def __init__(self, stream, locus):
GBRecord.__init__(self, stream, locus)
self["location"] = None
keywords = info.parse(stream)
if len(keywords) == 1 and "contig" in keywords:
self["location"] = keywords["contig"]
elif len(keywords) != 0:
stream.throw("Invalid info parsed: %s" % keywords)
line = stream.next().strip()
if line != "//":
stream.throw("Unexpected data after CONTIG: %s" % line)
def __init__(self, stream, locus, stream_seq):
GBRecord.__init__(self, stream, locus)
self["counts"] = {}
keywords = info.parse(stream)
if len(keywords) == 1 and "base count" in keywords:
self["counts"] = keywords["base count"]
elif len(keywords) != 0:
stream.throw("Invalid info parsed: %s" % keywords)
line = iter(stream).next()
if line.strip() != "ORIGIN":
stream.throw("Invalid ORIGIN line: %s" % line.strip())
self.stream = stream
if not stream_seq:
self["sequence"] = ''.join(list(iter(self)))
def __init__(self, stream, locus):
self["locus"] = locus
self["info"] = info.parse(stream)
self["features"] = features.parse(stream)