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Source code for galaxy.util.ucsc
"""
Utilities for dealing with UCSC data.
"""
[docs]class UCSCOutWrapper(object):
"""File-like object that throws an exception if it encounters the UCSC limit error lines"""
[docs] def __init__(self, other):
self.other = iter(other)
# Need one line of lookahead to be sure we are hitting the limit message
self.lookahead = None
def __iter__(self):
return self
[docs] def next(self):
if self.lookahead is None:
line = self.other.next()
else:
line = self.lookahead
self.lookahead = None
if line.startswith("----------"):
next_line = self.other.next()
if next_line.startswith("Reached output limit"):
raise UCSCLimitException(next_line.strip())
else:
self.lookahead = next_line
return line