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R8218/setup.m
a850000c9cd2aterrier-plotUpdate

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setup.m
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function setup()
% to execute once after cloning the repo.
createDefaultConfigFile();
addpath(genpath(pwd));
end
function createDefaultConfigFile()
defaultConfig.maxSCaseIDDigits = 3;
defaultConfig.SCaseIDValidTypes = ["N", "P"];
defaultConfig.pythonDir = "/shoulder/methods/python/rcseg";
defaultConfig.dataDir = "/shoulder/dataDev";
defaultConfig.casesToMeasure = ["*"];
defaultConfig.shouldersToMeasure.rightAuto = true;
defaultConfig.shouldersToMeasure.rightManual = true;
defaultConfig.shouldersToMeasure.leftAuto = true;
defaultConfig.shouldersToMeasure.leftManual = true;
defaultConfig.standardMeasurementsToRun.loadData = true;
defaultConfig.standardMeasurementsToRun.morphology = true;
defaultConfig.standardMeasurementsToRun.measureFirst = true;
defaultConfig.standardMeasurementsToRun.measureSecond = true;
defaultConfig.specialMeasurementsToRun.sliceAndSegment = false;
defaultConfig.specialMeasurementsToRun.calcDensity = false;
defaultConfig.specialMeasurementsArguments.sliceAndSegment = [];
defaultConfig.specialMeasurementsArguments.calcDensity = [];
defaultConfig.rotatorCuffSliceName = "rotatorCuffMatthieu";
defaultConfig.rotatorCuffSegmentationName = "autoMatthieu";
defaultConfig.muscleSubdivisionsResolutionInMm.x = 5;
defaultConfig.muscleSubdivisionsResolutionInMm.y = 5;
defaultConfig.overwriteMeasurements = false;
defaultConfig.saveMeasurements = false;
defaultConfig.saveAllMeasurementsInOneFile = false;
fid = fopen('config.json','w');
fprintf(fid, replace(jsonencode(defaultConfig), ",", ",\n"));
fclose(fid);
end
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