IMP::npctransport::SlabWithPore Class Reference

#include <IMP/npctransport/SlabWithPore.h>

Inheritance diagram for IMP::npctransport::SlabWithPore:

Detailed Description

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

Definition at line 23 of file SlabWithPore.h.

Public Member Functions
	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 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

void IMP::npctransport::SlabWithPore::add_to_pore_radius_derivative	(	double	v,
		DerivativeAccumulator &	d
	)

add v to the derivative of the cylindrical pore radius, using derivative accumulator d

Definition at line 102 of file SlabWithPore.h.

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

static

Return true if the particle is an instance of SlabWithPore.

Definition at line 73 of file SlabWithPore.h.

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Float IMP::npctransport::SlabWithPore::get_pore_radius

(

)

const

get cylindrical pore radius

Definition at line 91 of file SlabWithPore.h.

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static FloatKey IMP::npctransport::SlabWithPore::get_pore_radius_key ( )

static

Get the key for the pore radius.

Float IMP::npctransport::SlabWithPore::get_thickness

(

)

const

returns whether the particle last entered the transport moiety from its

Definition at line 86 of file SlabWithPore.h.

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static FloatKey IMP::npctransport::SlabWithPore::get_thickness_key ( )

static

Get the decorator key for is_last_entry_from_top.

void IMP::npctransport::SlabWithPore::set_pore_radius

(

double

r

)

const

set cylindrical pore radius

Definition at line 96 of file SlabWithPore.h.

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void IMP::npctransport::SlabWithPore::set_pore_radius_is_optimized

(

bool

tf

)

const

Set whether the coordinates are optimized.

Definition at line 110 of file SlabWithPore.h.

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void IMP::npctransport::SlabWithPore::set_thickness

(

double

thickness

)

sets slab thickness

Definition at line 79 of file SlabWithPore.h.

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

static

Returns

a SlabWithPore object that decorates the particle specified by pa

See Also

setup_particle(m, p, thickness , pore_radius )

Definition at line 70 of file SlabWithPore.h.

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

static

Decorate a particle that represents a slab (e.g. nuclear envelope) with specified thickness and a cylindrical pore of specified pore_radius.

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
pore_radius	pore radius

Note

the pore radius is initially not optimizable

Returns

a SlabWithPore object that decorates particle pi

Definition at line 70 of file SlabWithPore.h.

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

• SlabWithPore.h