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NCBI C++ ToolKit: include/algo/blast/api/deltablast_options.hpp Source File

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1 #ifndef ALGO_BLAST_API___DELTABLAST_OPTIONS__HPP 2 #define ALGO_BLAST_API___DELTABLAST_OPTIONS__HPP 66 

{

return

m_Opts->GetDomainInclusionThreshold(); }

71

{ m_Opts->SetDomainInclusionThreshold(

th

); }

79 

{

return

GetInclusionThreshold(); }

87

{ SetInclusionThreshold(

th

); }

94

m_Opts->SetRemoteProgramAndService_Blast3(

"blastp"

,

"delta_blast"

);

99  virtual void

SetQueryOptionDefaults();

103  virtual void

SetGappedExtensionDefaults();

106  void

SetDeltaBlastDefaults();

#define NCBI_XBLAST_EXPORT

NULL operations for other cases.

EAPILocality

Enumerates the possible contexts in which objects of this type can be used.

@ eLocal

To be used for running BLAST locally.

Handle to the protein-protein options to the BLAST algorithm.

Handle to the protein-protein options to the BLAST algorithm.

void SetDomainInclusionThreshold(double th)

Set e-value threshold for including domains in Pssm calculation.

CDeltaBlastOptionsHandle(const CDeltaBlastOptionsHandle &rhs)

Disallow copy constructor.

CDeltaBlastOptionsHandle & operator=(const CDeltaBlastOptionsHandle &rhs)

Disallow assignment operator.

virtual void SetRemoteProgramAndService_Blast3()

Set the program and service name for remote blast.

void SetPSIInclusionThreshold(double th)

Set e-value threshold for including sequences in Pssm calculation.

double GetPSIInclusionThreshold(void) const

Get e-value threshold for including sequences in Pssm calculation.

~CDeltaBlastOptionsHandle()

Destructor.

double GetDomainInclusionThreshold(void) const

Get e-value threshold for including domains in Pssm calculation.

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define END_SCOPE(ns)

End the previously defined scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

#define BEGIN_SCOPE(ns)

Define a new scope.

<!DOCTYPE HTML >< html > n< header > n< title > PubSeq Gateway Help Page</title > n< style > n th

Declares the CPSIBlastOptionsHandle class.

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