This class serves as a serializable FiberCompressiveForceCosPennationCurve, which is used to ensure that the pennation angle approaches but never reaches an angle of 90 degrees. More...

#include <FiberCompressiveForceCosPennationCurve.h>

Inheritance diagram for OpenSim::FiberCompressiveForceCosPennationCurve:

Public Member Functions
	FiberCompressiveForceCosPennationCurve ()
	Default constructor creates an curve with the default property values, and assigns it a default name. More...

	FiberCompressiveForceCosPennationCurve (double engagementAngleInDegrees, double stiffnessAtPerpendicular, double curviness, const std::string &muscleName)
	Constructs a C2 continuous compressive fiber force cos pennation curve. More...

	FiberCompressiveForceCosPennationCurve (double engagementAngleInDegrees, const std::string &muscleName)
	Constructs a C2 continuous compressive fiber force cos pennation curve using only the manditory property, engagmentAngleInDegrees. More...

double	getEngagementAngleInDegrees () const

double	getStiffnessAtPerpendicularInUse () const

double	getCurvinessInUse () const

bool	isFittedCurveBeingUsed () const

void	setEngagementAngleInDegrees (double aEngagementAngleInDegrees)

void	setOptionalProperties (double aStiffnessAtPerpendicular, double aCurviness)

double	calcValue (double cosPennationAngle) const
	Calculates the value of the curve evaluated at cosPennationAngle. More...

double	calcValue (const SimTK::Vector &x) const override
	Implement the generic OpenSim::Function interface. More...

double	calcDerivative (double cosPennationAngle, int order) const
	Calculates the derivative of the fiber compressive force pennation angle curve w.r.t. More...

double	calcIntegral (double cosPennationAngle) const

SimTK::Vec2	getCurveDomain () const
	This function returns a SimTK::Vec2 that contains in its 0th element the lowest value of the curve domain, and in its 1st element the highest value in the curve domain of the curve. More...

void	printMuscleCurveToCSVFile (const std::string &path)
	This function will generate a csv file with a name that matches the curve name (e.g. More...

void	ensureCurveUpToDate ()

Property declarations
These are the serializable properties associated with this class.
	OpenSim_DECLARE_PROPERTY (engagement_angle_in_degrees, double,"Engagement angle of the compressive pennation spring in degrees")

	OpenSim_DECLARE_OPTIONAL_PROPERTY (stiffness_at_perpendicular, double,"Stiffness of the curve at pennation angle of 90 degrees")

	OpenSim_DECLARE_OPTIONAL_PROPERTY (curviness, double,"Fiber curve bend, from linear to maximum bend (0-1)")

Public Member Functions inherited from OpenSim::Function
	Function ()

	Function (const Function &aFunction)

virtual	~Function ()

virtual void	init (Function *aFunction)

Function &	operator= (const Function &aFunction)

virtual double	calcDerivative (const std::vector< int > &derivComponents, const SimTK::Vector &x) const
	Calculate a partial derivative of this function at a particular point. More...

virtual int	getArgumentSize () const
	Get the number of components expected in the input vector. More...

virtual int	getMaxDerivativeOrder () const
	Get the maximum derivative order this Function object can calculate. More...

Public Member Functions inherited from OpenSim::Object
virtual	~Object ()
	Virtual destructor for cleanup. More...

virtual Object *	clone () const =0
	Create a new heap-allocated copy of the concrete object to which this Object refers. More...

virtual const std::string &	getConcreteClassName () const =0
	Returns the class name of the concrete Object-derived class of the actual object referenced by this Object, as a string. More...

virtual const VisibleObject *	getDisplayer () const
	Methods to support making the object displayable in the GUI or Visualizer Implemented only in few objects. More...

virtual VisibleObject *	updDisplayer ()
	get Non const pointer to VisibleObject More...

bool	isEqualTo (const Object &aObject) const
	Equality operator wrapper for use from languages not supporting operator overloading. More...

