An Alternaria structure element. More...

#include <structure.h>

Inheritance diagram for Structure:

Collaboration diagram for Structure:

Public Member Functions
	Structure (float length, float width, float base_theta, float base_psi, float theta, float psi, float opacity, size_t level, const class Structure_density *density) throw (jwscxx::base::Arg_error)
	Constructs a Structure.
	Structure (const Structure &s)
	Constructs a Structure by copying another.
virtual	~Structure ()
	Deletes this Structure.
virtual Structure *	clone () const =0
	Clones this Structure.
virtual Structure *	recursively_clone () const =0
	Recursively clones this Structure and all its descendents.
virtual Structure &	operator= (const Structure &s)
	Copies a Structure into this Structure.
uint32_t	get_id () const
	Returns the ID of this Structure.
Structure *	get_root ()
	Returns the root ancestor for this Structure.
std::vector< Structure * > *	get_descendants ()
	Returns a vector of all this structure and all its descendants.
class Apical_structure *	get_apical ()
	Returns the apical for this Structure.
std::list< class Lateral_structure * > &	get_laterals ()
	Returns the laterals for this Structure.
const jwsc::Vector_f *	get_begin_pt () const
	Returns the growth beginning point of this Structure.
const jwsc::Vector_f *	get_end_pt () const
	Returns the growth ending point of this Structure.
const jwsc::Vector_f *	get_centroid () const
	Returns the centroid of this Structure.
const jwsc::Vector_f *	get_growth_dir () const
	Returns the growth direction of this Structure.
Structure *	get_parent () const
	Returns the parent of this Structure.
size_t	get_level () const
	Returns the level of this Structure.
float	get_length () const
	Returns the length of this Structure.
float	get_width () const
	Returns the width of this Structure.
float	get_theta () const
	Returns the theta of this Structure.
float	get_base_theta () const
	Returns the base_theta of this Structure.
float	get_psi () const
	Returns the psi of this Structure.
float	get_base_psi () const
	Returns the base_psi of this Structure.
float	get_opacity () const
	Returns the opacity of this Structure.
float	get_log_prob () const
	Returns the log probability of this Structure.
float	get_log_prob_descend () const
	Returns the log probability of this Structure and all its descendents.
virtual const char *	get_type_str () const =0
	Returns the type of this Structure in the form of a string.
class Structure_density *	get_density () const
	Returns the density parameters used by this Structure.
void	set_apical (class Apical_structure *s)
	Sets the apical growth of this Structure.
void	add_lateral (class Lateral_structure *s)
	Adds a lateral growth to this Structure.
void	remove_lateral (class Lateral_structure *s) throw (jwscxx::base::Arg_error)
	Removes a lateral growth from this Structure.
void	set_size (float length, float width) throw (jwscxx::base::Arg_error)
	Sets the length and width of this Structure.
void	set_length (float length) throw (jwscxx::base::Arg_error)
	Sets the length of this Structure.
void	set_width (float width) throw (jwscxx::base::Arg_error)
	Sets the width of this Structure.
void	set_theta (float theta) throw (jwscxx::base::Arg_error)
	Sets the theta of this Structure.
void	set_base_theta (float base_theta) throw (jwscxx::base::Arg_error)
	Sets the base_theta of this Structure.
void	set_psi (float psi) throw (jwscxx::base::Arg_error)
	Sets the psi of this Structure.
void	set_base_psi (float base_psi) throw (jwscxx::base::Arg_error)
	Sets the base_psi of this Structure.
void	set_orientation (float theta, float psi) throw (jwscxx::base::Arg_error)
	Sets the orientation of this Structure.
void	set_base_orientation (float base_theta, float base_psi) throw (jwscxx::base::Arg_error)
	Sets the base orientation of this Structure.
void	set_opacity (float opacity) throw (jwscxx::base::Arg_error)
	Sets the opacity of this Structure.
virtual bool	draw_in_matblock_f (jwsc::Matblock_f *M_blk, float x, float y, float z, float x_scale, float y_scale, float z_scale, bool fill=true) const =0
	Draws this Structure in a matrix block.
bool	recursively_draw_in_matblock_f (jwsc::Matblock_f *M_blk, float x, float y, float z, float x_scale, float y_scale, float z_scale, bool fill=true) const
	Recursively draws this Structure and all its descendents in a matrix block.
