18 #ifndef __ThreadingSs2_H__
19 #define __ThreadingSs2_H__
21 #include <AlignmentData.h>
23 #include <Structure.h>
24 #include <ThreadingInput.h>
26 namespace Victor {
namespace Align2{
virtual double scoringStr(int i, int j)
Calculate structural scores to create matrix values.
Definition: ThreadingSs2.cc:81
Implement a standard substitution matrix.
Definition: SubMatrix.h:30
ThreadingSs2 & operator=(const ThreadingSs2 &orig)
Assignment operator.
Definition: ThreadingSs2.cc:65
ThreadingSs2(SubMatrix *subStr, AlignmentData *ad, ThreadingInput *thread, Ss2Input *psipred1, Ss2Input *psipred2, double cThr, double cSs2)
Default constructor.
Definition: ThreadingSs2.cc:47
Base class for printing alignments.
Definition: AlignmentData.h:35
virtual ~ThreadingSs2()
Destructor.
Definition: ThreadingSs2.cc:58
Base class for structural scores.
Definition: Structure.h:32
virtual void copy(const ThreadingSs2 &orig)
Copy orig object to this object ("deep copy").
Definition: ThreadingSs2.cc:137
SubMatrix * subStr
Structural substitution matrix.
Definition: Structure.h:82
Calculate structural scores with info derived from threading and PSI-PRED.
Definition: ThreadingSs2.h:34
virtual ThreadingSs2 * newCopy()
Construct a new "deep copy" of this object.
Definition: ThreadingSs2.cc:150