Object &	operator= (const Object &aObject)
	Copy assignment copies he base class fields, including the properties. More...

virtual bool	operator== (const Object &aObject) const
	Determine if two objects are equal. More...

virtual bool	operator< (const Object &aObject) const
	Provide an ordering for objects so they can be put in sorted containers. More...

void	setName (const std::string &name)
	Set the name of the Object. More...

const std::string &	getName () const
	Get the name of this Object. More...

void	setDescription (const std::string &description)
	Set description, a one-liner summary. More...

const std::string &	getDescription () const
	Get description, a one-liner summary. More...

const std::string &	getAuthors () const
	Get Authors of this Object. More...

void	setAuthors (const std::string &authors)
	Set Authors of this object, call this method in your constructor if needed. More...

const std::string &	getReferences () const
	Get references or publications to cite if using this object. More...

void	setReferences (const std::string &references)
	Set references or publications to cite if using this object. More...

int	getNumProperties () const
	Determine how many properties are stored with this Object. More...

const AbstractProperty &	getPropertyByIndex (int propertyIndex) const
	Get a const reference to a property by its index number, returned as an AbstractProperty. More...

AbstractProperty &	updPropertyByIndex (int propertyIndex)
	Get a writable reference to a property by its index number, returned as an AbstractProperty. More...

bool	hasProperty (const std::string &name) const
	Return true if this Object has a property of any type with the given name, which must not be empty. More...

const AbstractProperty &	getPropertyByName (const std::string &name) const
	Get a const reference to a property by its name, returned as an AbstractProperty. More...

AbstractProperty &	updPropertyByName (const std::string &name)
	Get a writable reference to a property by its name, returned as an AbstractProperty. More...

template<class T >
bool	hasProperty () const
	Return true if this Object contains an unnamed, one-object property that contains objects of the given template type T. More...

template<class T >
const Property< T > &	getProperty (const PropertyIndex &index) const
	Get property of known type Property<T> as a const reference; the property must be present and have the right type. More...

template<class T >
Property< T > &	updProperty (const PropertyIndex &index)
	Get property of known type Property<T> as a writable reference; the property must be present and have the right type. More...

void	setObjectIsUpToDateWithProperties ()
	When an object is initialized using the current values of its properties, it can set a flag indicating that it is up to date. More...

bool	isObjectUpToDateWithProperties () const
	Returns `true` if no property's value has changed since the last time setObjectIsUpToDateWithProperties() was called. More...

void	readObjectFromXMLNodeOrFile (SimTK::Xml::Element &objectElement, int versionNumber)
	We're given an XML element from which we are to populate this Object. More...

virtual void	updateFromXMLNode (SimTK::Xml::Element &objectElement, int versionNumber)
	Use this method to deserialize an object from a SimTK::Xml::Element. More...

virtual void	updateXMLNode (SimTK::Xml::Element &parent)
	Serialize this object into the XML node that represents it. More...

bool	getInlined () const
	Inlined means an in-memory Object that is not associated with an XMLDocument. More...

void	setInlined (bool aInlined, const std::string &aFileName="")
	Mark this as inlined or not and optionally provide a file name to associate with the new XMLDocument for the non-inline case. More...

std::string	getDocumentFileName () const
	If there is a document associated with this object then return the file name maintained by the document. More...

void	setAllPropertiesUseDefault (bool aUseDefault)

bool	print (const std::string &fileName)
	Write this Object into an XML file of the given name; conventionally the suffix to use is ".osim". More...

std::string	dump (bool dumpName=false)
	dump the XML representation of this Object into an std::string and return it. More...

void	clearObjectIsUpToDateWithProperties ()
	For testing or debugging purposes, manually clear the "object is up to date with respect to properties" flag. More...

virtual bool	isA (const char *type) const
	The default implementation returns true only if the supplied string is "Object"; each Object-derived class overrides this to match its own class name. More...

const std::string &	toString () const
	Wrapper to be used on Java side to display objects in tree; this returns just the object's name. More...

PropertySet &	getPropertySet ()
	OBSOLETE: Get a reference to the PropertySet maintained by the Object. More...

const PropertySet &	getPropertySet () const

Additional Inherited Members
Static Public Member Functions inherited from OpenSim::Function
static Function *	makeFunctionOfType (Function *aFunction, const std::string &aNewTypeName)

Static Public Attributes inherited from OpenSim::Object
static const std::string	DEFAULT_NAME
	Name used for default objects when they are serialized. More...

Protected Member Functions inherited from OpenSim::Function
void	resetFunction ()
	This should be called whenever this object has been modified. More...

