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IMP Reference Guide  2.19.0
The Integrative Modeling Platform
IMP::atom::SecondaryStructureResidue Class Reference

A decorator for a residue with probability of secondary structure. More...

#include <IMP/atom/SecondaryStructureResidue.h>

+ Inheritance diagram for IMP::atom::SecondaryStructureResidue:

Detailed Description

A decorator for a residue with probability of secondary structure.

Contains probabilities for each sse type (helix, strand, coil)

Definition at line 27 of file SecondaryStructureResidue.h.

Public Member Functions

 SecondaryStructureResidue (::IMP::Model *m,::IMP::ParticleIndex id)
 
 SecondaryStructureResidue (const IMP::ParticleAdaptor &d)
 
Floats get_all_probabilities ()
 Return all probabilities in one vector. More...
 
Particleget_particle () const
 
Float get_prob_coil () const
 
Float get_prob_helix () const
 
Float get_prob_strand () const
 
void set_prob_coil (Float t)
 
void set_prob_helix (Float t)
 
void set_prob_strand (Float t)
 
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...
 
Modelget_model () const
 Returns the Model containing the particle. More...
 
Particleget_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
 
Particleoperator-> () 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 a secondary structure residue. More...
 
static FloatKey get_prob_coil_key ()
 
static FloatKey get_prob_helix_key ()
 
static FloatKey get_prob_strand_key ()
 
static SecondaryStructureResidue setup_particle (Model *m, ParticleIndex pi, Float prob_helix, Float prob_strand, Float prob_coil)
 
static SecondaryStructureResidue setup_particle (IMP::ParticleAdaptor pa, Float prob_helix, Float prob_strand, Float prob_coil)
 
static SecondaryStructureResidue setup_particle (Particle *res_p)
 Set up SecondaryStructureResidue with default probabilities. More...
 

Additional Inherited Members

- Protected Member Functions inherited from IMP::Decorator
 Decorator (Model *m, ParticleIndex pi)
 
 Decorator (ParticleAdaptor p)
 

Member Function Documentation

Floats IMP::atom::SecondaryStructureResidue::get_all_probabilities ( )

Return all probabilities in one vector.

Definition at line 70 of file SecondaryStructureResidue.h.

static bool IMP::atom::SecondaryStructureResidue::get_is_setup ( Model m,
ParticleIndex  pi 
)
static

Return true if the particle is a secondary structure residue.

Definition at line 59 of file SecondaryStructureResidue.h.

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Float IMP::atom::SecondaryStructureResidue::get_prob_coil ( ) const

returns the value of the prob_coil attribute, or 0.333 if \ the prob_coil attribute is missing

Definition at line 83 of file SecondaryStructureResidue.h.

Float IMP::atom::SecondaryStructureResidue::get_prob_helix ( ) const

returns the value of the prob_helix attribute, or 0.333 if \ the prob_helix attribute is missing

Definition at line 79 of file SecondaryStructureResidue.h.

Float IMP::atom::SecondaryStructureResidue::get_prob_strand ( ) const

returns the value of the prob_strand attribute, or 0.333 if \ the prob_strand attribute is missing

Definition at line 81 of file SecondaryStructureResidue.h.

void IMP::atom::SecondaryStructureResidue::set_prob_coil ( Float  t)

sets the prob_coil attribute to t

Definition at line 83 of file SecondaryStructureResidue.h.

void IMP::atom::SecondaryStructureResidue::set_prob_helix ( Float  t)

sets the prob_helix attribute to t

Definition at line 79 of file SecondaryStructureResidue.h.

void IMP::atom::SecondaryStructureResidue::set_prob_strand ( Float  t)

sets the prob_strand attribute to t

Definition at line 81 of file SecondaryStructureResidue.h.

static SecondaryStructureResidue IMP::atom::SecondaryStructureResidue::setup_particle ( Model m,
ParticleIndex  pi,
Float  prob_helix,
Float  prob_strand,
Float  prob_coil 
)
static
Returns
a SecondaryStructureResidue object that decorates particle pi

Definition at line 47 of file SecondaryStructureResidue.h.

static SecondaryStructureResidue IMP::atom::SecondaryStructureResidue::setup_particle ( IMP::ParticleAdaptor  pa,
Float  prob_helix,
Float  prob_strand,
Float  prob_coil 
)
static
Returns
a SecondaryStructureResidue object that decorates the particle specified by pa
See Also
setup_particle(m, pi, prob_helix , prob_strand , prob_coil )

Definition at line 47 of file SecondaryStructureResidue.h.

static SecondaryStructureResidue IMP::atom::SecondaryStructureResidue::setup_particle ( Particle res_p)
static

Set up SecondaryStructureResidue with default probabilities.

Definition at line 50 of file SecondaryStructureResidue.h.


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