ThreadingProf Class Reference

Calculate structural scores with info derived from threading and PHD. More...

Inheritance diagram for ThreadingProf:

Collaboration diagram for ThreadingProf:

Public Member Functions
	ThreadingProf (SubMatrix *subStr, AlignmentData *ad, ThreadingInput *thread, ProfInput *phd1, ProfInput *phd2, double cThr, double cPrf)
	Default constructor. More...
	ThreadingProf (const ThreadingProf &orig)
	Copy constructor.
virtual	~ThreadingProf ()
	Destructor.
virtual void	copy (const ThreadingProf &orig)
	Copy orig object to this object ("deep copy"). More...
virtual void	copy (const Structure &orig)
	Copy orig object to this object ("deep copy").
virtual ThreadingProf *	newCopy ()
	Construct a new "deep copy" of this object.
ThreadingProf &	operator= (const ThreadingProf &orig)
	Assignment operator. More...
virtual void	reverse ()
	Reverse template structural components.
virtual double	scoringStr (int i, int j)
	Calculate structural scores to create matrix values. More...

Data Fields
SubMatrix *	subStr
	Structural substitution matrix.

Detailed Description

Calculate structural scores with info derived from threading and PHD.

Constructor & Destructor Documentation

ThreadingProf	(	SubMatrix *	subStr,
		AlignmentData *	ad,
		ThreadingInput *	thread,
		ProfInput *	phd1,
		ProfInput *	phd2,
		double	cThr,
		double	cPrf
	)

Default constructor.

Parameters

subStr
ad
thread
phd1
phd2
cThr
cPrf

Member Function Documentation

void copy ( const ThreadingProf &  orig )

virtual

Copy orig object to this object ("deep copy").

Parameters

orig

ThreadingProf & operator=

(

const ThreadingProf &

orig

)

Assignment operator.

Parameters

orig

Returns

double scoringStr ( int  i, int  j  )

virtual

Calculate structural scores to create matrix values.

Parameters

i
j

Returns

Implements Structure.

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The documentation for this class was generated from the following files:

• Align2/Sources/ThreadingProf.h
• Align2/Sources/ThreadingProf.cc