Protected Attributes inherited from OpenSim::Function
SimTK::Function *	_function

Related Functions inherited from OpenSim::Object
#define	OpenSim_DECLARE_CONCRETE_OBJECT(ConcreteClass, SuperClass)
	Macro to be included as the first line of the class declaration for any non-templatized, concrete class that derives from OpenSim::Object. More...

#define	OpenSim_DECLARE_ABSTRACT_OBJECT(ConcreteClass, SuperClass)
	Macro to be included as the first line of the class declaration for any still-abstract class that derives from OpenSim::Object. More...

#define	OpenSim_DECLARE_CONCRETE_OBJECT_T(ConcreteClass, TArg, SuperClass)
	Macro to be included as the first line of the class declaration for any templatized, concrete class that derives from OpenSim::Object, like Set<T>. More...

#define	OpenSim_DECLARE_ABSTRACT_OBJECT_T(ConcreteClass, TArg, SuperClass)
	Macro to be included as the first line of the class declaration for any templatized, still-abstract class that derives from OpenSim::Object. More...

Detailed Description

This class serves as a serializable FiberCompressiveForceCosPennationCurve, which is used to ensure that the pennation angle approaches but never reaches an angle of 90 degrees.

Preventing the fibers from achivieving a pennation angle of 90 degrees is important for equilibrium muscle models which have a singularity at this value.

This curve is designed to work with the muscle model in such a way that it acts like a spring that the pennated muscle fibers contact it as the fiber rotates (circuled in red). When the spring engages it will exert a force on the fiber that will prevent it from shortening further, thus preventing the pennation angle from reaching 90 degrees.

Note that this object should be updated through the set methods provided. These set methods will take care of rebuilding the curve correctly. If you modify the properties directly, the curve will not be rebuilt, and upon calling a function like calcValue, calcDerivative, or printCurveToCSVFile an exception will be thrown because the curve is out of date with its properties.

Author: Matt Millard

Constructor & Destructor Documentation

OpenSim::FiberCompressiveForceCosPennationCurve::FiberCompressiveForceCosPennationCurve ( )

Default constructor creates an curve with the default property values, and assigns it a default name.

OpenSim::FiberCompressiveForceCosPennationCurve::FiberCompressiveForceCosPennationCurve	(	double	engagementAngleInDegrees,
		double	stiffnessAtPerpendicular,
		double	curviness,
		const std::string &	muscleName
	)

Constructs a C2 continuous compressive fiber force cos pennation curve.

The sole purpose of this curve is to prevent the pennation angle from reaching an angle of 90 degrees. Details to appear in Millard et al. 2012.

Parameters

engagementAngleInDegrees	The pennation angle engagement angle of the fiber compressive force pennation curve. Making the spring engage too far from 90 degrees may unrealistically limit the force production capability of the muscle. An engagement angle of 80 degrees is a good place to start.
stiffnessAtPerpendicular	This is the stiffness of the compressive elastic force length spring when the pennation angle reaches 90 degrees. Note that the units of this stiffness are (normalized force) / cos(engagmentAngleInDegrees). If the engagement angle is 80 degrees, a good stiffness to start with is -2*(1/cosd(engagementAngleInDegrees))
curviness	A dimensionless parameter between [0-1] that controls how the curve is drawn: 0 will create a curve that is very close to a straight line segment while a value of 1 will create a curve that smoothly fills the corner formed by the linear extrapolation of 'stiffnessAtPerpendicularFiber' and the x axis as shown in the figure. A good curviness parameter value to start with is 0.5.
muscleName	The name of the muscle this curve belongs to. This name is used to create the name of this curve, which is formed simply by appending "_FiberCompressiveForceCosPennationCurve" to the string in muscleName. This name is used for making intelligible error messages and also for naming the XML version of this curve when it is serialized.

Conditions:

        0 < engagmentAngleInDegrees < 90
        stiffnessAtPerpendicular < -1/engagmentAngleInDegrees
        0 <= curviness <= 1

Computational Costs

        ~174,100 flops

Default Parameter Values

         engagmentAngleInDegrees = 80

Example:

OpenSim::FiberCompressiveForceCosPennationCurve::FiberCompressiveForceCosPennationCurve	(	double	engagementAngleInDegrees,
		const std::string &	muscleName
	)

Constructs a C2 continuous compressive fiber force cos pennation curve using only the manditory property, engagmentAngleInDegrees.

