Search Toolkit Book for CAtomic_coordinates

#include <objects/mmdb2/Atomic_coordinates.hpp>

Inheritance diagram for CAtomic_coordinates:

Collaboration diagram for CAtomic_coordinates:

Public Member Functions
	CAtomic_coordinates (void)

	~CAtomic_coordinates (void)

Public Member Functions inherited from CAtomic_coordinates_Base
	CAtomic_coordinates_Base (void)

virtual	~CAtomic_coordinates_Base (void)

	DECLARE_INTERNAL_TYPE_INFO ()

bool	IsSetNumber_of_points (void) const
	Check if a value has been assigned to Number_of_points data member. More...

bool	CanGetNumber_of_points (void) const
	Check if it is safe to call GetNumber_of_points method. More...

void	ResetNumber_of_points (void)
	Reset Number_of_points data member. More...

TNumber_of_points	GetNumber_of_points (void) const
	Get the Number_of_points member data. More...

void	SetNumber_of_points (TNumber_of_points value)
	Assign a value to Number_of_points data member. More...

TNumber_of_points &	SetNumber_of_points (void)
	Assign a value to Number_of_points data member. More...

bool	IsSetAtoms (void) const
	Check if a value has been assigned to Atoms data member. More...

bool	CanGetAtoms (void) const
	Check if it is safe to call GetAtoms method. More...

void	ResetAtoms (void)
	Reset Atoms data member. More...

const TAtoms &	GetAtoms (void) const
	Get the Atoms member data. More...

void	SetAtoms (TAtoms &value)
	Assign a value to Atoms data member. More...

TAtoms &	SetAtoms (void)
	Assign a value to Atoms data member. More...

bool	IsSetSites (void) const
	Check if a value has been assigned to Sites data member. More...

bool	CanGetSites (void) const
	Check if it is safe to call GetSites method. More...

void	ResetSites (void)
	Reset Sites data member. More...

const TSites &	GetSites (void) const
	Get the Sites member data. More...

void	SetSites (TSites &value)
	Assign a value to Sites data member. More...

TSites &	SetSites (void)
	Assign a value to Sites data member. More...

bool	IsSetTemperature_factors (void) const
	Check if a value has been assigned to Temperature_factors data member. More...

bool	CanGetTemperature_factors (void) const
	Check if it is safe to call GetTemperature_factors method. More...

void	ResetTemperature_factors (void)
	Reset Temperature_factors data member. More...

const TTemperature_factors &	GetTemperature_factors (void) const
	Get the Temperature_factors member data. More...

void	SetTemperature_factors (TTemperature_factors &value)
	Assign a value to Temperature_factors data member. More...

TTemperature_factors &	SetTemperature_factors (void)
	Assign a value to Temperature_factors data member. More...

bool	IsSetOccupancies (void) const
	Check if a value has been assigned to Occupancies data member. More...

bool	CanGetOccupancies (void) const
	Check if it is safe to call GetOccupancies method. More...

void	ResetOccupancies (void)
	Reset Occupancies data member. More...

const TOccupancies &	GetOccupancies (void) const
	Get the Occupancies member data. More...

void	SetOccupancies (TOccupancies &value)
	Assign a value to Occupancies data member. More...

TOccupancies &	SetOccupancies (void)
	Assign a value to Occupancies data member. More...

bool	IsSetAlternate_conf_ids (void) const
	Check if a value has been assigned to Alternate_conf_ids data member. More...

bool	CanGetAlternate_conf_ids (void) const
	Check if it is safe to call GetAlternate_conf_ids method. More...

void	ResetAlternate_conf_ids (void)
	Reset Alternate_conf_ids data member. More...

const TAlternate_conf_ids &	GetAlternate_conf_ids (void) const
	Get the Alternate_conf_ids member data. More...

void	SetAlternate_conf_ids (TAlternate_conf_ids &value)
	Assign a value to Alternate_conf_ids data member. More...

TAlternate_conf_ids &	SetAlternate_conf_ids (void)
	Assign a value to Alternate_conf_ids data member. More...

bool	IsSetConf_ensembles (void) const
	Check if a value has been assigned to Conf_ensembles data member. More...

bool	CanGetConf_ensembles (void) const
	Check if it is safe to call GetConf_ensembles method. More...

void	ResetConf_ensembles (void)
	Reset Conf_ensembles data member. More...

const TConf_ensembles &	GetConf_ensembles (void) const
	Get the Conf_ensembles member data. More...