Structure *	get_terminal_apical ()
	Draws this Structure in an OpenGL environment.
class Lateral_structure *	get_random_lateral () throw (jwscxx::base::Result_error)
	Returns a random Lateral_structure from Structure::laterals.
virtual float	get_intersection (jwsc::Vector_f *isect_out, uint32_t n, const jwsc::Vector_f p1_in, const jwsc::Vector_f *p2_in)=0 throw (jwscxx::base::Arg_error)
	Calculates an intersection point between a line and this Structure, if it exists.
virtual void	print (ostream &out=std::cout) const
	Prints this Structure to an output stream.
void	recursively_print (ostream &out=std::cout) const
	Prints this Structure and all its descendents to an output stream.
void	recursively_check_structure () const
	Checks the values for this Structure and all its descendents.
Protected Member Functions
void	update_angles () throw (jwscxx::base::Arg_error)
	Updates Structure::theta and Structure::psi.
void	update_R ()
	Updates Structure::R.
void	recursively_update_R ()
	Recursively updates Structure::R.
void	update_growth_dir_from_R ()
	Updates Structure::growth_dir.
void	update_growth_dir_and_length_from_pts () throw (jwscxx::base::Arg_error)
	Updates Structure::growth_dir and Structure::length.
void	update_centroid () throw (jwscxx::base::Arg_error)
	Updates Structure::centroid.
void	update_begin_pt ()
	Updates Structure::begin_pt.
void	update_end_pt ()
	Updates Structure::end_pt.
void	update_apical () throw (jwscxx::base::Arg_error)
	Updates the Structure::apical.
void	update_laterals () throw (jwscxx::base::Arg_error)
	Updates the Structure::laterals.
virtual void	update_log_prob ()
	Updates Structure::log_prob.
void	update_ancestry_log_prob ()
	Recursively updates the Structure::log_prob of this and ancestry Structure.
void	recursively_update_levels (int level_delta) throw (jwscxx::base::Result_error)
	Recursively updates Structure::level and all its descendants by level_delta.
void	check_length () const throw (jwscxx::base::Arg_error)
	Checks the length of this Structure against its density range.
void	check_width () const throw (jwscxx::base::Arg_error)
	Checks the width of this Structure against its density range.
void	check_theta () const throw (jwscxx::base::Arg_error)
	Checks the theta of this Structure against its density range.
void	check_base_theta () const throw (jwscxx::base::Arg_error)
	Checks the base_theta of this Structure against its limits.
void	check_psi () const throw (jwscxx::base::Arg_error)
	Checks the psi of this Structure against its density range.
void	check_base_psi () const throw (jwscxx::base::Arg_error)
	Checks the base_psi of this Structure against its limits.
void	check_opacity () const throw (jwscxx::base::Arg_error)
	Checks the opacity of this Structure against its density range.
virtual void	check_centroid () const =0 throw (jwscxx::base::Arg_error)
	Checks the centroid of this Structure against its density range.
bool	has_child_id (uint32_t id) const
	Checks an ID against this Structure immediate childrens'.
Protected Attributes
Structure *	parent
	Parent structure.
class Apical_structure *	apical
	Apical growth structure.
std::list< class Lateral_structure * >	laterals
	Lateral intra structures.
jwsc::Vector_f *	begin_pt
	Beginning point for growth.
jwsc::Vector_f *	end_pt
	Ending point for growth.
jwsc::Vector_f *	centroid
	Centroid position.
jwsc::Vector_f *	growth_dir
	Growth direction unit vector.
jwsc::Matrix_f *	R
	Cumulative rotation matrix including all ancestors.
class Structure_density *	density
	Parameters for density functions over this Structure.
double	log_prob
	Log probability of this Structure.
double	log_prob_descend
	Log probability of this Structure including all descendant growth.
float	length
	Length from ::begin_pt to ::end_pt.
float	width
	Width of the Structure.
float	theta
	Euler angle: rotation about the x-axis.
float	base_theta
	Euler angle: base rotation about the x-axis.
float	psi
	Euler angle: rotation about the z-axis.
float	base_psi
	Euler angle: base rotation about the z-axis.
float	opacity
	Opacity of pigment.
uint32_t	id
	Unique ID.
size_t	level
	Level in the tree.
Static Private Member Functions
static uint32_t	generate_id ()
	Generates a unique ID for a Structure.
Friends
class	Apical_structure
class	Lateral_structure

Detailed Description

An Alternaria structure element.

