NCBI C++ ToolKit
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Search Toolkit Book for CCdregion
#include <objects/seqfeat/Cdregion.hpp>
Public Member Functions | |
CCdregion (void) | |
~CCdregion (void) | |
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CCdregion_Base (void) | |
virtual | ~CCdregion_Base (void) |
DECLARE_INTERNAL_TYPE_INFO () | |
bool | IsSetOrf (void) const |
just an ORF ? Check if a value has been assigned to Orf data member. More... | |
bool | CanGetOrf (void) const |
Check if it is safe to call GetOrf method. More... | |
void | ResetOrf (void) |
Reset Orf data member. More... | |
TOrf | GetOrf (void) const |
Get the Orf member data. More... | |
void | SetOrf (TOrf value) |
Assign a value to Orf data member. More... | |
TOrf & | SetOrf (void) |
Assign a value to Orf data member. More... | |
bool | IsSetFrame (void) const |
Check if a value has been assigned to Frame data member. More... | |
bool | CanGetFrame (void) const |
Check if it is safe to call GetFrame method. More... | |
void | ResetFrame (void) |
Reset Frame data member. More... | |
void | SetDefaultFrame (void) |
Assign default value to Frame data member. More... | |
TFrame | GetFrame (void) const |
Get the Frame member data. More... | |
void | SetFrame (TFrame value) |
Assign a value to Frame data member. More... | |
TFrame & | SetFrame (void) |
Assign a value to Frame data member. More... | |
bool | IsSetConflict (void) const |
conflict Check if a value has been assigned to Conflict data member. More... | |
bool | CanGetConflict (void) const |
Check if it is safe to call GetConflict method. More... | |
void | ResetConflict (void) |
Reset Conflict data member. More... | |
TConflict | GetConflict (void) const |
Get the Conflict member data. More... | |
void | SetConflict (TConflict value) |
Assign a value to Conflict data member. More... | |
TConflict & | SetConflict (void) |
Assign a value to Conflict data member. More... | |
bool | IsSetGaps (void) const |
number of gaps on conflict/except Check if a value has been assigned to Gaps data member. More... | |
bool | CanGetGaps (void) const |
Check if it is safe to call GetGaps method. More... | |
void | ResetGaps (void) |
Reset Gaps data member. More... | |
TGaps | GetGaps (void) const |
Get the Gaps member data. More... | |
void | SetGaps (TGaps value) |
Assign a value to Gaps data member. More... | |
TGaps & | SetGaps (void) |
Assign a value to Gaps data member. More... | |
bool | IsSetMismatch (void) const |
number of mismatches on above Check if a value has been assigned to Mismatch data member. More... | |
bool | CanGetMismatch (void) const |
Check if it is safe to call GetMismatch method. More... | |
void | ResetMismatch (void) |
Reset Mismatch data member. More... | |
TMismatch | GetMismatch (void) const |
Get the Mismatch member data. More... | |
void | SetMismatch (TMismatch value) |
Assign a value to Mismatch data member. More... | |
TMismatch & | SetMismatch (void) |
Assign a value to Mismatch data member. More... | |
bool | IsSetCode (void) const |
genetic code used Check if a value has been assigned to Code data member. More... | |
bool | CanGetCode (void) const |
Check if it is safe to call GetCode method. More... | |
void | ResetCode (void) |
Reset Code data member. More... | |
const TCode & | GetCode (void) const |
Get the Code member data. More... | |
void | SetCode (TCode &value) |
Assign a value to Code data member. More... | |
TCode & | SetCode (void) |
Assign a value to Code data member. More... | |
bool | IsSetCode_break (void) const |
individual exceptions Check if a value has been assigned to Code_break data member. More... | |
bool | CanGetCode_break (void) const |
Check if it is safe to call GetCode_break method. More... | |
void | ResetCode_break (void) |
Reset Code_break data member. More... | |
const TCode_break & | GetCode_break (void) const |
Get the Code_break member data. More... | |
TCode_break & | SetCode_break (void) |
Assign a value to Code_break data member. More... | |
bool | IsSetStops (void) const |
number of stop codons on above Check if a value has been assigned to Stops data member. More... | |
bool | CanGetStops (void) const |
Check if it is safe to call GetStops method. More... | |
void | ResetStops (void) |
Reset Stops data member. More... | |
TStops | GetStops (void) const |
Get the Stops member data. More... | |
void | SetStops (TStops value) |
Assign a value to Stops data member. More... | |
TStops & | SetStops (void) |
Assign a value to Stops data member. More... | |
virtual void | Reset (void) |
Reset the whole object. More... | |
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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... | |
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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... | |
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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 CCdregion_Base | Tparent |
Private Member Functions | |
CCdregion (const CCdregion &value) | |
CCdregion & | operator= (const CCdregion &value) |
Additional Inherited Members | |
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enum | EFrame { eFrame_not_set = 0 , eFrame_one = 1 , eFrame_two = 2 , eFrame_three = 3 } |
enum class | E_memberIndex { e__allMandatory = 0 , e_orf , e_frame , e_conflict , e_gaps , e_mismatch , e_code , e_code_break , e_stops } |
typedef bool | TOrf |
typedef EFrame | TFrame |
typedef bool | TConflict |
typedef TSeqPos | TGaps |
typedef TSeqPos | TMismatch |
typedef CGenetic_code | TCode |
typedef list< CRef< CCode_break > > | TCode_break |
typedef TSeqPos | TStops |
typedef Tparent::CMemberIndex< E_memberIndex, 9 > | TmemberIndex |
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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... | |
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static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME() | EFrame (void) |
Access to EFrame's attributes (values, names) as defined in spec. More... | |
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static void | SetVerifyDataThread (ESerialVerifyData verify) |
static void | SetVerifyDataGlobal (ESerialVerifyData verify) |
static string | UnassignedString (void) |
static CStringUTF8 | UnassignedStringUTF8 (void) |
static char | UnassignedByte (void) |
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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... | |
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static void | EnableDebugDump (bool on) |
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static const char * | ms_UnassignedStr = "<*unassigned*>" |
static const char | ms_UnassignedByte = char(0xcd) |
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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... | |
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virtual void | DeleteThis (void) |
Virtual method "deleting" this object. More... | |
CCdregion –.
Definition at line 65 of file Cdregion.hpp.