def string_literal():
whitespace()
quote = one_of('\'"')
commit()
st = u''.join(many1(p(string_char, quote)))
one_of(quote)
return ('str', st)
def parse(cls):
result = {}
@tri
def ident():
pico.hash()
commit()
return many1(any_token)
@tri
def number():
return many1(partial(one_of, string.digits + ' -+()'))
ident = optional(partial(choice, ident, number), None)
if ident is not None:
result['ident'] = re.sub('[ \-+()]', '', "".join(ident))
else:
name = optional(tri(pico.name), None)
if name is not None:
result['name'] = name
whitespace()
if peek() and not result:
raise FormatError(
"We did not understand: %s." % "".join(remaining()))
return result
def parse(self, keyword=None):
roles = HealthRole.objects.all()
by_keyword = dict((role.keyword, role) for role in roles)
matches = difflib.get_close_matches(keyword.upper(), by_keyword)
if not matches:
raise FormatError(
u"Did not understand the keyword: '%s'." % keyword)
keyword = matches[0]
result = {
'role': by_keyword[keyword.upper()],
}
try:
code = u"".join(pico.digits())
except:
raise FormatError(u"Expected an HMIS facility code (got: %s)." %
"".join(remaining()))
try:
facility = result['facility'] = Facility.objects.filter(code=code).get()
except Facility.DoesNotExist:
raise FormatError(u"No such HMIS facility code: %s." % code)
whitespace()
optional(pico.separator, None)
# optionally provide a sub-village group
name = "".join(remaining()).strip()
if name:
# get all (name, location) pairs of all child nodes of
# groups that report to this facility
policies = {}
policy = None
group = None
for policy in facility.policies.all().select_related():
policies[policy.group.name.upper()] = policy
for descendant in policy.group.get_descendants():
try:
group_name = descendant.name.upper()
policies[group_name] = descendant.reporting_policy
except ReportingPolicy.DoesNotExist:
pass
matches = difflib.get_close_matches(name.upper(), policies)
if matches:
name = matches[0]
group = policies[name].group
elif policy is not None:
group = policy.group.add_child(
slug="added_by_user", name='"%s"' % name)
facility.policies.create(group=group)
result['group'] = group
return result
def identifier():
whitespace()
not_followed_by(p(choice, *[p(reserved, rw) for rw in reserved_words]))
first = identifier_char1()
commit()
rest = many(identifier_char)
name = u''.join([first] + rest)
return ('ident', name)
def parse(cls):
one_of('+')
caseless_string('echo')
whitespace()
return {
'echo': "".join(remaining())
}
def end_element(name):
whitespace()
string("</")
commit()
if name != xml_name():
fail()
whitespace()
close_angle()
def xmldecl():
caseless_string("xml")
whitespace()
return (
"xml",
optional(partial(xmldecl_attr, "version", version_num), "1.0"),
optional(partial(xmldecl_attr, "standalone", standalone), "yes"),
)
def end_element(name):
whitespace()
string("</")
commit()
if name != xml_name():
fail()
whitespace()
close_angle()
def number():
whitespace()
lead = u''.join(many1(digit))
commit()
if optional(p(one_of, '.')):
trail = u''.join(many1(digit))
return ('float', float(lead + '.' + trail))
else:
return ('int', int(lead))
def bin_op():
left = term()
op = operator()
commit()
right = expression()
whitespace()
n = BinaryNode(left, op)
return n.merge(right)
def bin_op():
left = term()
op = operator()
commit()
right = expression()
whitespace()
n = BinaryNode(left, op)
return n.merge(right)
def processing(parser = False):
parser = parser or compose(build_string, partial(many, partial(not_one_of, '?')))
string('<?')
commit()
result = parser()
whitespace()
string('?>')
return result
def processing(parser=False):
parser = parser or compose(build_string, partial(many, partial(not_one_of, "?")))
string("<?")
commit()
result = parser()
whitespace()
string("?>")
return result
def _ParseOp(self): """Consumes one operation, defined by left term and right expression, which may be either another term or another ParseOp(). """ left = self._term_parser() op = self._operator() commit() right = self._expr_parser() whitespace() node = self._op_classes[op](self._schema, left) return node.Merge(right)
def _ParseIndexTerm(self):
"""Consumes an index term. If '_', creates a place-holder node
(None); otherwise, creates an IndexTermNode.
