Python ViralSeqSet.required_fields示例

示例#1

文件： test_viral_seq_set.py 项目： ihmpdcc/cutlass

    def testRequiredFields(self):
        required = ViralSeqSet.required_fields()

        self.assertEqual(type(required), tuple,
                         "required_fields() returns a tuple.")

        self.assertTrue(len(required) > 0,
                        "required_fields() did not return empty value.")

示例#2

文件： test_viral_seq_set.py 项目： ihmpdcc/cutlass

    def testRequiredFields(self):
        """ Test the required_fields() method. """
        required = ViralSeqSet.required_fields()

        self.assertEqual(type(required), tuple,
                         "required_fields() returns a tuple.")

        self.assertTrue(
            len(required) > 0, "required_fields() did not return empty value.")

示例#3

文件： viral_seq_set.py 项目： JAX-GM/cutlass

def set_logging():
    root = logging.getLogger()
    root.setLevel(logging.DEBUG)
    ch = logging.StreamHandler(sys.stdout)
    ch.setLevel(logging.DEBUG)
    formatter = logging.Formatter('%(asctime)s - %(name)s - %(levelname)s - %(message)s')
    ch.setFormatter(formatter)
    root.addHandler(ch)

set_logging()

session = iHMPSession(username, password)

print("Required fields: ")
print(ViralSeqSet.required_fields())

vss = ViralSeqSet()

vss.checksums = { "md5": "72bdc024d83226ccc90fbd2177e78d56" }
vss.study = "prediabetes"

print("Creating a temp file for example/testing purposes.")
temp_file = tempfile.NamedTemporaryFile(delete=False).name
print("Local file: %s" % temp_file)

# Optional properties
vss.comment = "test viral_seq_set comment"
vss.format = "gff3"
vss.format_doc = "the format url"
vss.local_file = temp_file

示例#4

    root = logging.getLogger()
    root.setLevel(logging.DEBUG)
    ch = logging.StreamHandler(sys.stdout)
    ch.setLevel(logging.DEBUG)
    formatter = logging.Formatter(
        '%(asctime)s - %(name)s - %(levelname)s - %(message)s')
    ch.setFormatter(formatter)
    root.addHandler(ch)


set_logging()

session = iHMPSession(username, password)

print("Required fields: ")
print(ViralSeqSet.required_fields())

vss = ViralSeqSet()

vss.checksums = {"md5": "72bdc024d83226ccc90fbd2177e78d56"}
vss.study = "prediabetes"

print("Creating a temp file for example/testing purposes.")
temp_file = tempfile.NamedTemporaryFile(delete=False).name
print("Local file: %s" % temp_file)

# Optional properties
vss.comment = "test viral_seq_set comment"
vss.format = "gff3"
vss.format_doc = "the format url"
vss.local_file = temp_file