Abstract class providing some basic functionality for all Alternaria structure elements.

Definition at line 101 of file structure.h.

Constructor & Destructor Documentation

Structure::Structure	(	float	length,
		float	width,
		float	base_theta,
		float	base_psi,
		float	theta,
		float	psi,
		float	opacity,
		size_t	level,
		const class Structure_density *	density
	)		throw (jwscxx::base::Arg_error)

Constructs a Structure.

Parameters:

length	Length from the Structure::begin_pt to Structure::end_pt.
width	Width of the Structure.
base_theta	Euler angle: base rotation about the x-axis.
base_psi	Euler angle: base rotation about the z-axis.
theta	Euler angle: rotation about the x-axis.
psi	Euler angle: rotation about the z-axis.
opacity	Opacity of the Spore.
level	Level of the Structure.
density	Structure_density parameters for probabilities.

Exceptions:

jwscxx::base::Arg_error Structure values are not in the density parameter ranges.

Definition at line 396 of file structure.cpp.

Structure::Structure ( const Structure & s )

Constructs a Structure by copying another.

Parameters:

s	Structure to construct a new one from.

Definition at line 443 of file structure.cpp.

Structure::~Structure ( ) [virtual]

Deletes this Structure.

Frees all dynamically allocated members and all descendants.

Definition at line 479 of file structure.cpp.

Member Function Documentation

virtual Structure* Structure::clone ( ) const [pure virtual]

Clones this Structure.

Implemented in Apical_structure, Lateral_structure, Apical_hypha, Lateral_hypha, and Spore.

virtual Structure* Structure::recursively_clone ( ) const [pure virtual]

Recursively clones this Structure and all its descendents.

Implemented in Apical_structure, and Lateral_structure.

Structure & Structure::operator= ( const Structure & s ) [virtual]

Copies a Structure into this Structure.

Parameters:

s	Structure to copy.

Returns:: A reference to this Structure with s copied into it.

Definition at line 502 of file structure.cpp.

uint32_t Structure::get_id ( ) const [inline]

Returns the ID of this Structure.

Definition at line 142 of file structure.h.

Structure * Structure::get_root ( )

Returns the root ancestor for this Structure.

Returns:: Root ancestor for this Structure.

Definition at line 538 of file structure.cpp.

vector< Structure * > * Structure::get_descendants ( )

Returns a vector of all this structure and all its descendants.

Returns:: A vector of this structure and all its descendants.

Definition at line 548 of file structure.cpp.

class Apical_structure* Structure::get_apical ( ) [inline]

Returns the apical for this Structure.

Definition at line 157 of file structure.h.

std::list<class Lateral_structure*>& Structure::get_laterals ( ) [inline]

Returns the laterals for this Structure.

Definition at line 161 of file structure.h.

const jwsc::Vector_f* Structure::get_begin_pt ( ) const [inline]

Returns the growth beginning point of this Structure.

Definition at line 165 of file structure.h.

const jwsc::Vector_f* Structure::get_end_pt ( ) const [inline]

Returns the growth ending point of this Structure.

Definition at line 169 of file structure.h.

const jwsc::Vector_f* Structure::get_centroid ( ) const [inline]

Returns the centroid of this Structure.

Definition at line 173 of file structure.h.

const jwsc::Vector_f* Structure::get_growth_dir ( ) const [inline]

Returns the growth direction of this Structure.

Definition at line 177 of file structure.h.

Structure* Structure::get_parent ( ) const [inline]

Returns the parent of this Structure.

Definition at line 181 of file structure.h.

size_t Structure::get_level ( ) const [inline]

Returns the level of this Structure.

Definition at line 185 of file structure.h.

float Structure::get_length ( ) const [inline]

Returns the length of this Structure.

Definition at line 189 of file structure.h.

float Structure::get_width ( ) const [inline]

Returns the width of this Structure.

Definition at line 193 of file structure.h.

float Structure::get_theta ( ) const [inline]

Returns the theta of this Structure.

Definition at line 197 of file structure.h.

float Structure::get_base_theta ( ) const [inline]

Returns the base_theta of this Structure.

Definition at line 201 of file structure.h.

float Structure::get_psi ( ) const [inline]

Returns the psi of this Structure.

Definition at line 205 of file structure.h.

float Structure::get_base_psi ( ) const [inline]

Returns the base_psi of this Structure.

