer(obj);

			obj.PCSA = measurer.getPCSA;
			obj.atrophy = measurer.getRatioAtrophy;
			obj.fat = measurer.getRatioFat;
			obj.osteochondroma = measurer.getRatioOsteochondroma;
			obj.degeneration = measurer.getRatioDegeneration;
			end

			function output = loadMask(obj)
			output = imread(fullfile(obj.maskDataPath,obj.segmentationSet + "_Mask.png")) > 0;
			end

			function output = loadPixelCoordinates(obj)
			output = load(fullfile(obj.container.slicesDataPath,...
			obj.sliceName + "_PixelCoordinates.mat")).imagesPixelCoordinates;
			end

			end

			end

R8218/ShoulderCase/@Muscle/Muscle.m
9fe70821ddb6master

Muscle.m
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R8218/ShoulderCase/@Muscle/Muscle.m9fe70821ddb6master

Muscle.mView Options

R8218/ShoulderCase/@Muscle/Muscle.m
9fe70821ddb6master

Muscle.m
View Options