"""
whitespace()
index_term = self._phrase()
if index_term == '_':
node = None
else:
node = IndexTermNode(
self._schema, self._table, self._column, index_term)
whitespace()
return node
def unit():
whitespace()
unit = one_of_strings(
'day',
'week', 'wk',
'month', 'mo',
'year', 'yr',
'd',
'w',
'm',
'y', )[0]
optional(partial(one_of, 'sS'), None)
return unit
def parenthetical():
whitespace()
one_of('(')
commit()
whitespace()
v = expression()
whitespace()
one_of(')')
whitespace()
return ParentheticalNode(v)
def parenthetical():
whitespace()
one_of('(')
commit()
whitespace()
v = expression()
whitespace()
one_of(')')
whitespace()
return ParentheticalNode(v)
def _ParseParenthetical(self):
"""Consumes parenthetical expression."""
whitespace()
one_of('(')
commit()
whitespace()
node = self._expr_parser()
whitespace()
one_of(')')
whitespace()
return Parenthetical(self._schema, node)
def parse(cls):
one_of('+')
caseless_string('epi')
aggregates = {}
if whitespace():
while peek():
try:
code = "".join(one_of_strings(*(tuple(cls.TOKENS) + tuple(cls.ALIAS))))
code = code.upper()
except:
raise FormatError(
"Expected an epidemiological indicator "
"such as TB or MA.")
# rewrite alias
code = cls.ALIAS.get(code, code)
if code in aggregates:
raise FormatError("Duplicate value for %s." % code)
whitespace1()
try:
minus = optional(partial(one_of, '-'), '')
value = int("".join([minus]+digits()))
except:
raise FormatError("Expected a value for %s." % code)
if value < 0:
raise FormatError("Got %d for %s. You must report a positive value." % (
value, cls.TOKENS[code].lower()))
aggregates[code] = value
whitespace()
return {
'aggregates': aggregates
}
def _ParsePhrase(self):
"""Consumes a key range specification of the form <table>.<column>=<maybe
quoted value>.
"""
whitespace()
table = self._token().lower()
one_of('.')
commit()
column = self._token().lower()
whitespace()
one_of('=')
whitespace()
phrase = self._param_parser()
node = PhraseNode(self._schema, table, column, phrase)
whitespace()
return node
def xmldecl():
caseless_string('xml')
whitespace()
return ('xml', optional(partial(xmldecl_attr, 'version', version_num), "1.0"),
optional(partial(xmldecl_attr, 'standalone', standalone), "yes"))
def parse(cls):
result = {}
prefix = optional(tri(identifier), None)
if prefix is not None:
result['patient_id'] = "".join(prefix)
whitespace()
one_of('+')
caseless_string('muac')
if prefix is None:
try:
whitespace1()
part = optional(tri(identifier), None)
if part is not None:
result['patient_id'] = "".join(part)
else:
result['name'] = name()
except:
raise FormatError("Expected a patient id or name.")
if 'name' in result:
try:
separator()
result['sex'] = one_of('MmFf').upper()
except:
raise FormatError("Expected either M or F to indicate the patient's gender.")
try:
separator()
except:
raise FormatError("Expected age or birthdate of patient.")
try:
result['age'] = choice(*map(tri, (date, timedelta)))
except:
received, stop = many_until(any_token, comma)
raise FormatError("Expected age or birthdate of patient, but "
"received %s." % "".join(received))
try:
if prefix is None:
separator()
else:
whitespace1()
reading = choice(
partial(one_of_strings, 'red', 'green', 'yellow', 'r', 'g', 'y'),
digits)
try:
reading = int("".join(reading))
except:
reading = reading[0].upper()
else:
whitespace()
unit = optional(partial(one_of_strings, 'mm', 'cm'), None)
if unit is None:
reading = cls.get_reading_in_mm(reading)
elif "".join(unit) == 'cm':
reading = reading * 10
result['reading'] = reading
except:
raise FormatError(
"Expected MUAC reading (either green, yellow or red), but "
"received %s." % "".join(remaining()))
if optional(separator, None):
result['tags'] = tags()
return result
def parse(self, health_id=None):
result = {}
if health_id is None:
try:
part = optional(tri(pico.identifier), None)
if part is not None:
health_id = "".join(part)
else:
result['name'] = pico.name()
except:
raise FormatError("Expected a patient id or name.")
