Detailed Description

A decorator for a particle that represents a slab containing a toroidal pore

Definition at line 24 of file SlabWithToroidalPore.h.

Public Member Functions
	SlabWithToroidalPore (::IMP::Model *m,::IMP::ParticleIndex id)

	SlabWithToroidalPore (const IMP::ParticleAdaptor &d)

double	get_horizontal_minor_radius () const

double	get_minor_radius_h2v_aspect_ratio () const

double	get_vertical_minor_radius () const

void	set_horizontal_minor_radius (double rh)

void	set_minor_radius_h2v_aspect_ratio (double aspect_ratio)

void	set_vertical_minor_radius (double rv)

void	show (std::ostream &out=std::cout) const

Public Member Functions inherited from IMP::npctransport::SlabWithPore
	SlabWithPore (::IMP::Model *m,::IMP::ParticleIndex id)

	SlabWithPore (const IMP::ParticleAdaptor &d)

void	add_to_pore_radius_derivative (double v, DerivativeAccumulator &d)

Float	get_pore_radius () const
	get cylindrical pore radius More...

bool	get_pore_radius_is_optimized () const

Float	get_thickness () const
	returns whether the particle last entered the transport moiety from its More...

void	set_pore_radius (double r) const
	set cylindrical pore radius More...

void	set_pore_radius_is_optimized (bool tf) const
	Set whether the coordinates are optimized. More...

void	set_thickness (double thickness)
	sets slab thickness More...

void	show (std::ostream &out=std::cout) const

Public Member Functions inherited from IMP::Decorator
bool	get_is_valid () const
	Returns true if constructed with a non-default constructor. More...

Model *	get_model () const
	Returns the Model containing the particle. More...

Particle *	get_particle () const
	Returns the particle decorated by this decorator. More...

ParticleIndex	get_particle_index () const
	Returns the particle index decorated by this decorator. More...

	operator Particle * () const

	operator ParticleIndex () const

Particle *	operator-> () const

Static Public Member Functions
static bool	get_is_setup (const IMP::ParticleAdaptor &p)

static bool	get_is_setup (Model *m, ParticleIndex pi)
	Return true if the particle is an instance of SlabWithToroidalPore. More...

static FloatKey	get_minor_radius_h2v_aspect_ratio_key ()
	Get the decorator key for the ratio between horizontal and vertical aspect ratio. More...

static IntKey	get_toroidal_pore_key ()
	Get the decorator key indicating a toroidal pore. More...

static SlabWithToroidalPore	setup_particle (Model *m, ParticleIndex pi, double thickness, double major_radius)

static SlabWithToroidalPore	setup_particle (IMP::ParticleAdaptor pa, double thickness, double major_radius)

static SlabWithToroidalPore	setup_particle (Model *m, ParticleIndex pi, double thickness, double major_radius, double minor_radius_h2v_aspect_ratio)

static SlabWithToroidalPore	setup_particle (IMP::ParticleAdaptor pa, double thickness, double major_radius, double minor_radius_h2v_aspect_ratio)

Static Public Member Functions inherited from IMP::npctransport::SlabWithPore
static bool	get_is_setup (const IMP::ParticleAdaptor &p)

static bool	get_is_setup (Model *m, ParticleIndex pi)
	Return true if the particle is an instance of SlabWithPore. More...

static FloatKey	get_pore_radius_key ()
	Get the key for the pore radius. More...

static FloatKey	get_thickness_key ()
	Get the decorator key for is_last_entry_from_top. More...

static SlabWithPore	setup_particle (IMP::ParticleAdaptor pa, double thickness, double pore_radius)

static SlabWithPore	setup_particle (Model *m, ParticleIndex pi, double thickness, double pore_radius)

Additional Inherited Members
Protected Member Functions inherited from IMP::Decorator
	Decorator (Model *m, ParticleIndex pi)

	Decorator (ParticleAdaptor p)

Member Function Documentation

static bool IMP::npctransport::SlabWithToroidalPore::get_is_setup	(	Model *	m,
		ParticleIndex	pi
	)

static

Return true if the particle is an instance of SlabWithToroidalPore.

Definition at line 96 of file SlabWithToroidalPore.h.

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static FloatKey IMP::npctransport::SlabWithToroidalPore::get_minor_radius_h2v_aspect_ratio_key ( )

static

Get the decorator key for the ratio between horizontal and vertical aspect ratio.

static IntKey IMP::npctransport::SlabWithToroidalPore::get_toroidal_pore_key ( )

static

Get the decorator key indicating a toroidal pore.

static SlabWithToroidalPore IMP::npctransport::SlabWithToroidalPore::setup_particle	(	IMP::ParticleAdaptor	pa,
		double	thickness,
		double	major_radius
	)

static

Returns: a SlabWithToroidalPore object that decorates the particle specified by pa

See Also: setup_particle(m, p, thickness , major_radius )

Definition at line 70 of file SlabWithToroidalPore.h.

static SlabWithToroidalPore IMP::npctransport::SlabWithToroidalPore::setup_particle	(	Model *	m,
		ParticleIndex	pi,
		double	thickness,
		double	major_radius
	)

static

Decorate a particle that represents a slab (e.g. nuclear envelope) with specified thickness and a toroidal pore of specified major radius and minor radius of 0.5*thickness, with equal horizontal and vertical minor radii.

The slab is parallel to the x,y plain from z=-0.5*thickness to z=0.5*thickness, and the central axis of the pore lies on the origin.

Parameters

m	the model
pi	the particle index
thickness	slab thickness, also twice the minor radius
major_radius	pore major radius

Returns: a SlabWithToroidalPore object that decorates particle pi

Definition at line 70 of file SlabWithToroidalPore.h.

static SlabWithToroidalPore IMP::npctransport::SlabWithToroidalPore::setup_particle	(	IMP::ParticleAdaptor	pa,
		double	thickness,
		double	major_radius,
		double	minor_radius_h2v_aspect_ratio
	)

static

Returns: a SlabWithToroidalPore object that decorates the particle specified by pa

See Also: setup_particle(m, pi, thickness , major_radius , minor_radius_h2v_aspect_ratio )

Definition at line 93 of file SlabWithToroidalPore.h.

static SlabWithToroidalPore IMP::npctransport::SlabWithToroidalPore::setup_particle	(	Model *	m,
		ParticleIndex	pi,
		double	thickness,
		double	major_radius,
		double	minor_radius_h2v_aspect_ratio
	)

static

Decorate a particle that represents a slab (e.g. nuclear envelope) with specified thickness and a toroidal pore of specified major radius and minor radius of 0.5*thickness, and specified ratio between horizontal and vertical minor radii.

The slab is parallel to the x,y plain from z=-0.5*thickness to z=0.5*thickness, and the central axis of the pore lies on the origin.

Parameters

m	the model
pi	the particle index
thickness	slab thickness, also twice the vertical minor radius
major_radius	pore major radius
minor_radius_h2v_aspect_ratio	ratio between horizontal and vertical minor radius

Returns: a SlabWithToroidalPore object that decorates particle pi

Definition at line 93 of file SlabWithToroidalPore.h.

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

SlabWithToroidalPore.h

Detailed Description

Public Member Functions

Static Public Member Functions

Additional Inherited Members

Member Function Documentation