IMP  2.4.0
The Integrative Modeling Platform
kernel/QuadContainer.h
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1 /**
2  * \file IMP/kernel/QuadContainer.h
3  * \brief A container for Quads.
4  *
5  * WARNING This file was generated from QuadContainer.h
6  * in /tmp/nightly-build-65532/imp-2.4.0/tools/build/container_templates/kernel
7  * by tools/build/make_containers.py.
8  *
9  * Copyright 2007-2015 IMP Inventors. All rights reserved.
10  */
11 
12 #ifndef IMPKERNEL_QUAD_CONTAINER_H
13 #define IMPKERNEL_QUAD_CONTAINER_H
14 
15 #include <IMP/kernel/kernel_config.h>
16 #include "internal/IndexingIterator.h"
17 #include "Particle.h"
18 #include "container_base.h"
19 #include "internal/container_helpers.h"
20 #include "DerivativeAccumulator.h"
21 #include "ParticleTuple.h"
23 #include <IMP/base/check_macros.h>
24 #include <IMP/base/Pointer.h>
25 #include <IMP/base/InputAdaptor.h>
28 #include <algorithm>
29 
30 IMPKERNEL_BEGIN_NAMESPACE
31 class QuadModifier;
32 class QuadScore;
33 
34 //! A shared container for Quads
35 /** Stores a shared collection of Quads.
36  */
37 class IMPKERNELEXPORT QuadContainer : public Container {
38  public:
43  typedef QuadModifier Modifier;
45 
46  //! Just use apply() in the base class
47  void apply_generic(const QuadModifier *m) const;
48 
49  //! Apply a SingletonModifier to the contents
50  void apply(const QuadModifier *sm) const;
51 
52  /** Get all the indexes that might possibly be contained in the
53  container, useful with dynamic containers. For example,
54  with a container::ClosePairContainer, this is the list
55  of all pairs taken from input list (those that are far apart
56  in addition to those that are close).
57  */
58  virtual kernel::ParticleIndexQuads get_range_indexes() const = 0;
59 
60  const kernel::ParticleIndexQuads &get_contents() const {
61  if (get_provides_access())
62  return get_access();
63  else {
64  std::size_t nhash = get_contents_hash();
65  if (contents_hash_ != nhash || !cache_initialized_) {
66  contents_hash_ = nhash;
67  cache_initialized_ = true;
68  contents_cache_ = get_indexes();
69  }
70  return contents_cache_;
71  }
72  }
73 
74  /** Get all the indexes contained in the container.
75 
76  This should be protected but isn't for compatibility reasons.
77 
78  External callers should use get_contents().
79  */
80  virtual kernel::ParticleIndexQuads get_indexes() const = 0;
81 
82 #ifndef IMP_DOXYGEN
83 
84  kernel::ParticleQuadsTemp get() const {
85  return IMP::kernel::internal::get_particle(get_model(), get_indexes());
86  }
87 
88  kernel::ParticleQuad get(unsigned int i) const {
89  return IMP::kernel::internal::get_particle(get_model(), get_indexes()[i]);
90  }
91  unsigned int get_number() const { return get_indexes().size(); }
92 #ifndef SWIG
93  bool get_provides_access() const;
94  virtual const kernel::ParticleIndexQuads &get_access() const {
95  IMP_THROW("Object not implemented properly.", base::IndexException);
96  }
97 
98  template <class Functor>
99  Functor for_each(Functor f) {
101  // use boost range instead
102  return std::for_each(vs.begin(), vs.end(), f);
103  }
104 
105 #endif
106 #endif
107 
108  /** \deprecated_at{2.1} Use get_indexes() instead.
109  */
110  kernel::ParticleQuadsTemp get_particle_quads() const;
111 
112  /** \deprecated_at{2.1} This can be very slow and is probably not useful
113  */
114  IMPKERNEL_DEPRECATED_METHOD_DECL(2.1)
115  unsigned int get_number_of_particle_quads() const;
116 
117  /** \deprecated_at{2.1}Use get_indexes() instead and thing about using the
118  IMP_CONTAINER_FOREACH() macro.*/
119  IMPKERNEL_DEPRECATED_METHOD_DECL(2.1)
120  kernel::ParticleQuad get_particle_quad(unsigned int i) const;
121 
122  protected:
124  std::string name = "QuadContainer %1%");
125 
126  virtual void do_apply(const QuadModifier *sm) const = 0;
127  virtual bool do_get_provides_access() const { return false; }
128 
130 
131  private:
132  mutable std::size_t contents_hash_;
133  mutable kernel::ParticleIndexQuads contents_cache_;
134  mutable bool cache_initialized_;
135 };
136 
137 /** This class allows either a list or a container to be
138  accepted as input.
139 */
140 class IMPKERNELEXPORT QuadContainerAdaptor :
141 #if !defined(SWIG) && !defined(IMP_DOXYGEN)
142  public base::Pointer<QuadContainer>
143 #else
144  public base::InputAdaptor
145 #endif
146  {
148 
149  public:
151 
152  /**
153  Constructs the adaptor pointing to c (so if the contents of c are changed
154  dynamically, so do the contents of the adaptor, and vice versa)
155  */
157 
158  /**
159  Constructs the adaptor pointing to c (so if the contents of c are changed
160  dynamically, so do the contents of the adaptor, and vice versa)
161  */
162  template <class C>
163  QuadContainerAdaptor(base::internal::PointerBase<C> c)
164  : P(c) {}
165 
166  /**
167  Adapts the non-empty list t to QuadContainer
168 
169  @param t a non-empty list of kernel::ParticleQuadsTemp
170  */
172 
173  /** Set the name of the resulting container if it is currently the
174  default value. */
175  void set_name_if_default(std::string name);
176 };
177 
178 IMPKERNEL_END_NAMESPACE
179 
180 #endif /* IMPKERNEL_QUAD_CONTAINER_H */
std::size_t get_contents_hash() const
An exception for a request for an invalid member of a container.
Definition: exception.h:147
Class for adding derivatives from restraints to the model.
Control display of deprecation information.
ParticleIndexes get_indexes(const ParticlesTemp &ps)
Various general useful macros for IMP.
Abstract base class for containers of particles.
A shared container for Quads.
QuadContainerAdaptor(base::internal::PointerBase< C > c)
IMP::kernel::QuadContainer QuadContainer
A smart pointer to a reference counted object.
Definition: Pointer.h:87
IMP::kernel::QuadScore QuadScore
IMP::kernel::QuadModifier QuadModifier
Basic types used by IMP.
Abstract class for containers of particles.
Various general useful macros for IMP.
Classes to handle individual model particles. (Note that implementation of inline functions in in int...
Classes to handle individual model particles.
#define IMP_THROW(message, exception_name)
Throw an exception with a message.
Definition: check_macros.h:50
A nullptr-initialized pointer to an IMP Object.
Exception definitions and assertions.
#define IMP_REF_COUNTED_NONTRIVIAL_DESTRUCTOR(Name)
A base class for modifiers of kernel::ParticleQuadsTemp.
Class for storing model, its restraints, constraints, and particles.
Definition: kernel/Model.h:73