reorderPreprocessedDataByMuscleNames.m

function inputs = reorderPreprocessedDataByMuscleNames(inputs, muscleNames)

indexesInParsedMuscleData = ...
    ismember(inputs.muscleTendonColumnNames, muscleNames);

inputs.muscleTendonColumnNames = ...
    inputs.muscleTendonColumnNames(indexesInParsedMuscleData);
inputs.muscleTendonLength = inputs.muscleTendonLength(:, ...
    indexesInParsedMuscleData, :);
inputs.muscleTendonVelocity = inputs.muscleTendonVelocity(:, ...
    indexesInParsedMuscleData, :);

indexesInParsedCoordinateData = ...
    ismember( ...
        inputs.inverseDynamicsMomentsColumnNames, ...
        inputs.coordinateNames ...
    );
indexesInParsedMuscleAnalysisData = ...
    ismember( ...
        inputs.momentArmsCoordinateNames, ...
        inputs.coordinateNames ...
    );

inputs.inverseDynamicsMoments = ...
    inputs.inverseDynamicsMoments(:, indexesInParsedCoordinateData, :);
inputs.momentArms = inputs.momentArms(:, indexesInParsedMuscleAnalysisData, ...
    indexesInParsedMuscleData, :);

if (isfield(inputs, "mtpActivationsColumnNames"))
indexesInParsedActivationData = ...
    ismember(inputs.mtpActivationsColumnNames, muscleNames);

inputs.mtpActivationsColumnNames = ...
    inputs.mtpActivationsColumnNames(indexesInParsedActivationData);
inputs.mtpActivations = ...
    inputs.mtpActivations(:, indexesInParsedActivationData, :);
end

end