File: _freeendgapfm.pyx

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#cython: language_level=3

'''
Created on 6 Nov. 2009

@author: coissac
'''


cdef class FreeEndGapFullMatch(FreeEndGap):

    cdef double matchScore(self,int h, int v):
        cdef double score
        if iupacMatch(self.hSeq.sequence[h-1],self.vSeq.sequence[v-1]):
            score=self._match
        else:
            score=self._mismatch
        return score