Definition at line 209 of file structure.h.

float Structure::get_opacity ( ) const [inline]

Returns the opacity of this Structure.

Definition at line 213 of file structure.h.

float Structure::get_log_prob ( ) const [inline]

Returns the log probability of this Structure.

Definition at line 217 of file structure.h.

float Structure::get_log_prob_descend ( ) const [inline]

Returns the log probability of this Structure and all its descendents.

Definition at line 224 of file structure.h.

virtual const char* Structure::get_type_str ( ) const [pure virtual]

Returns the type of this Structure in the form of a string.

Implemented in Apical_hypha, Lateral_hypha, and Spore.

class Structure_density* Structure::get_density ( ) const [inline]

Returns the density parameters used by this Structure.

Reimplemented in Lateral_structure, Apical_hypha, and Spore.

Definition at line 234 of file structure.h.

void Structure::set_apical ( class Apical_structure * s ) [inline]

Sets the apical growth of this Structure.

Definition at line 239 of file structure.h.

void Structure::add_lateral ( class Lateral_structure * s ) [inline]

Adds a lateral growth to this Structure.

Definition at line 244 of file structure.h.

void Structure::remove_lateral ( class Lateral_structure * s ) throw (jwscxx::base::Arg_error)

Removes a lateral growth from this Structure.

Definition at line 578 of file structure.cpp.

void Structure::set_size	(	float	length,
		float	width
	)		throw (jwscxx::base::Arg_error)

Sets the length and width of this Structure.

The length is changed by moving the Structure::end_pt along the Structure::growth_dir.

Parameters:

length	New Structure::length.
width	New Structure::width.

Exceptions:

jwscxx::base::Arg_error The change would result in a Structure parameter that is not consistent with the parameter density functions.

Definition at line 635 of file structure.cpp.

void Structure::set_length ( float length ) throw (jwscxx::base::Arg_error)

Sets the length of this Structure.

The length is changed by moving the Structure::end_pt along the Structure::growth_dir.

Parameters:

length New Structure::length.

Exceptions:

jwscxx::base::Arg_error The change would result in a Structure parameter that is not consistent with the parameter density functions.

Definition at line 605 of file structure.cpp.

void Structure::set_width ( float width ) throw (jwscxx::base::Arg_error)

Sets the width of this Structure.

Parameters:

width New Structure::width.

Exceptions:

jwscxx::base::Arg_error The change would result in a Structure parameter that is not consistent with the parameter density functions.

Definition at line 618 of file structure.cpp.

void Structure::set_theta ( float theta ) throw (jwscxx::base::Arg_error)

Sets the theta of this Structure.

Parameters:

theta New Structure:theta angle.

Exceptions:

jwscxx::base::Arg_error The change would result in a Structure parameter that is not consistent with the parameter density functions.

Definition at line 683 of file structure.cpp.

void Structure::set_base_theta ( float base_theta ) throw (jwscxx::base::Arg_error)

Sets the base_theta of this Structure.

Parameters:

base_theta New Structure:base_theta angle.

Exceptions:

jwscxx::base::Arg_error The change would result in a Structure parameter that is not consistent with the parameter density functions.

Definition at line 696 of file structure.cpp.

void Structure::set_psi ( float psi ) throw (jwscxx::base::Arg_error)

Sets the psi of this Structure.

Parameters:

psi	New Structure:psi angle.

Exceptions:

jwscxx::base::Arg_error The change would result in a Structure parameter that is not consistent with the parameter density functions.

Definition at line 709 of file structure.cpp.

void Structure::set_base_psi ( float base_psi ) throw (jwscxx::base::Arg_error)

Sets the base_psi of this Structure.

Parameters:

base_psi New Structure:base_psi angle.

Exceptions:

jwscxx::base::Arg_error The change would result in a Structure parameter that is not consistent with the parameter density functions.

Definition at line 722 of file structure.cpp.

void Structure::set_orientation	(	float	theta,
		float	psi
	)		throw (jwscxx::base::Arg_error)

Sets the orientation of this Structure.

Parameters:

theta	New Structure:theta angle.
psi	New Structure:psi angle.

Exceptions:

jwscxx::base::Arg_error The change would result in a Structure parameter that is not consistent with the parameter density functions.

