def __init__(self, original_line):
Line.__init__(self, original_line, id_position=0)
try:
self._cui=self.split_line[2]
except IndexError:
raise CUINotFoundError("There was no CUI in the line '%s'" %
self._line)
if self._cui=='':
raise CUINotFoundError("There was no CUI in the line '%s'" %
self._line)
try:
self._description=self.split_line[1]
self._source=self.split_line[7]
self._type=self.split_line[4].upper()
except IndexError:
raise ParsingError("Data missing from line '%s'" % self._line)
# Some entities have no stated confidence. We use 0 in such cases,
# so they can be eliminated from the workflow later.
try:
self.confidence=float(self.split_line[3])/1000.0
except ValueError:
raise NoConfidenceError("Could not parse a confidence value in "
"line '%s'" % self._line)
logging.log(ULTRADEBUG, "Created a MtiLine @ %d: %s (%s) %1.3f",
self.line_id, self._cui,
self._description, self.confidence)
def __init__(self, original_line):
Line.__init__(self, original_line, id_position=0)
# Unnecessary - done in the Line constructor
#line_breakup=self._line.split(self.split_char)
try:
self._cui = self.split_line[4]
except IndexError:
raise CUINotFoundError("There was no CUI in the line '%s'" %
self._line)
if self._cui == '':
raise CUINotFoundError("There was no CUI in the line '%s'" %
self._line)
try:
self._description = self.split_line[3]
self._source = self.split_line[6]
self._semtype = self.split_line[5]
except IndexError:
raise ParsingError("Data missing from line '%s'" % self._line)
# Some entities have no stated confidence. We use 0 in such cases,
# so they can be eliminated from the workflow later.
try:
self.confidence = float(self.split_line[2]) / 1000.0
except ValueError:
raise NoConfidenceError("Could not parse a confidence value in "
"line '%s'" % self._line)
try:
locations = self.split_line[8].split(',')
except:
logging.debug("Could not find a location in line %s", self._line)
locations = [""]
locations = [x.split(':') for x in locations]
locations.sort()
# Use the first appearance of a term as its location
self._location = locations[0]
logging.log(ULTRADEBUG, "Created a MetamapLine @ %d: %s (%s) %1.3f",
self.line_id, self._cui, self._description,
self.confidence)
def __init__(self, original_line):
Line.__init__(self, original_line, id_position=0)
# Unnecessary - done in the Line constructor
#line_breakup=self._line.split(self.split_char)
try:
self._cui=self.split_line[4]
except IndexError:
raise CUINotFoundError("There was no CUI in the line '%s'" %
self._line)
if self._cui=='':
raise CUINotFoundError("There was no CUI in the line '%s'" %
self._line)
try:
self._description=self.split_line[3]
self._source=self.split_line[6]
self._semtype=self.split_line[5]
except IndexError:
raise ParsingError("Data missing from line '%s'" % self._line)
# Some entities have no stated confidence. We use 0 in such cases,
# so they can be eliminated from the workflow later.
try:
self.confidence=float(self.split_line[2])/1000.0
except ValueError:
raise NoConfidenceError("Could not parse a confidence value in "
"line '%s'" % self._line)
try:
locations=self.split_line[8].split(',')
except:
logging.debug("Could not find a location in line %s", self._line)
locations=[""]
locations=[x.split(':') for x in locations]
locations.sort()
# Use the first appearance of a term as its location
self._location=locations[0]
logging.log(ULTRADEBUG, "Created a MetamapLine @ %d: %s (%s) %1.3f",
self.line_id, self._cui,
self._description, self.confidence)
def __init__(self, original_line):
Line.__init__(self,
original_line,
id_position=1,
id_decorator_remover=lambda x: [x])
def __init__(self, original_line):
Line.__init__(self, original_line, id_position=1,
id_decorator_remover=lambda x: [x])