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CGb_qual Class Reference

Represents ASN.1 type Gb-qual defined in file seqfeat.asn

Search Toolkit Book for CGb_qual

@Gb_qual.hpp User-defined methods of the data storage class. More...

#include <objects/seqfeat/Gb_qual.hpp>

+ Inheritance diagram for CGb_qual:
+ Collaboration diagram for CGb_qual:

Public Types

typedef CStaticArraySet< const char *, PNocase_CStrTLegalRepeatTypeSet
 
typedef CStaticArraySet< const char *, PNocase_CStrTLegalPseudogeneSet
 
typedef CStaticArraySet< const char *, PNocase_CStrTLegalRecombinationClassSet
 
- Public Types inherited from CGb_qual_Base
enum class  E_memberIndex { e__allMandatory = 0 , e_qual , e_val }
 
typedef string TQual
 
typedef string TVal
 
typedef Tparent::CMemberIndex< E_memberIndex, 3 > 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< Uint8TCounter
 Counter type is CAtomiCounter. More...
 
typedef Uint8 TCount
 Alias for value type of counter. More...
 

Public Member Functions

 CGb_qual (void)
 
 CGb_qual (const TQual &qual, const TVal &val)
 
 ~CGb_qual (void)
 
int Compare (const CGb_qual &gbqual) const
 
- Public Member Functions inherited from CGb_qual_Base
 CGb_qual_Base (void)
 
virtual ~CGb_qual_Base (void)
 
 DECLARE_INTERNAL_TYPE_INFO ()
 
bool IsSetQual (void) const
 Check if a value has been assigned to Qual data member. More...
 
bool CanGetQual (void) const
 Check if it is safe to call GetQual method. More...
 
void ResetQual (void)
 Reset Qual data member. More...
 
const TQualGetQual (void) const
 Get the Qual member data. More...
 
void SetQual (const TQual &value)
 Assign a value to Qual data member. More...
 
void SetQual (TQual &&value)
 
TQualSetQual (void)
 Assign a value to Qual data member. More...
 
bool IsSetVal (void) const
 Check if a value has been assigned to Val data member. More...
 
bool CanGetVal (void) const
 Check if it is safe to call GetVal method. More...
 
void ResetVal (void)
 Reset Val data member. More...
 
const TValGetVal (void) const
 Get the Val member data. More...
 
void SetVal (const TVal &value)
 Assign a value to Val data member. More...
 
void SetVal (TVal &&value)
 
TValSetVal (void)
 Assign a value to Val 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 CTypeInfoGetThisTypeInfo (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 stringGetNamespaceName (void) const
 Get namespace name. More...
 
bool HasNamespacePrefix (void) const
 Check if data type has namespace prefix. More...
 
const stringGetNamespacePrefix (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...
 
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...
 
- 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 void ParseExperiment (const string &orig, string &category, string &experiment, string &doi)
 
static string BuildExperiment (const string &category, const string &experiment, const string &doi)
 
static bool CleanupRptUnitSeq (string &val)
 
static bool CleanupReplace (string &val)
 
static bool CleanupRptUnitRange (string &val)
 
static const TLegalRepeatTypeSetGetSetOfLegalRepeatTypes (void)
 
static bool IsValidRptTypeValue (const string &val)
 
static bool FixRptTypeValue (string &val)
 
static const TLegalPseudogeneSetGetSetOfLegalPseudogenes (void)
 
static bool IsValidPseudogeneValue (const string &val)
 
static bool FixPseudogeneValue (string &val)
 
static const TLegalRecombinationClassSetGetSetOfLegalRecombinationClassValues (void)
 
static bool FixRecombinationClassValue (string &val)
 
static bool IsLegalMobileElementValue (const string &val)
 
static void GetMobileElementValueElements (const string &val, string &element_type, string &element_name)
 
static bool FixMobileElementValue (string &val)
 
static bool IsIllegalQualName (const string &val)
 
static void ParseInferenceString (string val, string &category, string &type_str, bool &is_same_species, string &database, string &accession, string &program, string &version, string &acc_list)
 
static string CleanupAndRepairInference (const string &orig_inference)
 
static bool IsLegalInferenceDatabase (const string &db)
 
- 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 CGb_qual_Base Tparent
 

Private Member Functions

 CGb_qual (const CGb_qual &value)
 
CGb_qualoperator= (const CGb_qual &value)
 

Static Private Member Functions

static bool x_CleanupRptAndReplaceSeq (string &val)
 

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

@Gb_qual.hpp User-defined methods of the data storage class.

This file was originally generated by application DATATOOL using the following specifications: 'seqfeat.asn'.

New methods or data members can be added to it if needed. See also: Gb_qual_.hpp

Definition at line 60 of file Gb_qual.hpp.

Member Typedef Documentation

◆ TLegalPseudogeneSet

Definition at line 87 of file Gb_qual.hpp.

◆ TLegalRecombinationClassSet

Definition at line 93 of file Gb_qual.hpp.

◆ TLegalRepeatTypeSet

Definition at line 81 of file Gb_qual.hpp.

◆ Tparent

Definition at line 62 of file Gb_qual.hpp.