Definition at line 736 of file structure.cpp.

void Structure::set_base_orientation	(	float	base_theta,
		float	base_psi
	)		throw (jwscxx::base::Arg_error)

Sets the base orientation of this Structure.

Parameters:

base_theta	New Structure:base_theta angle.
base_psi	New Structure:base_psi angle.

Exceptions:

jwscxx::base::Arg_error The change would result in a Structure parameter that is not consistent with the parameter density functions.

Definition at line 787 of file structure.cpp.

void Structure::set_opacity ( float opacity ) throw (jwscxx::base::Arg_error)

Sets the opacity of this Structure.

Parameters:

opacity New Structure::opacity.

Exceptions:

jwscxx::base::Arg_error The change results in a Structure parameter that is not consistent with the parameter density functions.

Definition at line 838 of file structure.cpp.

virtual bool Structure::draw_in_matblock_f	(	jwsc::Matblock_f *	M_blk,
		float	x,
		float	y,
		float	z,
		float	x_scale,
		float	y_scale,
		float	z_scale,
		bool	fill = `true`
	)		const `[pure virtual]`

Draws this Structure in a matrix block.

Implemented in Apical_hypha, Lateral_hypha, and Spore.

bool Structure::recursively_draw_in_matblock_f	(	jwsc::Matblock_f *	M_blk,
		float	x,
		float	y,
		float	z,
		float	x_scale,
		float	y_scale,
		float	z_scale,
		bool	fill = `true`
	)		const

Recursively draws this Structure and all its descendents in a matrix block.

Parameters:

M_blk	Matrix block to draw the Structure in.
x	Position of the first M_blk column index in the Structure coordinate system.
y	Position of the first M_blk row index in the Structure coordinate system.
z	Position of the first M_blk matrix index in the Structure coordinate system.
x_scale	Number of Structure coordinate system units per column.
y_scale	Number of Structure coordinate system units per row.
z_scale	Number of Structure coordinate system units per matrix.
fill	Set to 1 if the Structure is to be filled; 0 otherwise.

Returns:: True if any of the structures intersect with something other than one of its children.

Definition at line 888 of file structure.cpp.

Structure * Structure::get_terminal_apical ( )

Draws this Structure in an OpenGL environment.

Recursively draws this Structure and all its descendents in an OpenGL environment. Returns terminal apical descendent structure, possibly including this structure.

Parameters:

quad	GLUquadric to use for drawing.
scale	Number of GL units per structure coordinate system units. Recursively checks the apical descendents of this Structure. If there are no apical descendents, a pointer to this Structure is returned.

Definition at line 956 of file structure.cpp.

Lateral_structure * Structure::get_random_lateral ( ) throw (jwscxx::base::Result_error)

Returns a random Lateral_structure from Structure::laterals.

Uniformly samples a Lateral_structure from Structure::laterals.

Exceptions:

jwscxx::base::Result_error This Structure does not have any laterals.

Definition at line 975 of file structure.cpp.

virtual float Structure::get_intersection	(	jwsc::Vector_f **	isect_out,
		uint32_t	n,
		const jwsc::Vector_f *	p1_in,
		const jwsc::Vector_f *	p2_in
	)		throw (jwscxx::base::Arg_error) `[pure virtual]`

Calculates an intersection point between a line and this Structure, if it exists.

Implemented in Apical_hypha, Lateral_hypha, and Spore.

void Structure::print ( ostream & out = std::cout ) const [virtual]

Prints this Structure to an output stream.

The Structure::id are printed for the apical and laterals.

The format is as follows

     Structure: type name
            ID: id
         Level: level
      Centroid: x y z
        Length: length
         Width: width
    Base Theta: base_theta
      Base Psi: base_psi
         Theta: theta
           Psi: psi
       Opacity: opacity
        Parent: parent
        Apical: apical
      Laterals: L1 ... Ln
      Log Prob: logprob

Parameters:

out	Output stream to print to.

Reimplemented in Lateral_structure.

Definition at line 1022 of file structure.cpp.

void Structure::recursively_print ( ostream & out = std::cout ) const

Prints this Structure and all its descendents to an output stream.

Parameters:

out	Output stream to print to.

Definition at line 1065 of file structure.cpp.

void Structure::recursively_check_structure ( ) const

Checks the values for this Structure and all its descendents.

Recursively checks this and all descendants.

