Search Toolkit Book for CLinkage_evidence
#include <objects/seq/Linkage_evidence.hpp>
Inheritance diagram for CLinkage_evidence:
Collaboration diagram for CLinkage_evidence:
Public Types | |
| typedef list< CRef< CLinkage_evidence > > | TLinkage_evidence |
| Public Types inherited from CLinkage_evidence_Base | |
| enum | EType { eType_paired_ends = 0 , eType_align_genus = 1 , eType_align_xgenus = 2 , eType_align_trnscpt = 3 , eType_within_clone = 4 , eType_clone_contig = 5 , eType_map = 6 , eType_strobe = 7 , eType_unspecified = 8 , eType_pcr = 9 , eType_proximity_ligation = 10 , eType_other = 255 } |
| enum class | E_memberIndex { e__allMandatory = 0 , e_type } |
| typedef int | TType |
| typedef Tparent::CMemberIndex< E_memberIndex, 2 > | 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... | |
Public Member Functions | |
| CLinkage_evidence (void) | |
| ~CLinkage_evidence (void) | |
| Public Member Functions inherited from CLinkage_evidence_Base | |
| CLinkage_evidence_Base (void) | |
| virtual | ~CLinkage_evidence_Base (void) |
| DECLARE_INTERNAL_TYPE_INFO () | |
| bool | IsSetType (void) const |
| Check if a value has been assigned to Type data member. More... | |
| bool | CanGetType (void) const |
| Check if it is safe to call GetType method. More... | |
| void | ResetType (void) |
| Reset Type data member. More... | |
| TType | GetType (void) const |
| Get the Type member data. More... | |
| void | SetType (TType value) |
| Assign a value to Type data member. More... | |
| TType & | SetType (void) |
| Assign a value to Type 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 |
Static Public Member Functions | |
| static bool | GetLinkageEvidence (TLinkage_evidence &output_result, const string &linkage_evidence) |
| static bool | GetLinkageEvidence (TLinkage_evidence &output_result, const vector< string > &linkage_evidence) |
| static bool | VecToString (string &output_result, const TLinkage_evidence &linkage_evidence) |
| Static Public Member Functions inherited from CLinkage_evidence_Base | |
| static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME() | EType (void) |
| Access to EType'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) |
Private Types | |
| typedef CLinkage_evidence_Base | Tparent |
Private Member Functions | |
| CLinkage_evidence (const CLinkage_evidence &value) | |
| CLinkage_evidence & | operator= (const CLinkage_evidence &value) |
Additional Inherited Members | |
| 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
Definition at line 53 of file Linkage_evidence.hpp.
Member Typedef Documentation
◆ TLinkage_evidence
| typedef list< CRef< CLinkage_evidence > > CLinkage_evidence::TLinkage_evidence |
Definition at line 62 of file Linkage_evidence.hpp.
◆ Tparent
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private |
Definition at line 55 of file Linkage_evidence.hpp.
Constructor & Destructor Documentation
◆ CLinkage_evidence() [1/2]
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inline |
Definition at line 108 of file Linkage_evidence.hpp.
Referenced by GetLinkageEvidence().
◆ ~CLinkage_evidence()
| CLinkage_evidence::~CLinkage_evidence | ( | void | ) |
Definition at line 54 of file Linkage_evidence.cpp.
◆ CLinkage_evidence() [2/2]
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private |
Member Function Documentation
◆ GetLinkageEvidence() [1/2]
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static |
Definition at line 58 of file Linkage_evidence.cpp.
References NStr::Split().
Referenced by BOOST_AUTO_TEST_CASE().
◆ GetLinkageEvidence() [2/2]
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static |
Definition at line 70 of file Linkage_evidence.cpp.
References CLinkage_evidence(), CLinkage_evidence_Base::eType_align_genus, CLinkage_evidence_Base::eType_align_trnscpt, CLinkage_evidence_Base::eType_align_xgenus, CLinkage_evidence_Base::eType_clone_contig, CLinkage_evidence_Base::eType_map, CLinkage_evidence_Base::eType_paired_ends, CLinkage_evidence_Base::eType_pcr, CLinkage_evidence_Base::eType_proximity_ligation, CLinkage_evidence_Base::eType_strobe, CLinkage_evidence_Base::eType_unspecified, and CLinkage_evidence_Base::eType_within_clone.
◆ operator=()
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private |
◆ VecToString()
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static |
Definition at line 107 of file Linkage_evidence.cpp.
References CLinkage_evidence_Base::eType_align_genus, CLinkage_evidence_Base::eType_align_trnscpt, CLinkage_evidence_Base::eType_align_xgenus, CLinkage_evidence_Base::eType_clone_contig, CLinkage_evidence_Base::eType_map, CLinkage_evidence_Base::eType_paired_ends, CLinkage_evidence_Base::eType_pcr, CLinkage_evidence_Base::eType_proximity_ligation, CLinkage_evidence_Base::eType_strobe, CLinkage_evidence_Base::eType_unspecified, and CLinkage_evidence_Base::eType_within_clone.
Referenced by BOOST_AUTO_TEST_CASE(), and WriteLinkageEvidence().
The documentation for this class was generated from the following files:
- include/objects/seq/Linkage_evidence.hpp
- src/objects/seq/Linkage_evidence.cpp
