Python RecordParser Examples

Example #1

File: SProt.py Project: chapmanb/biosqlweb

def read(handle):
    from SProt import RecordParser
    parser = RecordParser()
    try:
        record = parser.parse(handle)
    except ValueError, error:
        if error.message.startswith("Line does not start with 'ID':"): 
            raise ValueError("No SwissProt record found")
        else:
            raise error

Example #2

def read(handle):
    from SProt import RecordParser
    parser = RecordParser()
    try:
        record = parser.parse(handle)
    except ValueError, error:
        if error.message.startswith("Line does not start with 'ID':"):
            raise ValueError("No SwissProt record found")
        else:
            raise error

Example #3

File: SProt.py Project: chapmanb/biosqlweb

def parse(handle):
    from SProt import RecordParser
    import cStringIO
    parser = RecordParser()
    text = ""
    for line in handle:
        text += line
        if line[:2]=='//':
            handle = cStringIO.StringIO(text)
            record = parser.parse(handle)
            text = ""
            yield record

Example #4

def parse(handle):
    from SProt import RecordParser
    import cStringIO
    parser = RecordParser()
    text = ""
    for line in handle:
        text += line
        if line[:2] == '//':
            handle = cStringIO.StringIO(text)
            record = parser.parse(handle)
            text = ""
            yield record