Biomechanical Joint Model  Author: Anderson Maciel

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COME_MoleculesBone Class Reference

#include <comemoleculesbone.h>

Inherits COME_Bone.

Inheritance diagram for COME_MoleculesBone:

[legend]Collaboration diagram for COME_MoleculesBone:

[legend]List of all members.

Public Member Functions
	COME_MoleculesBone ()
	~COME_MoleculesBone ()
void	setTissue (COME_MoleculesTissue *tissueN)
void	setMassCenter (const COME_Point3D &massC)
COME_MoleculesTissue *	getTissue ()
COME_Point3D	getMassCenter () const
void	getEnvelop (COME_Point3D &mins, COME_Point3D &maxs)
void	updateInertiaTensor (double discretization)
void	updateMassCenter ()
bool	update (double timestep, double simClock)
void	updateSurface (bool regenerate)
void	updateSurface (double skinSphere, double stiff, double resolution)
void	updateSkin ()
void	generateEnvelopSurface ()
void	initializeSkinning ()
void	respondCollision ()
void	derivs (double currTime, double timestep, COME_Point3D *X, COME_Vector3D *L, COME_Vector3D *P, COME_Matrix *R, COME_Vector3D *V, COME_Vector3D *F, COME_Vector3D *T, COME_Vector3D *W)
Protected Attributes
COME_MoleculesTissue *	tissue
COME_Matrix	rotationMatrix
COME_Matrix	inertiaTensor
COME_Point3D	massCenter
COME_Vector3D	linearVelocity
COME_Vector3D	angularVelocity

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Detailed Description

This class is an implementation of bones based on a molecular system.

Definition at line 47 of file comemoleculesbone.h.

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Constructor & Destructor Documentation

COME_MoleculesBone::COME_MoleculesBone (   )

Constructors and destructors. Definition at line 49 of file comemoleculesbone.cpp. References COME_BioStructure::collisionRadius, COME_BioStructure::globalHooke, COME_BioStructure::hashTable, COME::setParent(), COME_BioStructure::surface, tissue, and updateMassCenter(). Here is the call graph for this function:

COME_MoleculesBone::~COME_MoleculesBone (   )

Definition at line 60 of file comemoleculesbone.cpp.

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Member Function Documentation

void COME_MoleculesBone::derivs (  double  currTime, double  timestep, COME_Point3D *  X, COME_Vector3D *  L, COME_Vector3D *  P, COME_Matrix *  R, COME_Vector3D *  V, COME_Vector3D *  F, COME_Vector3D *  T, COME_Vector3D *  W )

This method derivs the two sets of variables positions and velocities into the two new sets velocities and accelerations. It calls the protected method calculateForce() to compute the final force being applied on this molecule and apply Newton's laws to calculate the resultant acceleration and the final velocity. Definition at line 398 of file comemoleculesbone.cpp. References COME_Matrix::getInverse(), COME_MoleculesTissue::getMass(), COME_Matrix::getTransposed(), inertiaTensor, COME_BioStructure::isFixed(), COME_Vector3D::setVector3D(), and tissue. Here is the call graph for this function:

void COME_MoleculesBone::generateEnvelopSurface (   )

This method re-generates the boundary mesh of the bone for visualization. Such mesh is the rectangular envelop for the organ shape. Definition at line 202 of file comemoleculesbone.cpp. References COME_Mesh::addFaceAsIndices(), COME_Mesh::addVertex(), getEnvelop(), COME_Point3D::getX(), COME_Point3D::getY(), COME_Point3D::getZ(), COME_Mesh::resetMesh(), COME_Vertex3D::setNormal(), and COME_BioStructure::surface. Here is the call graph for this function:

void COME_MoleculesBone::getEnvelop (  COME_Point3D &  mins, COME_Point3D &  maxs )  [virtual]

This method returns the 3D rectangular envelop of this organ. Implements COME_BioStructure. Definition at line 281 of file comemoleculesbone.cpp. References COME_MoleculesTissue::getEnvelop(), and tissue. Referenced by generateEnvelopSurface(), updateInertiaTensor(), and updateSurface(). Here is the call graph for this function:

COME_Point3D COME_MoleculesBone::getMassCenter (   )  const

Definition at line 87 of file comemoleculesbone.cpp. References massCenter.

