NCBI C++ ToolKit
Public Member Functions | Protected Types | Protected Member Functions | Protected Attributes | List of all members
CQualifierRequest Class Referenceabstract

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#include <objtools/validator/tax_validation_and_cleanup.hpp>

+ Inheritance diagram for CQualifierRequest:
+ Collaboration diagram for CQualifierRequest:

Public Member Functions

 CQualifierRequest ()
 
void AddParent (CConstRef< CSeqdesc > desc, CConstRef< CSeq_entry > ctx)
 
void AddParent (CConstRef< CSeq_feat > feat)
 
void AddRequests (vector< CRef< COrg_ref > > &request_list) const
 
bool MatchTryValue (const string &val) const
 
size_t NumRemainingReplies () const
 
virtual void AddReply (const CT3Reply &reply, TTaxId descTaxID)=0
 
void PostErrors (CValidError_imp &imp)
 
virtual void ListErrors (vector< TTaxError > &errs) const =0
 
- Public Member Functions inherited from CObject
 CObject (void)
 Constructor. More...
 
 CObject (const CObject &src)
 Copy constructor. More...
 
virtual ~CObject (void)
 Destructor. More...
 
CObjectoperator= (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
 

Protected Types

typedef pair< CConstRef< CSeqdesc >, CConstRef< CSeq_entry > > TDescPair
 

Protected Member Functions

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

Protected Attributes

vector< stringm_ValuesToTry
 
size_t m_RepliesProcessed
 
vector< TDescPairm_Descs
 
vector< CConstRef< CSeq_feat > > m_Feats
 

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< Uint8TCounter
 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...
 

Detailed Description

Definition at line 103 of file tax_validation_and_cleanup.hpp.

Member Typedef Documentation

◆ TDescPair

Definition at line 126 of file tax_validation_and_cleanup.hpp.

Constructor & Destructor Documentation

◆ CQualifierRequest()

CQualifierRequest::CQualifierRequest ( )

Definition at line 71 of file tax_validation_and_cleanup.cpp.

Member Function Documentation

◆ AddParent() [1/2]

void CQualifierRequest::AddParent ( CConstRef< CSeq_feat feat)

Definition at line 92 of file tax_validation_and_cleanup.cpp.

◆ AddParent() [2/2]

void CQualifierRequest::AddParent ( CConstRef< CSeqdesc desc,
CConstRef< CSeq_entry ctx 
)

Definition at line 86 of file tax_validation_and_cleanup.cpp.

References ctx.

◆ AddReply()

virtual void CQualifierRequest::AddReply ( const CT3Reply reply,
TTaxId  descTaxID 
)
pure virtual

Implemented in CStrainRequest, and CSpecificHostRequest.

◆ AddRequests()

void CQualifierRequest::AddRequests ( vector< CRef< COrg_ref > > &  request_list) const

Definition at line 98 of file tax_validation_and_cleanup.cpp.

References COrg_ref_Base::SetTaxname().

◆ ListErrors()

virtual void CQualifierRequest::ListErrors ( vector< TTaxError > &  errs) const
pure virtual

Implemented in CStrainRequest, and CSpecificHostRequest.

◆ MatchTryValue()

bool CQualifierRequest::MatchTryValue ( const string val) const

Definition at line 108 of file tax_validation_and_cleanup.cpp.

References NStr::EqualNocase(), and val.

◆ NumRemainingReplies()

size_t CQualifierRequest::NumRemainingReplies ( ) const
inline

Definition at line 114 of file tax_validation_and_cleanup.hpp.

References m_RepliesProcessed, and m_ValuesToTry.

◆ PostErrors()

void CQualifierRequest::PostErrors ( CValidError_imp imp)

Definition at line 119 of file tax_validation_and_cleanup.cpp.

References CValidError_imp::PostObjErr().

◆ x_Init()

void CQualifierRequest::x_Init ( void  )
protected

Definition at line 77 of file tax_validation_and_cleanup.cpp.

Member Data Documentation

◆ m_Descs

vector<TDescPair> CQualifierRequest::m_Descs
protected

Definition at line 127 of file tax_validation_and_cleanup.hpp.

◆ m_Feats

vector<CConstRef<CSeq_feat> > CQualifierRequest::m_Feats
protected

Definition at line 128 of file tax_validation_and_cleanup.hpp.

◆ m_RepliesProcessed

size_t CQualifierRequest::m_RepliesProcessed
protected

◆ m_ValuesToTry

vector<string> CQualifierRequest::m_ValuesToTry
protected

The documentation for this class was generated from the following files:
Modified on Wed Apr 24 14:13:54 2024 by modify_doxy.py rev. 669887