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NCBI C++ ToolKit: CConformation_ensemble_Base Class Reference
Correlated disorder ensemble is defined by a set of alternate conformation id's which identify coordinates relevant to that ensemble. More...
CConformation_ensemble_Base (void) virtual ~CConformation_ensemble_Base (void) DECLARE_INTERNAL_TYPE_INFO () bool IsSetName (void) const Check if a value has been assigned to Name data member. More...
bool CanGetName (void) const Check if it is safe to call GetName method. More...
void ResetName (void) Reset Name data member. More...
const TName & GetName (void) const Get the Name member data. More...
void SetName (const TName &value) Assign a value to Name data member. More...
void SetName (TName &&value) TName & SetName (void) Assign a value to Name data member. More...
bool IsSetAlt_conf_ids (void) const Check if a value has been assigned to Alt_conf_ids data member. More...
bool CanGetAlt_conf_ids (void) const Check if it is safe to call GetAlt_conf_ids method. More...
void ResetAlt_conf_ids (void) Reset Alt_conf_ids data member. More...
const TAlt_conf_ids & GetAlt_conf_ids (void) const Get the Alt_conf_ids member data. More...
TAlt_conf_ids & SetAlt_conf_ids (void) Assign a value to Alt_conf_ids data member. More...
virtual void Reset (void) Reset the whole object. More...
CSerialObject (void) virtual ~CSerialObject (void) virtual const CTypeInfo * GetThisTypeInfo (void) const =0 virtual void Assign (const CSerialObject &source, ESerialRecursionMode how=eRecursive) Set object to copy of another one. More...
virtual bool Equals (const CSerialObject &object, ESerialRecursionMode how=eRecursive) const Check if both objects contain the same values. More...
virtual void DebugDump (CDebugDumpContext ddc, unsigned int depth) const Define method for dumping debug information. More...
void ThrowUnassigned (TMemberIndex index) const void ThrowUnassigned (TMemberIndex index, const char *file_name, int file_line) const bool HasNamespaceName (void) const Check if object data type has namespace name. More...
const string & GetNamespaceName (void) const Get namespace name. More...
bool HasNamespacePrefix (void) const Check if data type has namespace prefix. More...
const string & GetNamespacePrefix (void) const Get namespace prefix. More...
CObject (void) Constructor. More...
CObject (const CObject &src) Copy constructor. More...
virtual ~CObject (void) Destructor. More...
CObject & operator= (const CObject &src) THROWS_NONE Assignment operator. More...
bool CanBeDeleted (void) const THROWS_NONE Check if object can be deleted. More...
bool IsAllocatedInPool (void) const THROWS_NONE Check if object is allocated in memory pool (not system heap) More...
bool Referenced (void) const THROWS_NONE Check if object is referenced. More...
bool ReferencedOnlyOnce (void) const THROWS_NONE Check if object is referenced only once. More...
void AddReference (void) const Add reference to object. More...
void RemoveReference (void) const Remove reference to object. More...
void ReleaseReference (void) const Remove reference without deleting object. More...
virtual void DoNotDeleteThisObject (void) Mark this object as not allocated in heap – do not delete this object. More...
virtual void DoDeleteThisObject (void) Mark this object as allocated in heap – object can be deleted. More...
void * operator new (size_t size) Define new operator for memory allocation. More...
void * operator new[] (size_t size) Define new[] operator for 'array' memory allocation. More...
void operator delete (void *ptr) Define delete operator for memory deallocation. More...
void operator delete[] (void *ptr) Define delete[] operator for memory deallocation. More...
void * operator new (size_t size, void *place) Define new operator. More...
void operator delete (void *ptr, void *place) Define delete operator. More...
void * operator new (size_t size, CObjectMemoryPool *place) Define new operator using memory pool. More...
void operator delete (void *ptr, CObjectMemoryPool *place) Define delete operator. More...
CDebugDumpable (void) virtual ~CDebugDumpable (void) void DebugDumpText (ostream &out, const string &bundle, unsigned int depth) const void DebugDumpFormat (CDebugDumpFormatter &ddf, const string &bundle, unsigned int depth) const void DumpToConsole (void) const
Correlated disorder ensemble is defined by a set of alternate conformation id's which identify coordinates relevant to that ensemble.
These are defined from the validated and corrected contents of the PDB "alternate conformation" field as described above. A given ensemble, for example, may consist of atom sites flagged by " " and "A" Alternate-conformation-ids. Names for ensembles are constructed from these flags. This example would be named, in its description, "PDB Ensemble blank plus A". Note that this interpretation is consistent with common PDB usage of the "alternate conformation" field, but that PDB specifications do not formally distinguish between correlated and uncorrelated disorder in crystallographic models. Ensembles identified in MMDB thus may not correspond to the meaning intended by PDB or the depositor. No information is lost, however, and if the intended meaning is known alternative ensemble descriptions may be reconstructed directly from the Alternate-conformation-ids. Note that correlated disorder as defined here is allowed within an atomic coordinate set but not between the multiple sets which may define a model. Multiple sets within the same model are intended as a means to represent assemblies modeled from different experimentally determined structures, where correlated disorder between coordinate sets is not relevant.
CConformation_ensemble_Base –
Definition at line 93 of file Conformation_ensemble_.hpp.
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