getModelOrOsimxInputs.m

% This function is part of the NMSM Pipeline, see file for full license.
%
% () -> ()
% 


function inputs = getModelOrOsimxInputs(inputs)
if ~isa(inputs.model, 'org.opensim.modeling.Model')
    model = Model(inputs.model);
end
inputs.optimalFiberLength = [];
inputs.tendonSlackLength = [];
inputs.pennationAngle = [];
inputs.maxIsometricForce = [];
for i = 1 : inputs.numMuscles
    if isfield(inputs.osimx, "muscles") && ...
            isfield(inputs.osimx.muscles, inputs.muscleNames(i))
        if ~isfield(inputs.osimx.muscles.(inputs.muscleNames(i)), ...
                "optimalFiberLength")
            inputs.optimalFiberLength(end+1) = model.getForceSet(). ...
                getMuscles().get(i-1).getOptimalFiberLength();
        else
            inputs.optimalFiberLength(end+1) = inputs.osimx.muscles. ...
                (inputs.muscleNames(i)).optimalFiberLength;
        end
        if ~isfield(inputs.osimx.muscles.(inputs.muscleNames(i)), ...
                "tendonSlackLength")
            inputs.tendonSlackLength(end+1) = model.getForceSet(). ...
                getMuscles().get(i-1).getTendonSlackLength();
        else
            inputs.tendonSlackLength(end+1) = inputs.osimx.muscles. ...
                (inputs.muscleNames(i)).tendonSlackLength;
        end
        if ~isfield(inputs.osimx.muscles.(inputs.muscleNames(i)), ...
                "maxIsometricForce")
            inputs.maxIsometricForce(end+1) = model.getForceSet(). ...
                getMuscles().get(i-1).getMaxIsometricForce();
        else
            inputs.maxIsometricForce(end+1) = inputs.osimx.muscles. ...
                (inputs.muscleNames(i)).maxIsometricForce;
        end
    else
        inputs.optimalFiberLength(end+1) = model.getForceSet(). ...
            getMuscles().get(i-1).getOptimalFiberLength();
        inputs.tendonSlackLength(end+1) = model.getForceSet(). ...
            getMuscles().get(i-1).getTendonSlackLength();
        inputs.maxIsometricForce(end+1) = model.getForceSet(). ...
            getMuscles().get(i-1).getMaxIsometricForce();
    end
    inputs.pennationAngle(end+1) = model.getForceSet(). ...
        getMuscles().get(i-1). ...
        getPennationAngleAtOptimalFiberLength();
end
end