COME_MoleculesTissue * COME_MoleculesBone::getTissue (   )  [virtual]

Implements COME_Bone. Definition at line 81 of file comemoleculesbone.cpp. References tissue.

void COME_MoleculesBone::initializeSkinning (   )

This method only generates the normals on the surface of the bone. Definition at line 470 of file comemoleculesbone.cpp. References COME_BioStructure::getSurface(), IMPLICIT, COME::setParent(), COME_BioStructure::surface, and updateSurface(). Here is the call graph for this function:

void COME_MoleculesBone::respondCollision (   )  [virtual]

Implements COME_BioStructure. Definition at line 487 of file comemoleculesbone.cpp.

void COME_MoleculesBone::setMassCenter (  const COME_Point3D &  massC  )

Definition at line 75 of file comemoleculesbone.cpp. References massCenter.

void COME_MoleculesBone::setTissue (  COME_MoleculesTissue *  tissueN  )

Protected attributes access methods. Definition at line 69 of file comemoleculesbone.cpp. References tissue.

bool COME_MoleculesBone::update (  double  timestep, double  simClock )  [virtual]

This method implements the Runge-Kutta 4 method for numeric integration to calculate the new positions for all molecules of this organ. Implements COME_Bone. Definition at line 297 of file comemoleculesbone.cpp. References updateSkin(). Here is the call graph for this function:

void COME_MoleculesBone::updateInertiaTensor (  double  discretization  )

This method calculates the inertia tensor for this bone based on its mesh volume and stores it in the inertiaTensor attribute. The parameter discretization defines the sample size as a fraction of the bounding box. Definition at line 418 of file comemoleculesbone.cpp. References getEnvelop(), COME_Matrix::getValueAt(), COME_Point3D::getX(), COME_Point3D::getY(), COME_Point3D::getZ(), inertiaTensor, COME_Mesh::isInside(), COME_Matrix::reset(), COME_Matrix::setValueAt(), and COME_BioStructure::surface. Here is the call graph for this function:

void COME_MoleculesBone::updateMassCenter (   )

This method calculates the center of mass for this bone based on its molecules distribution and density. Then it stores it in the massCenter attribute. Definition at line 461 of file comemoleculesbone.cpp. References COME_MoleculesTissue::getMassCenter(), massCenter, and tissue. Referenced by COME_MoleculesBone(). Here is the call graph for this function:

void COME_MoleculesBone::updateSkin (   )  [virtual]

Implements COME_BioStructure. Definition at line 94 of file comemoleculesbone.cpp. References COME_BioStructure::surface, and COME_Mesh::updateSkin(). Referenced by update(). Here is the call graph for this function:

void COME_MoleculesBone::updateSurface (  double  skinSphere, double  stiff, double  resolution )

This method re-generates the boundary mesh of the bone for visualization. Such mesh is an implicit surface that surrounds the organ shape. Definition at line 138 of file comemoleculesbone.cpp.

void COME_MoleculesBone::updateSurface (  bool  regenerate  )  [virtual]

This method re-generates the boundary mesh of the cartilage for visualization. Implements COME_Bone. Definition at line 103 of file comemoleculesbone.cpp. References COME_Mesh::estabilishLinkVerticesFaces(), getEnvelop(), COME_MoleculesTissue::getRadiusAverage(), COME_BioStructure::surface, tissue, and COME_BioStructure::volume. Referenced by initializeSkinning(). Here is the call graph for this function:

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Member Data Documentation

COME_Vector3D COME_MoleculesBone::angularVelocity [protected]

Definition at line 56 of file comemoleculesbone.h.

COME_Matrix COME_MoleculesBone::inertiaTensor [protected]

Definition at line 53 of file comemoleculesbone.h. Referenced by derivs(), and updateInertiaTensor().

COME_Vector3D COME_MoleculesBone::linearVelocity [protected]

Definition at line 55 of file comemoleculesbone.h.

COME_Point3D COME_MoleculesBone::massCenter [protected]

Definition at line 54 of file comemoleculesbone.h. Referenced by getMassCenter(), setMassCenter(), and updateMassCenter().

COME_Matrix COME_MoleculesBone::rotationMatrix [protected]

Definition at line 52 of file comemoleculesbone.h.

COME_MoleculesTissue* COME_MoleculesBone::tissue [protected]

Definition at line 51 of file comemoleculesbone.h. Referenced by COME_MoleculesBone(), derivs(), getEnvelop(), getTissue(), setTissue(), updateMassCenter(), and updateSurface().

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

• comemoleculesbone.h
• comemoleculesbone.cpp

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