#include <objects/mmdb1/Atom.hpp>

Inheritance diagram for CAtom:

Collaboration diagram for CAtom:

Public Member Functions
	CAtom (void)

	~CAtom (void)

Public Member Functions inherited from CAtom_Base
	CAtom_Base (void)

virtual	~CAtom_Base (void)

	DECLARE_INTERNAL_TYPE_INFO ()

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

bool	CanGetId (void) const
	Check if it is safe to call GetId method. More...

void	ResetId (void)
	Reset Id data member. More...

const TId &	GetId (void) const
	Get the Id member data. More...

void	SetId (const TId &value)
	Assign a value to Id data member. More...

TId &	SetId (void)
	Assign a value to Id data member. More...

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	IsSetIupac_code (void) const
	Check if a value has been assigned to Iupac_code data member. More...

bool	CanGetIupac_code (void) const
	Check if it is safe to call GetIupac_code method. More...

void	ResetIupac_code (void)
	Reset Iupac_code data member. More...

const TIupac_code &	GetIupac_code (void) const
	Get the Iupac_code member data. More...

TIupac_code &	SetIupac_code (void)
	Assign a value to Iupac_code data member. More...

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

bool	CanGetElement (void) const
	Check if it is safe to call GetElement method. More...

void	ResetElement (void)
	Reset Element data member. More...

TElement	GetElement (void) const
	Get the Element member data. More...

void	SetElement (TElement value)
	Assign a value to Element data member. More...

TElement &	SetElement (void)
	Assign a value to Element data member. More...

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

bool	CanGetIonizable_proton (void) const
	Check if it is safe to call GetIonizable_proton method. More...

void	ResetIonizable_proton (void)
	Reset Ionizable_proton data member. More...

TIonizable_proton	GetIonizable_proton (void) const
	Get the Ionizable_proton member data. More...

void	SetIonizable_proton (TIonizable_proton value)
	Assign a value to Ionizable_proton data member. More...

TIonizable_proton &	SetIonizable_proton (void)
	Assign a value to Ionizable_proton 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 CAtom_Base	Tparent

Private Member Functions
	CAtom (const CAtom &value)

CAtom &	operator= (const CAtom &value)

Additional Inherited Members
Public Types inherited from CAtom_Base
enum	EElement { eElement_h = 1 , eElement_he = 2 , eElement_li = 3 , eElement_be = 4 , eElement_b = 5 , eElement_c = 6 , eElement_n = 7 , eElement_o = 8 , eElement_f = 9 , eElement_ne = 10 , eElement_na = 11 , eElement_mg = 12 , eElement_al = 13 , eElement_si = 14 , eElement_p = 15 , eElement_s = 16 , eElement_cl = 17 , eElement_ar = 18 , eElement_k = 19 , eElement_ca = 20 , eElement_sc = 21 , eElement_ti = 22 , eElement_v = 23 , eElement_cr = 24 , eElement_mn = 25 , eElement_fe = 26 , eElement_co = 27 , eElement_ni = 28 , eElement_cu = 29 , eElement_zn = 30 , eElement_ga = 31 , eElement_ge = 32 , eElement_as = 33 , eElement_se = 34 , eElement_br = 35 , eElement_kr = 36 , eElement_rb = 37 , eElement_sr = 38 , eElement_y = 39 , eElement_zr = 40 , eElement_nb = 41 , eElement_mo = 42 , eElement_tc = 43 , eElement_ru = 44 , eElement_rh = 45 , eElement_pd = 46 , eElement_ag = 47 , eElement_cd = 48 , eElement_in = 49 , eElement_sn = 50 , eElement_sb = 51 , eElement_te = 52 , eElement_i = 53 , eElement_xe = 54 , eElement_cs = 55 , eElement_ba = 56 , eElement_la = 57 , eElement_ce = 58 , eElement_pr = 59 , eElement_nd = 60 , eElement_pm = 61 , eElement_sm = 62 , eElement_eu = 63 , eElement_gd = 64 , eElement_tb = 65 , eElement_dy = 66 , eElement_ho = 67 , eElement_er = 68 , eElement_tm = 69 , eElement_yb = 70 , eElement_lu = 71 , eElement_hf = 72 , eElement_ta = 73 , eElement_w = 74 , eElement_re = 75 , eElement_os = 76 , eElement_ir = 77 , eElement_pt = 78 , eElement_au = 79 , eElement_hg = 80 , eElement_tl = 81 , eElement_pb = 82 , eElement_bi = 83 , eElement_po = 84 , eElement_at = 85 , eElement_rn = 86 , eElement_fr = 87 , eElement_ra = 88 , eElement_ac = 89 , eElement_th = 90 , eElement_pa = 91 , eElement_u = 92 , eElement_np = 93 , eElement_pu = 94 , eElement_am = 95 , eElement_cm = 96 , eElement_bk = 97 , eElement_cf = 98 , eElement_es = 99 , eElement_fm = 100 , eElement_md = 101 , eElement_no = 102 , eElement_lr = 103 , eElement_other = 254 , eElement_unknown = 255 }

enum	EIonizable_proton { eIonizable_proton_true = 1 , eIonizable_proton_false = 2 , eIonizable_proton_unknown = 255 }

enum class	E_memberIndex { e__allMandatory = 0 , e_id , e_name , e_iupac_code , e_element , e_ionizable_proton }

typedef CAtom_id	TId

typedef string	TName

typedef list< string >	TIupac_code

typedef EElement	TElement

typedef EIonizable_proton	TIonizable_proton

typedef Tparent::CMemberIndex< E_memberIndex, 6 >	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 CAtom_Base
static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME()	EElement (void)
	Access to EElement's attributes (values, names) as defined in spec. More...

static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME()	EIonizable_proton (void)
	Access to EIonizable_proton's attributes (values, names) as defined in spec. 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

CAtom –.

Definition at line 65 of file Atom.hpp.

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

include/objects/mmdb1/Atom.hpp
src/objects/mmdb1/Atom.cpp

Public Member Functions

Private Types

Private Member Functions

Additional Inherited Members

Detailed Description