Constructor & Destructor Documentation

◆ CGb_qual() [1/3]

CGb_qual::CGb_qual ( void  )
inline

Definition at line 125 of file Gb_qual.hpp.

◆ CGb_qual() [2/3]

CGb_qual::CGb_qual ( const TQual qual,
const TVal val 
)
inline

Definition at line 130 of file Gb_qual.hpp.

References CGb_qual_Base::SetQual(), CGb_qual_Base::SetVal(), and val.

◆ ~CGb_qual()

CGb_qual::~CGb_qual ( void  )

Definition at line 56 of file Gb_qual.cpp.

◆ CGb_qual() [3/3]

CGb_qual::CGb_qual ( const CGb_qual value)
private

Member Function Documentation

◆ BuildExperiment()

string CGb_qual::BuildExperiment ( const string category,
const string experiment,
const string doi 
)
static

Definition at line 114 of file Gb_qual.cpp.

References NStr::IsBlank().

Referenced by BOOST_AUTO_TEST_CASE().

◆ CleanupAndRepairInference()

string CGb_qual::CleanupAndRepairInference ( const string orig_inference)
static

◆ CleanupReplace()

bool CGb_qual::CleanupReplace ( string val)
static

Definition at line 150 of file Gb_qual.cpp.

References val, and x_CleanupRptAndReplaceSeq().

Referenced by CNewCleanup_imp::GBQualBC().

◆ CleanupRptUnitRange()

bool CGb_qual::CleanupRptUnitRange ( string val)
static

◆ CleanupRptUnitSeq()

bool CGb_qual::CleanupRptUnitSeq ( string val)
static

Definition at line 144 of file Gb_qual.cpp.

References val, and x_CleanupRptAndReplaceSeq().

Referenced by CNewCleanup_imp::GBQualBC(), and CNewCleanup_imp::x_CleanupRptUnit().

◆ Compare()

int CGb_qual::Compare ( const CGb_qual gbqual) const
inline

Definition at line 138 of file Gb_qual.hpp.

References CGb_qual_Base::GetQual(), and CGb_qual_Base::GetVal().

◆ FixMobileElementValue()

bool CGb_qual::FixMobileElementValue ( string val)
static

◆ FixPseudogeneValue()

bool CGb_qual::FixPseudogeneValue ( string val)
static

◆ FixRecombinationClassValue()

bool CGb_qual::FixRecombinationClassValue ( string val)
static

◆ FixRptTypeValue()

bool CGb_qual::FixRptTypeValue ( string val)
static

◆ GetMobileElementValueElements()

void CGb_qual::GetMobileElementValueElements ( const string val,
string element_type,
string element_name 
)
static

Definition at line 433 of file Gb_qual.cpp.

References NStr::Find(), and val.

Referenced by FixMobileElementValue(), and IsLegalMobileElementValue().

◆ GetSetOfLegalPseudogenes()

const CGb_qual::TLegalPseudogeneSet & CGb_qual::GetSetOfLegalPseudogenes ( void  )
static

◆ GetSetOfLegalRecombinationClassValues()

const CGb_qual::TLegalRecombinationClassSet & CGb_qual::GetSetOfLegalRecombinationClassValues ( void  )
static

◆ GetSetOfLegalRepeatTypes()

const CGb_qual::TLegalRepeatTypeSet & CGb_qual::GetSetOfLegalRepeatTypes ( void  )
static

Definition at line 178 of file Gb_qual.cpp.

References DEFINE_STATIC_ARRAY_MAP_WITH_COPY.

Referenced by FixRptTypeValue(), and IsValidRptTypeValue().

◆ IsIllegalQualName()

bool CGb_qual::IsIllegalQualName ( const string val)
static

Definition at line 508 of file Gb_qual.cpp.

References ArraySize(), NStr::EqualNocase(), i, s_IllegalQualNameStrings, and val.

Referenced by BOOST_AUTO_TEST_CASE().

◆ IsLegalInferenceDatabase()

bool CGb_qual::IsLegalInferenceDatabase ( const string db)
static

◆ IsLegalMobileElementValue()

bool CGb_qual::IsLegalMobileElementValue ( const string val)
static

◆ IsValidPseudogeneValue()

bool CGb_qual::IsValidPseudogeneValue ( const string val)
static

◆ IsValidRptTypeValue()

bool CGb_qual::IsValidRptTypeValue ( const string val)
static

◆ operator=()

CGb_qual& CGb_qual::operator= ( const CGb_qual value)
private

◆ ParseExperiment()

void CGb_qual::ParseExperiment ( const string orig,
string category,
string experiment,
string doi 
)
static

◆ ParseInferenceString()

void CGb_qual::ParseInferenceString ( string  val,
string category,
string type_str,
bool is_same_species,
string database,
string accession,
string program,
string version,
string acc_list 
)
static

◆ x_CleanupRptAndReplaceSeq()

bool CGb_qual::x_CleanupRptAndReplaceSeq ( string val)
staticprivate

The documentation for this class was generated from the following files:
Modified on Sun Apr 21 03:44:00 2024 by modify_doxy.py rev. 669887