Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/classCPssmParameters__Base.html below:
NCBI C++ ToolKit: CPssmParameters_Base Class Reference
Populated by PSSM engine of PSI-BLAST, original source for these values are the PSI-BLAST options specified using the BLAST options API. More...
CPssmParameters_Base (void) virtual ~CPssmParameters_Base (void) DECLARE_INTERNAL_TYPE_INFO () bool IsSetPseudocount (void) const pseudocount constant used for PSSM. More...
bool CanGetPseudocount (void) const Check if it is safe to call GetPseudocount method. More...
void ResetPseudocount (void) Reset Pseudocount data member. More...
TPseudocount GetPseudocount (void) const Get the Pseudocount member data. More...
void SetPseudocount (TPseudocount value) Assign a value to Pseudocount data member. More...
TPseudocount & SetPseudocount (void) Assign a value to Pseudocount data member. More...
bool IsSetRpsdbparams (void) const data needed by formatrpsdb to create RPS-BLAST databases. More...
bool CanGetRpsdbparams (void) const Check if it is safe to call GetRpsdbparams method. More...
void ResetRpsdbparams (void) Reset Rpsdbparams data member. More...
const TRpsdbparams & GetRpsdbparams (void) const Get the Rpsdbparams member data. More...
void SetRpsdbparams (TRpsdbparams &value) Assign a value to Rpsdbparams data member. More...
TRpsdbparams & SetRpsdbparams (void) Assign a value to Rpsdbparams data member. More...
bool IsSetConstraints (void) const alignment constraints needed by sequence-structure threader and other global or local block-alignment algorithms Check if a value has been assigned to Constraints data member. More...
bool CanGetConstraints (void) const Check if it is safe to call GetConstraints method. More...
void ResetConstraints (void) Reset Constraints data member. More...
const TConstraints & GetConstraints (void) const Get the Constraints member data. More...
void SetConstraints (TConstraints &value) Assign a value to Constraints data member. More...
TConstraints & SetConstraints (void) Assign a value to Constraints data member. More...
bool IsSetBitScoreThresh (void) const bit score threshold for specific conserved domain hits Check if a value has been assigned to BitScoreThresh data member. More...
bool CanGetBitScoreThresh (void) const Check if it is safe to call GetBitScoreThresh method. More...
void ResetBitScoreThresh (void) Reset BitScoreThresh data member. More...
TBitScoreThresh GetBitScoreThresh (void) const Get the BitScoreThresh member data. More...
void SetBitScoreThresh (TBitScoreThresh value) Assign a value to BitScoreThresh data member. More...
TBitScoreThresh & SetBitScoreThresh (void) Assign a value to BitScoreThresh data member. More...
bool IsSetBitScoreReportingThresh (void) const bit score threshold for reporting any conserved domain hits Check if a value has been assigned to BitScoreReportingThresh data member. More...
bool CanGetBitScoreReportingThresh (void) const Check if it is safe to call GetBitScoreReportingThresh method. More...
void ResetBitScoreReportingThresh (void) Reset BitScoreReportingThresh data member. More...
TBitScoreReportingThresh GetBitScoreReportingThresh (void) const Get the BitScoreReportingThresh member data. More...
void SetBitScoreReportingThresh (TBitScoreReportingThresh value) Assign a value to BitScoreReportingThresh data member. More...
TBitScoreReportingThresh & SetBitScoreReportingThresh (void) Assign a value to BitScoreReportingThresh data member. More...
bool IsSetAnnotatedSites (void) const conserved functional sites with annotations Check if a value has been assigned to AnnotatedSites data member. More...
bool CanGetAnnotatedSites (void) const Check if it is safe to call GetAnnotatedSites method. More...
void ResetAnnotatedSites (void) Reset AnnotatedSites data member. More...
const TAnnotatedSites & GetAnnotatedSites (void) const Get the AnnotatedSites member data. More...
void SetAnnotatedSites (TAnnotatedSites &value) Assign a value to AnnotatedSites data member. More...
TAnnotatedSites & SetAnnotatedSites (void) Assign a value to AnnotatedSites data member. More...
virtual void Reset (void) Reset the whole object. More...
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...
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...
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
Populated by PSSM engine of PSI-BLAST, original source for these values are the PSI-BLAST options specified using the BLAST options API.
CPssmParameters_Base –
Definition at line 76 of file PssmParameters_.hpp.
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