Definition at line 1082 of file structure.cpp.

void Structure::update_angles ( ) throw (jwscxx::base::Arg_error) [protected]

Updates Structure::theta and Structure::psi.

Depends on Structure::growth_dir and Structure::parent::R.

Exceptions:

jwscxx::base::Arg_error Updating the Structure values results in values that are out of density parameter ranges.

Definition at line 1140 of file structure.cpp.

void Structure::update_R ( ) [protected]

Updates Structure::R.

Depends on Structure::parent, Structure::theta, and Structure::psi.

Definition at line 1262 of file structure.cpp.

void Structure::recursively_update_R ( ) [protected]

Recursively updates Structure::R.

void Structure::update_growth_dir_from_R ( ) [protected]

Updates Structure::growth_dir.

Depends on Structure::R.

Definition at line 1282 of file structure.cpp.

void Structure::update_growth_dir_and_length_from_pts ( ) throw (jwscxx::base::Arg_error) [protected]

Updates Structure::growth_dir and Structure::length.

Depends on Structure::begin_pt and Structure::end_pt.

Definition at line 1292 of file structure.cpp.

void Structure::update_centroid ( ) throw (jwscxx::base::Arg_error) [protected]

Updates Structure::centroid.

Depends on Structure::length, Structure::begin_pt, and Structure::growth_dir.

Exceptions:

jwscxx::base::Arg_error Updating the Structure values results in values that are out of density parameter ranges.

Definition at line 1309 of file structure.cpp.

void Structure::update_begin_pt ( ) [protected]

Updates Structure::begin_pt.

Depends on Structure::length, Structure::centoid, and Structure::growth_dir.

Definition at line 1321 of file structure.cpp.

void Structure::update_end_pt ( ) [protected]

Updates Structure::end_pt.

Depends on Structure::length, Structure::centoid, and Structure::growth_dir.

Definition at line 1331 of file structure.cpp.

void Structure::update_apical ( ) throw (jwscxx::base::Arg_error) [protected]

Updates the Structure::apical.

Exceptions:

jwscxx::base::Arg_error Updating the Apical_structure values results in values that are out of density parameter ranges.

Definition at line 1343 of file structure.cpp.

void Structure::update_laterals ( ) throw (jwscxx::base::Arg_error) [protected]

Updates the Structure::laterals.

Exceptions:

jwscxx::base::Arg_error Updating the Apical_structure values results in values that are out of density parameter ranges.

Definition at line 1357 of file structure.cpp.

void Structure::update_log_prob ( ) [protected, virtual]

Updates Structure::log_prob.

Updated from the Structure and its apical and laterals.

Reimplemented in Apical_structure, Lateral_structure, Apical_hypha, and Spore.

Definition at line 1368 of file structure.cpp.

void Structure::update_ancestry_log_prob ( ) [protected]

Recursively updates the Structure::log_prob of this and ancestry Structure.

Recursively calls Structure::update_log_prob() on this and all ancestry Structure.

Definition at line 1449 of file structure.cpp.

void Structure::recursively_update_levels ( int level_delta ) throw (jwscxx::base::Result_error) [protected]

Recursively updates Structure::level and all its descendants by level_delta.

Parameters:

level_delta The amount to change the level of this Structure and all its descendants.

Exceptions:

jwscxx::base::Result_error Changing the level would result in a negative value.

Definition at line 1467 of file structure.cpp.

void Structure::check_length ( ) const throw (jwscxx::base::Arg_error) [protected]

Checks the length of this Structure against its density range.

Exceptions:

jwscxx::base::Arg_error Structure length is not in its density range.

Definition at line 1497 of file structure.cpp.

void Structure::check_width ( ) const throw (jwscxx::base::Arg_error) [protected]

Checks the width of this Structure against its density range.

Exceptions:

jwscxx::base::Arg_error Structure width is not in its density range.

Definition at line 1515 of file structure.cpp.

void Structure::check_theta ( ) const throw (jwscxx::base::Arg_error) [protected]

Checks the theta of this Structure against its density range.

Exceptions:

jwscxx::base::Arg_error Structure theta is not in its density range.

Definition at line 1533 of file structure.cpp.

void Structure::check_base_theta ( ) const throw (jwscxx::base::Arg_error) [protected]

Checks the base_theta of this Structure against its limits.

Exceptions:

jwscxx::base::Arg_error Structure theta is not in its density range.

