def setUp(self): test_file = os.path.join('NeuralNetwork', 'enolase.fasta') self.test_records = [] # load the records handle = open(test_file, 'r') self.test_records = list( SeqIO.parse(handle, "fasta", alphabet=IUPAC.unambiguous_dna)) handle.close() self.sig_finder = Signature.SignatureFinder()
def setUp(self): test_file = os.path.join('NeuralNetwork', 'enolase.fasta') self.test_records = [] # load the records handle = open(test_file, 'r') seq_parser = Fasta.SequenceParser(alphabet=IUPAC.unambiguous_dna) iterator = Fasta.Iterator(handle, seq_parser) while 1: seq_record = iterator.next() if seq_record is None: break self.test_records.append(seq_record) handle.close() self.sig_finder = Signature.SignatureFinder()