def _predict(self, sequences):
print("Hello in _predict")
print(sequences)
seq_file = create_temp_fasta(sequences, self.tempdir)
try:
return list(self._execute(seq_file))
finally:
os.remove(seq_file)
def _predict(self, sequences):
print("Hello in _predict");
print(sequences)
seq_file = create_temp_fasta(sequences, self.tempdir)
try:
return list(self._execute(seq_file))
finally:
os.remove(seq_file)
def _predict(self, sequences, lengths, alleles, species):
lengths_str = ",".join(map(str, lengths))
seq_file = create_temp_fasta(sequences, self.tempdir)
def _exec(allele):
cmd = self._get_predict_command(self.executable, seq_file,
lengths_str, allele)
output = subprocess.check_output(cmd, universal_newlines=True)
return self._parse_predict_output(output)
try:
return list(_exec(allele) for allele in alleles)
finally:
os.remove(seq_file)
def _predict(self, sequences, lengths, alleles, species):
lengths_str = ",".join(map(str, lengths))
seq_file = create_temp_fasta(sequences, self.tempdir)
def _exec(allele):
cmd = self._get_predict_command(
self.executable, seq_file, lengths_str, allele)
output = subprocess.check_output(cmd, universal_newlines=True)
return self._parse_predict_output(output)
try:
return list(_exec(allele) for allele in alleles)
finally:
os.remove(seq_file)