def __init__(self, inarg, Stype=FS.SIMILARITY, new=True):
self.thisown = 0
if isinstance(inarg, FS_Smatrix):
if new:
self.this = FS.Smatrix_copy(inarg)
self.thisown = 1
else:
self.this = inarg
self.thisown = 1
elif isinstance(inarg, list):
# List - Biopython PSSM
self.this = FS.Smatrix_pssm(inarg)
self.thisown = 1
elif isinstance(inarg, ProfileMatrix):
# Instance of ProfileMatrix
self.this = FS.Smatrix_copy(inarg.this)
self.thisown = 1
else:
raise TypeError, "Constructor only accepts"\
" a Biopython PSSM"\
" and an instance of ProfileMatrix."
self.mean = self._calc_mean()
self.alphabet = FS.Smatrix_alphabet_get(self)
self._len = FS.Smatrix_len_get(self)
self.qseq = FS.Smatrix_qseq_get(self)
