IMP  2.3.0
The Integrative Modeling Platform
IMP::kernel::PairContainer Class Referenceabstract

A shared container for Pairs. More...

#include <IMP/kernel/PairContainer.h>

+ Inheritance diagram for IMP::kernel::PairContainer:

Detailed Description

A shared container for Pairs.

Stores a shared collection of Pairs.

Definition at line 37 of file kernel/PairContainer.h.

Public Types

typedef kernel::ParticleIndexPair ContainedIndexType
 
typedef kernel::ParticleIndexPairs ContainedIndexTypes
 
typedef kernel::ParticlePair ContainedType
 
typedef kernel::ParticlePairsTemp ContainedTypes
 
typedef PairModifier Modifier
 
typedef const
kernel::ParticleIndexPair
PassContainedIndexType
 

Public Member Functions

void apply (const PairModifier *sm) const
 Apply a SingletonModifier to the contents. More...
 
void apply_generic (const PairModifier *m) const
 Just use apply() in the base class. More...
 
const kernel::ParticleIndexPairsget_contents () const
 
virtual kernel::ParticleIndexPairs get_indexes () const =0
 
unsigned int get_number_of_particle_pairs () const
 
kernel::ParticlePair get_particle_pair (unsigned int i) const
 
kernel::ParticlePairsTemp get_particle_pairs () const
 
virtual kernel::ParticleIndexPairs get_range_indexes () const =0
 
- Public Member Functions inherited from IMP::kernel::Container
ModelObjectsTemp do_get_outputs () const
 containers don't have outputs More...
 
virtual ParticleIndexes get_all_possible_indexes () const =0
 Get contained particles. More...
 
std::size_t get_contents_hash () const
 
virtual bool get_is_decomposable () const
 
- Public Member Functions inherited from IMP::kernel::ModelObject
 ModelObject (kernel::Model *m, std::string name)
 
bool get_has_dependencies () const
 Return whether this object has dependencies computed. More...
 
bool get_has_required_score_states () const
 Return whether score states are computed. More...
 
ModelObjectsTemp get_inputs () const
 
ModelObjectsTemps get_interactions () const
 Get the interacting sets induced by this ModelObject. More...
 
Modelget_model () const
 
ModelObjectsTemp get_outputs () const
 
const ScoreStatesTempget_required_score_states () const
 Get the score states that are ancestors of this in the dependency graph. More...
 
void set_has_dependencies (bool tf)
 Either invalidate the dependencies or ensure they are correct. More...
 
void set_has_required_score_states (bool tf)
 Compute the required score states. More...
 
- Public Member Functions inherited from IMP::base::Object
virtual void clear_caches ()
 
CheckLevel get_check_level () const
 
LogLevel get_log_level () const
 
virtual VersionInfo get_version_info () const
 Get information about the module and version of the object. More...
 
void set_check_level (CheckLevel l)
 
void set_log_level (LogLevel l)
 Set the logging level used in this object. More...
 
void set_was_used (bool tf) const
 
void show (std::ostream &out=std::cout) const
 
const std::string & get_name () const
 
void set_name (std::string name)
 
virtual std::string get_type_name () const
 

Protected Member Functions

 PairContainer (kernel::Model *m, std::string name="PairContainer %1%")
 
virtual void do_apply (const PairModifier *sm) const =0
 
virtual bool do_get_provides_access () const
 
- Protected Member Functions inherited from IMP::kernel::Container
 Container (kernel::Model *m, std::string name="Container %1%")
 
virtual std::size_t do_get_contents_hash () const =0
 
- Protected Member Functions inherited from IMP::kernel::ModelObject
virtual ModelObjectsTemp do_get_inputs () const =0
 
virtual ModelObjectsTemps do_get_interactions () const
 
virtual void handle_set_has_required_score_states (bool)
 
- Protected Member Functions inherited from IMP::base::Object
 Object (std::string name)
 Construct an object with the given name. More...
 
virtual void do_destroy ()
 

Member Function Documentation

void IMP::kernel::PairContainer::apply ( const PairModifier sm) const

Apply a SingletonModifier to the contents.

void IMP::kernel::PairContainer::apply_generic ( const PairModifier m) const

Just use apply() in the base class.

virtual kernel::ParticleIndexPairs IMP::kernel::PairContainer::get_indexes ( ) const
pure virtual
unsigned int IMP::kernel::PairContainer::get_number_of_particle_pairs ( ) const
Deprecated:
As of IMP release 2.1. See the IMP Deprecation Policy for more information about deprecation in IMP. This can be very slow and is probably not useful
kernel::ParticlePair IMP::kernel::PairContainer::get_particle_pair ( unsigned int  i) const
Deprecated:
As of IMP release 2.1. See the IMP Deprecation Policy for more information about deprecation in IMP.Use get_indexes() instead and thing about using the IMP_CONTAINER_FOREACH() macro.
kernel::ParticlePairsTemp IMP::kernel::PairContainer::get_particle_pairs ( ) const
Deprecated:
As of IMP release 2.1. See the IMP Deprecation Policy for more information about deprecation in IMP. Use get_indexes() instead.
virtual kernel::ParticleIndexPairs IMP::kernel::PairContainer::get_range_indexes ( ) const
pure virtual

Get all the indexes that might possibly be contained in the container, useful with dynamic containers. For example, with a container::ClosePairContainer, this is the list of all pairs taken from input list (those that are far apart in addition to those that are close).

Implemented in IMP::container::ExclusiveConsecutivePairContainer, IMP::container::ClosePairContainer, IMP::container::CloseBipartitePairContainer, IMP::container::ConnectingPairContainer, IMP::container::ConsecutivePairContainer, IMP::container::AllBipartitePairContainer, IMP::atom::BondPairContainer, and IMP::container::AllPairContainer.


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