if 'name' in result:
try:
pico.separator()
result['sex'] = pico.one_of_strings(
'male', 'female', 'm', 'f')[0].upper()
except:
raise FormatError(
"Expected either M or F " \
"to indicate the patient's gender (got: %s)." %
"".join(remaining()))
try:
pico.separator()
except:
raise FormatError("Expected age or birthdate of patient.")
try:
result['age'] = choice(*map(tri, (pico.date, pico.timedelta)))
except:
raise FormatError("Expected age or birthdate of patient, but "
"received %s." % "".join(
remaining()).split(',')[0])
if health_id is not None:
result['health_id'] = health_id
try:
whitespace()
optional(pico.separator, None)
reading = choice(
partial(pico.one_of_strings,
'red', 'green', 'yellow', 'r', 'g', 'y'), pico.digits)
try:
reading = int("".join(reading))
except:
result['category'] = reading[0].upper()
else:
whitespace()
unit = optional(partial(pico.one_of_strings, 'mm', 'cm'), None)
if unit is None:
reading = self.get_reading_in_mm(reading)
elif "".join(unit) == 'cm':
reading = reading * 10
result['reading'] = reading
except:
raise FormatError(
"Expected MUAC reading (either green, yellow or red), but "
"received %s." % "".join(remaining()))
if optional(partial(choice, tri(pico.separator), tri(whitespace)), None):
if optional(partial(
pico.one_of_strings, 'oedema', 'odema', 'oe'), None):
result['oedema'] = True
elif peek():
raise FormatError(
"Specify \"oedema\" or \"oe\" if the patient shows "
"signs of oedema, otherwise leave empty (got: %s)." % \
"".join(remaining()))
return result
def prolog():
whitespace()
optional(tri(partial(processing, xmldecl)), None)
many(partial(choice, processing, comment, whitespace1))
optional(doctype, None)
many(partial(choice, processing, comment, whitespace1))
def reserved_op(name): assert name in reserved_operators whitespace() string(name) not_followed_by(operator_char) return name
def parse(cls, keyword=None, keywords=None):
if keywords is None:
keywords = cls.KEYWORDS
slug = keywords[keyword.lower()]
kind = ReportKind.objects.get(slug=slug)
observations = {}
result = {
'observations': observations,
'kind': kind,
}
total = "".join(optional(pico.digits, ()))
if total:
result['total'] = int(total)
many1(partial(one_of, ' ,;'))
kinds = ObservationKind.objects.filter(slug__startswith="%s_" % slug).all()
observation_kinds = dict((kind.slug, kind) for kind in kinds)
codes = [kind.abbr for kind in kinds if kind.abbr]
# we allow both the observation kinds and any aliases
allowed_codes = tuple(codes) + tuple(cls.ALIASES)
while peek():
# look up observation kinds that double as user input
# for the aggregate codes
try:
code = "".join(pico.one_of_strings(*allowed_codes)).lower()
except:
raise FormatError(
"Expected an indicator code "
"such as %s (got: %s)." % (
" or ".join(map(unicode.upper, codes[:2])),
"".join(remaining()).strip() or u"nothing"))
# rewrite alias if required, then look up kind
munged= "%s_%s" % (slug, code)
munged = cls.ALIASES.get(munged, munged)
kind = observation_kinds[munged]
# guard against duplicate entries
if kind.slug in observations:
raise FormatError("Duplicate value for %s." % code)
whitespace()
try:
minus = optional(partial(one_of, '-'), '')
value = int("".join([minus]+pico.digits()))
except:
raise FormatError("Expected a value for %s." % code)
if value < 0:
raise FormatError("Got %d for %s. You must "
"report a positive value." % (
value, kind.name))
observations[kind.slug] = value
many(partial(one_of, ' ,;.'))
return result
def operator():
whitespace()
not_followed_by(p(choice, *[p(reserved_op, op) for op in reserved_operators]))
name = u''.join(many1(operator_char))
return ('op', name)
def special(name): whitespace() string(name) return name
def program():
prog = many(program_part)
whitespace()
eof()
return ('prog', prog)
def reserved(name): assert name in reserved_words whitespace() string(name) not_followed_by(identifier_char) return name
def prolog():
whitespace()
optional(tri(partial(processing, xmldecl)), None)
many(partial(choice, processing, comment, whitespace1))
optional(doctype, None)
many(partial(choice, processing, comment, whitespace1))