The sole purpose of this curve is to prevent the pennation angle from reaching an angle of 90 degrees. Details to appear in Millard et al. 2012.

Parameters

engagementAngleInDegrees	The pennation angle engagement angle of the fiber compressive force pennation curve. Making the spring engage too far from 90 degrees may unrealistically limit the force production capability of the muscle. An engagement angle of 80 degrees is a good place to start.
muscleName	The name of the muscle this curve belongs to. This name is used to create the name of this curve, which is formed simply by appending "_FiberCompressiveForceCosPennationCurve" to the string in muscleName. This name is used for making intelligible error messages and also for naming the XML version of this curve when it is serialized.

Optional Parameters If the optional parameters have not yet been set, they are computed when functions getStiffnessAtPerpendicularInUse(), and getCurvinessInUse() are called. See the documentation for these functions for details

Conditions:

        0 < engagmentAngleInDegrees < 90

Computational Costs

        ~174,100 flops

Default Parameter Values

         engagmentAngleInDegrees = 80

Example:

Member Function Documentation

double OpenSim::FiberCompressiveForceCosPennationCurve::calcDerivative	(	double	cosPennationAngle,
		int	order
	)		const

Calculates the derivative of the fiber compressive force pennation angle curve w.r.t.

to cosPennationAngle.

Parameters

cosPennationAngle,:	The cosine of the fiber pennation angle
order,:	the order of the derivative. Only values of 0,1 and 2 are acceptable.

Returns: the derivative of the fiber compressive force pennation angle curve w.r.t. to cosPennationAngle

Computational Costs

    x in curve domain  : ~391 flops
    x in linear section:   ~2 flops

double OpenSim::FiberCompressiveForceCosPennationCurve::calcIntegral ( double cosPennationAngle) const

Parameters

cosPennationAngle The cosine of the pennation angle

Returns: Computes the normalized area under the curve. For this curve, this quantity corresponds to the normalized potential energy stored in the fiber compressive force cos pennation spring - simply multiply this quantity by the number of NormForce (where NormForce corresponds to the number of Newtons that 1 normalized force corresponds to) to obtain the potental energy stored in the fiber in units of Joules. Note that NormDistance is omitted because the length dimension of this curve is not normalized, only the force dimension.

Computational Costs

    x in curve domain  : ~13 flops
    x in linear section: ~19 flops

double OpenSim::FiberCompressiveForceCosPennationCurve::calcValue ( double cosPennationAngle) const

Calculates the value of the curve evaluated at cosPennationAngle.

Parameters

cosPennationAngle,: The cosine of the fiber pennation angle

Returns: the normalized force generated by the compressive force element

Computational Costs

    x in curve domain  : ~282 flops
    x in linear section:   ~5 flops

double OpenSim::FiberCompressiveForceCosPennationCurve::calcValue ( const SimTK::Vector & x) const

inlineoverridevirtual

Implement the generic OpenSim::Function interface.

Reimplemented from OpenSim::Function.

void OpenSim::FiberCompressiveForceCosPennationCurve::ensureCurveUpToDate ( )

SimTK::Vec2 OpenSim::FiberCompressiveForceCosPennationCurve::getCurveDomain ( ) const

This function returns a SimTK::Vec2 that contains in its 0th element the lowest value of the curve domain, and in its 1st element the highest value in the curve domain of the curve.

Outside of this domain the curve is approximated using linear extrapolation.

Returns: The minimum and maximum value of the domain, x, of the curve y(x). Within this range y(x) is a curve, outside of this range the function y(x) is a C2 (continuous to the second derivative) linear extrapolation

double OpenSim::FiberCompressiveForceCosPennationCurve::getCurvinessInUse ( ) const

Returns: A dimensionless parameter between [0-1] that controls how the curve is drawn: 0 will create a curve that is very close to a straight line segment while a value of 1 will create a curve that smoothly fills the corner formed by the linear extrapolation of 'StiffnessAtPerpendicularFiber'.

