NCBI C++ ToolKit
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Search Toolkit Book for CGen_code_table_imp
Public Member Functions | |
CGen_code_table_imp (void) | |
CGen_code_table_imp (CObjectIStream &ois) | |
~CGen_code_table_imp (void) | |
const CTrans_table & | GetTransTable (int gc) |
const CTrans_table & | GetTransTable (const CGenetic_code &gc) |
const CGenetic_code_table & | GetCodeTable (void) |
const string & | GetNcbieaa (int id) const |
const string & | GetNcbieaa (const CGenetic_code &gc) const |
const string & | GetSncbieaa (int id) const |
const string & | GetSncbieaa (const CGenetic_code &gc) const |
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... | |
virtual void | DebugDump (CDebugDumpContext ddc, unsigned int depth) const |
Define method for dumping debug information. 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 vector< CRef< CTrans_table > > | TTransTablesById |
Private Attributes | |
CRef< CGenetic_code_table > | m_GcTable |
TTransTablesById | m_TransTablesById |
Static Private Attributes | |
static const char *const | sm_GenCodeTblMemStr [] |
Additional Inherited Members | |
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 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 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... | |
Definition at line 245 of file Genetic_code_table.cpp.
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private |
Definition at line 272 of file Genetic_code_table.cpp.
CGen_code_table_imp::CGen_code_table_imp | ( | void | ) |
Definition at line 436 of file Genetic_code_table.cpp.
References eSerial_AsnText, i, m_GcTable, CObjectIStream::Open(), sm_GenCodeTblMemStr, str(), and CTrans_table::x_InitFsaTable().
CGen_code_table_imp::CGen_code_table_imp | ( | CObjectIStream & | ois | ) |
Definition at line 460 of file Genetic_code_table.cpp.
References m_GcTable, CTrans_table::sm_NextState, and CTrans_table::x_InitFsaTable().
CGen_code_table_imp::~CGen_code_table_imp | ( | void | ) |
Definition at line 473 of file Genetic_code_table.cpp.
const CGenetic_code_table & CGen_code_table_imp::GetCodeTable | ( | void | ) |
Definition at line 604 of file Genetic_code_table.cpp.
References m_GcTable.
Referenced by CGen_code_table::GetCodeTable().
const string & CGen_code_table_imp::GetNcbieaa | ( | const CGenetic_code & | gc | ) | const |
Definition at line 621 of file Genetic_code_table.cpp.
References CGenetic_code::GetNcbieaa().
Definition at line 610 of file Genetic_code_table.cpp.
References CNcbiEmptyString::Get(), CGenetic_code_table_Base::Get(), ITERATE, and m_GcTable.
Referenced by CGen_code_table::GetNcbieaa().
const string & CGen_code_table_imp::GetSncbieaa | ( | const CGenetic_code & | gc | ) | const |
Definition at line 639 of file Genetic_code_table.cpp.
References CGenetic_code::GetSncbieaa().
Definition at line 627 of file Genetic_code_table.cpp.
References CNcbiEmptyString::Get(), CGenetic_code_table_Base::Get(), ITERATE, and m_GcTable.
Referenced by CGen_code_table::GetSncbieaa().
const CTrans_table & CGen_code_table_imp::GetTransTable | ( | const CGenetic_code & | gc | ) |
Definition at line 560 of file Genetic_code_table.cpp.
References CGenetic_code_Base::C_E::e_Id, CGenetic_code_Base::C_E::e_Ncbieaa, CGenetic_code_Base::C_E::e_Sncbieaa, eUnknown, gcd(), CGenetic_code_Base::Get(), GetTransTable(), ITERATE, and NCBI_THROW.
const CTrans_table & CGen_code_table_imp::GetTransTable | ( | int | gc | ) |
Definition at line 507 of file Genetic_code_table.cpp.
References _ASSERT, DEFINE_STATIC_FAST_MUTEX(), eUnknown, gcd(), CGenetic_code_table_Base::Get(), NStr::IntToString(), ITERATE, m_GcTable, m_TransTablesById, mtx, and NCBI_THROW.
Referenced by GetTransTable(), and CGen_code_table::GetTransTable().
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private |
Definition at line 269 of file Genetic_code_table.cpp.
Referenced by CGen_code_table_imp(), GetCodeTable(), GetNcbieaa(), GetSncbieaa(), and GetTransTable().
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private |
Definition at line 275 of file Genetic_code_table.cpp.
Referenced by GetTransTable().
Definition at line 278 of file Genetic_code_table.cpp.
Referenced by CGen_code_table_imp().