Definition at line 1552 of file structure.cpp.

void Structure::check_psi ( ) const throw (jwscxx::base::Arg_error) [protected]

Checks the psi of this Structure against its density range.

Exceptions:

jwscxx::base::Arg_error Structure psi is not in its density range.

Definition at line 1571 of file structure.cpp.

void Structure::check_base_psi ( ) const throw (jwscxx::base::Arg_error) [protected]

Checks the base_psi of this Structure against its limits.

Exceptions:

jwscxx::base::Arg_error Structure psi is not in its density range.

Definition at line 1590 of file structure.cpp.

void Structure::check_opacity ( ) const throw (jwscxx::base::Arg_error) [protected]

Checks the opacity of this Structure against its density range.

Exceptions:

jwscxx::base::Arg_error Structure opacity is not in its density range.

Definition at line 1609 of file structure.cpp.

virtual void Structure::check_centroid ( ) const throw (jwscxx::base::Arg_error) [protected, pure virtual]

Checks the centroid of this Structure against its density range.

Implemented in Apical_structure, and Lateral_structure.

bool Structure::has_child_id ( uint32_t id ) const [protected]

Checks an ID against this Structure immediate childrens'.

Parameters:

id	Id to check.

Returns:: True if one of the children (apical or lateral) has the id.

Definition at line 1113 of file structure.cpp.

uint32_t Structure::generate_id ( ) [static, private]

Generates a unique ID for a Structure.

Definition at line 1624 of file structure.cpp.

Friends And Related Function Documentation

friend class Apical_structure [friend]

Reimplemented in Lateral_structure.

Definition at line 555 of file structure.h.

friend class Lateral_structure [friend]

Reimplemented in Apical_structure.

Definition at line 556 of file structure.h.

Member Data Documentation

Structure* Structure::parent [protected]

Parent structure.

Definition at line 486 of file structure.h.

class Apical_structure* Structure::apical [protected]

Apical growth structure.

Definition at line 489 of file structure.h.

std::list<class Lateral_structure*> Structure::laterals [protected]

Lateral intra structures.

Definition at line 492 of file structure.h.

jwsc::Vector_f* Structure::begin_pt [protected]

Beginning point for growth.

Definition at line 495 of file structure.h.

jwsc::Vector_f* Structure::end_pt [protected]

Ending point for growth.

Definition at line 498 of file structure.h.

jwsc::Vector_f* Structure::centroid [protected]

Centroid position.

Definition at line 501 of file structure.h.

jwsc::Vector_f* Structure::growth_dir [protected]

Growth direction unit vector.

Definition at line 504 of file structure.h.

jwsc::Matrix_f* Structure::R [protected]

Cumulative rotation matrix including all ancestors.

Definition at line 507 of file structure.h.

class Structure_density* Structure::density [protected]

Parameters for density functions over this Structure.

Reimplemented in Apical_structure, Lateral_structure, Apical_hypha, Lateral_hypha, and Spore.

Definition at line 510 of file structure.h.

double Structure::log_prob [protected]

Log probability of this Structure.

Definition at line 513 of file structure.h.

double Structure::log_prob_descend [protected]

Log probability of this Structure including all descendant growth.

Definition at line 519 of file structure.h.

float Structure::length [protected]

Length from ::begin_pt to ::end_pt.

Definition at line 522 of file structure.h.

float Structure::width [protected]

Width of the Structure.

Definition at line 525 of file structure.h.

float Structure::theta [protected]

Euler angle: rotation about the x-axis.

Definition at line 528 of file structure.h.

float Structure::base_theta [protected]

Euler angle: base rotation about the x-axis.

Definition at line 531 of file structure.h.

float Structure::psi [protected]

Euler angle: rotation about the z-axis.

Definition at line 534 of file structure.h.

float Structure::base_psi [protected]

Euler angle: base rotation about the z-axis.

Definition at line 537 of file structure.h.

float Structure::opacity [protected]

Opacity of pigment.

Definition at line 540 of file structure.h.

uint32_t Structure::id [protected]

Unique ID.

Definition at line 543 of file structure.h.

size_t Structure::level [protected]

Level in the tree.

Definition at line 546 of file structure.h.

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

Public Member Functions

Protected Member Functions

Protected Attributes

Static Private Member Functions

Friends

Detailed Description

Constructor & Destructor Documentation

Member Function Documentation

Friends And Related Function Documentation

Member Data Documentation