If this property is empty, then a value is computed and returned. The value is computed using the following:

           curviness = 0.1

double OpenSim::FiberCompressiveForceCosPennationCurve::getEngagementAngleInDegrees ( ) const

Returns: The pennation angle engagement angle of the fiber compressive force pennation curve.

double OpenSim::FiberCompressiveForceCosPennationCurve::getStiffnessAtPerpendicularInUse ( ) const

Returns: This is the stiffness of the compressive elastic force length spring when the pennation angle reaches 90 degrees. If this property has been set, the property value is returned. If this property is empty, then a value is computed and returned. The value is computed using the following:

           stiffnessAtPerpendicular = -2 * 1/cosd(engagementAngleInDegrees)

where cosd is a cosine function that takes its argument in units of degrees

bool OpenSim::FiberCompressiveForceCosPennationCurve::isFittedCurveBeingUsed ( ) const

Returns: true if the internal fitting routine (which takes only one argument, the engagementAngleInDegrees) is being used. False is returned if the user has set the optional parameters.

OpenSim::FiberCompressiveForceCosPennationCurve::OpenSim_DECLARE_OPTIONAL_PROPERTY	(	stiffness_at_perpendicular	,
		double	,
		"Stiffness of the curve at pennation angle of 90 degrees"
	)

OpenSim::FiberCompressiveForceCosPennationCurve::OpenSim_DECLARE_OPTIONAL_PROPERTY	(	curviness	,
		double	,
		"Fiber curve	bend,
		from linear to maximum bend(0-1)"
	)

OpenSim::FiberCompressiveForceCosPennationCurve::OpenSim_DECLARE_PROPERTY	(	engagement_angle_in_degrees	,
		double	,
		"Engagement angle of the compressive pennation spring in degrees"
	)

void OpenSim::FiberCompressiveForceCosPennationCurve::printMuscleCurveToCSVFile ( const std::string & path)

This function will generate a csv file with a name that matches the curve name (e.g.

"bicepfemoris_FiberCompressiveForceCosPennationCurve.csv"). This function is not const to permit the curve to be rebuilt if it is out of date with its properties.

Parameters

path	The full path to the location. Note '/' slashes must be used, and do not put a '/' after the last folder.

The file will contain the following columns:

 Col# 1, 2,     3,       4,  
      x, y, dy/dx, d2y/dx2,

The curve will be sampled from its linear extrapolation region (the region with normalized fiber velocities < -1), through the curve, out to the other linear extrapolation region (the region with normalized fiber velocities > 1). The width of each linear extrapolation region is 10% of the entire range of x, or 0.1*(x1-x0).

The curve is sampled quite densely: there are 200+20 rows

Computational Costs

      ~194,800 flops

Example To read the csv file with a header in from Matlab, you need to use csvread set so that it will ignore the header row. This is accomplished by using the extra two numerical arguments for csvread to tell the function to begin reading from the 1st row, and the 0th index (csvread is 0 indexed). This is necessary to skip reading in the text header

  data=csvread('bicepfemoris_FiberCompressiveForceCosPennationCurve.csv',1,0);

void OpenSim::FiberCompressiveForceCosPennationCurve::setEngagementAngleInDegrees ( double aEngagementAngleInDegrees)

Parameters

aEngagementAngleInDegrees Sets the pennation angle engagement angle of the fiber compressive force pennation curve. Cost The curve is rebuilt at a cost of ~174,100 flops

void OpenSim::FiberCompressiveForceCosPennationCurve::setOptionalProperties	(	double	aStiffnessAtPerpendicular,
		double	aCurviness
	)

Parameters

aStiffnessAtPerpendicular	This is the stiffness of the compressive elastic force length spring when the pennation angle reaches 90 degrees.
aCurviness	A dimensionless parameter between [0-1] that controls how the curve is drawn: 0 will create a curve that is very close to a straight line segment while a value of 1 will create a curve that smoothly fills the corner formed by the linear extrapolation of 'stiffnessAtOneNormForce' and the x axis as shown in the figure.

Cost The curve is rebuilt at a cost of ~174,100 flops

The documentation for this class was generated from the following file:

/home/fitze/repos/opensim/Branches/OpenSim32ForDoxygen/OpenSim/Actuators/FiberCompressiveForceCosPennationCurve.h

Public Member Functions

Additional Inherited Members

Detailed Description

Constructor & Destructor Documentation

Member Function Documentation