def write_to_path(self, filename, schema='FASTA'):
"""Writes the sequence data in the specified `file_format` to `filename`"""
_LOG.debug("Writing alignment of type %s with length %d to file %s" %
(str(self.__class__), len(self), filename))
file_obj = open_with_intermediates(filename, 'w')
self.write(file_obj, file_format=schema)
file_obj.close()
def write_unaligned_fasta(self, filename):
"""Writes the sequence data without gaps as FASTA, but note that the
lines may bet "ragged".
"""
file_obj = open_with_intermediates(filename, 'w')
for name, seq in self.items():
file_obj.write('>%s\n%s\n' % (name, re.sub(_INDEL, '', seq)))
file_obj.close()
def write_unaligned_fasta(self, filename):
"""Writes the sequence data without gaps as FASTA, but note that the
lines may bet "ragged".
"""
file_obj = open_with_intermediates(filename, 'w')
for name, seq in self.items():
file_obj.write('>%s\n%s\n' % (name, re.sub(_INDEL, '', seq)))
file_obj.close()
def write_to_path(self, filename, schema='FASTA'):
"""Writes the sequence data in the specified `file_format` to
`filename`"""
_LOG.debug(
"Writing alignment of type %s with length %d to file %s" %
(str(self.__class__), len(self), filename))
file_obj = open_with_intermediates(filename, 'w')
self.write(file_obj, file_format=schema)
file_obj.close()