TConf_ensembles &	SetConf_ensembles (void)
	Assign a value to Conf_ensembles data member. More...

virtual void	Reset (void)
	Reset the whole object. More...

Public Member Functions inherited from CSerialObject
	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...

Public Member Functions inherited from CObject
	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...

Public Member Functions inherited from CDebugDumpable
	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

Private Types
typedef CAtomic_coordinates_Base	Tparent

Private Member Functions
	CAtomic_coordinates (const CAtomic_coordinates &value)

CAtomic_coordinates &	operator= (const CAtomic_coordinates &value)

Additional Inherited Members
Public Types inherited from CAtomic_coordinates_Base
enum class	E_memberIndex { e__allMandatory = 0 , e_number_of_points , e_atoms , e_sites , e_temperature_factors , e_occupancies , e_alternate_conf_ids , e_conf_ensembles }

typedef int	TNumber_of_points

typedef CAtom_pntrs	TAtoms

typedef CModel_space_points	TSites

typedef CAtomic_temperature_factors	TTemperature_factors

typedef CAtomic_occupancies	TOccupancies

typedef CAlternate_conformation_ids	TAlternate_conf_ids

typedef list< CRef< CConformation_ensemble > >	TConf_ensembles

typedef Tparent::CMemberIndex< E_memberIndex, 8 >	TmemberIndex

Public Types inherited from CObject
enum	EAllocFillMode { eAllocFillNone = 1 , eAllocFillZero , eAllocFillPattern }
	Control filling of newly allocated memory. More...

typedef CObjectCounterLocker	TLockerType
	Default locker type for CRef. More...

typedef atomic< Uint8 >	TCounter
	Counter type is CAtomiCounter. More...

typedef Uint8	TCount
	Alias for value type of counter. More...

Static Public Member Functions inherited from CSerialObject
static void	SetVerifyDataThread (ESerialVerifyData verify)

static void	SetVerifyDataGlobal (ESerialVerifyData verify)

static string	UnassignedString (void)

static CStringUTF8	UnassignedStringUTF8 (void)

static char	UnassignedByte (void)

Static Public Member Functions inherited from CObject
static NCBI_XNCBI_EXPORT void	ThrowNullPointerException (void)
	Define method to throw null pointer exception. More...

static NCBI_XNCBI_EXPORT void	ThrowNullPointerException (const type_info &type)

static EAllocFillMode	GetAllocFillMode (void)

static void	SetAllocFillMode (EAllocFillMode mode)

static void	SetAllocFillMode (const string &value)
	Set mode from configuration parameter value. More...

Static Public Member Functions inherited from CDebugDumpable
static void	EnableDebugDump (bool on)

Static Public Attributes inherited from CSerialObject
static const char *	ms_UnassignedStr = "<unassigned>"

static const char	ms_UnassignedByte = char(0xcd)

Static Public Attributes inherited from CObject
static const TCount	eCounterBitsCanBeDeleted = 1 << 0
	Define possible object states. More...

static const TCount	eCounterBitsInPlainHeap = 1 << 1
	Heap signature was found. More...

static const TCount	eCounterBitsPlaceMask
	Mask for 'in heap' state flags. More...

static const int	eCounterStep = 1 << 2
	Skip over the "in heap" bits. More...

static const TCount	eCounterValid = TCount(1) << (sizeof(TCount) * 8 - 2)
	Minimal value for valid objects (reference counter is zero) Must be a single bit value. More...

static const TCount	eCounterStateMask
	Valid object, and object in heap. More...

Protected Member Functions inherited from CObject
virtual void	DeleteThis (void)
	Virtual method "deleting" this object. More...

Detailed Description

CAtomic_coordinates –.

Definition at line 65 of file Atomic_coordinates.hpp.

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

include/objects/mmdb2/Atomic_coordinates.hpp
src/objects/mmdb2/Atomic_coordinates.cpp

Public Member Functions

Private Types

Private Member Functions

Additional Inherited Members

Detailed Description