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wikidata_utils.py
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wikidata_utils.py
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from enum import Enum
import json
import logging
import os
import re
from collections import OrderedDict
from datetime import datetime
from functools import lru_cache
from urllib.parse import urlencode
import requests
import tenacity
from jinja2 import Environment, FileSystemLoader, select_autoescape
from rdflib.plugins.sparql.parser import parseQuery
from redis import StrictRedis
from redis_cache import RedisCache
# Cache Wikidata queries in Redis
client = StrictRedis(host="localhost", decode_responses=True)
cache = RedisCache(redis_client=client, prefix="wikidata")
# example of how to clean cache for a function: cached_requests.invalidate_all()
from chainlite import get_logger
import time
logger = get_logger(__name__)
inverse_property_path_regex = re.compile(
"^(\?\w+)\s+wdt:P31\/wdt:P279\*\s+([^\s]+)\s*.$", re.IGNORECASE
)
count_regex = re.compile("COUNT\(\?\w+\)", re.IGNORECASE)
def try_to_optimize_query(query: str) -> str:
# inverse property path
matches = re.findall(inverse_property_path_regex, query)
if len(matches) > 0:
for m in matches:
subst = f"{m[1]} ^wdt:P279*/^wdt:P31 {m[0]} ."
query = re.sub(inverse_property_path_regex, subst, query, count=1)
# count
matches = re.findall(count_regex, query)
if len(matches) > 0:
for m in matches:
subst = "COUNT(*)"
query = re.sub(count_regex, subst, query, count=1)
return query
current_script_directory = os.path.dirname(__file__)
jinja_environment = Environment(
loader=FileSystemLoader(current_script_directory),
autoescape=select_autoescape(),
trim_blocks=True,
lstrip_blocks=True,
line_comment_prefix="#",
)
def fill_template(template_file, prompt_parameter_values={}):
template = jinja_environment.get_template(template_file)
filled_prompt = template.render(**prompt_parameter_values)
filled_prompt = "\n".join(
[line.strip() for line in filled_prompt.split("\n")]
) # remove whitespace at the beginning and end of each line
return filled_prompt
wikidata_url = "https://www.wikidata.org/w/api.php"
class SPARQLResultsTooLargeError(Exception):
def __init__(self, message):
super().__init__(message)
self.message = "Response too large, saving it in Redis will run into errors."
def __str__(self):
return f"SPARQLResultsTooLargeError: {self.message}"
class SPARQLSyntaxError(Exception):
def __init__(self, message):
super().__init__(message)
self.message = message
def __str__(self):
return f"SPARQLSyntaxError: {self.message}"
class SPARQLTimeoutError(Exception):
def __init__(self, message):
super().__init__(message)
self.message = message
def __str__(self):
return f"SPARQLTimeoutError: Query timed out"
def _serialize_error(exception):
return json.dumps({
"type": type(exception).__name__,
"message": exception.message
})
def _if_known_SPARQL_errors(exception_str):
"""
Whether the (cached) input json object denotes one of:
- SPARQLResultsTooLarge
- SPARQL syntax error
in which case directly raise these errors.
"""
try:
exc_info = json.loads(exception_str)
except Exception:
return
if 'type' in exc_info and 'message' in exc_info:
exc_type = exc_info['type']
message = exc_info['message']
if exc_type == "SPARQLResultsTooLargeError":
raise SPARQLResultsTooLargeError("Response too large, saving it in Redis will run into errors.")
if exc_type == "SPARQLSyntaxError":
raise SPARQLSyntaxError(message)
if exc_type == "SPARQLTimeoutError":
raise SPARQLTimeoutError("timeout")
def _extract_wikidata_syntax_error(response: str):
"""
Wikidata server returns a error str for a syntactic invalid SPARQL query directly,
meaning that parsing it using response.json() could raise a JSON decoder error.
In case of a JSON decoder error, go through the response text to determine if it is
a syntactic compliant.
"""
if "java.util.concurrent.ExecutionException" in response:
index = response.find("java.util.concurrent.ExecutionException")
index_end = response.find("at java.util.concurrent", index)
return SPARQLSyntaxError(response[index: index_end])
elif "java.util.concurrent.TimeoutException" in response:
return SPARQLTimeoutError("timeout")
return None
@cache.cache()
def _cached_requests(url, params=None) -> tuple[dict, int]:
if params is not None:
params = dict(params)
r = requests.get(
url,
params=params,
timeout=70,
headers={"User-Agent": "Stanford OVAL, WikiSP project"},
)
if len(r.content) > 10 * 1024 * 1024: # 10MB
return _serialize_error(SPARQLResultsTooLargeError("Response too large, saving it in Redis will run into errors.")), 500
try:
res_json = r.json()
return res_json, r.status_code
except requests.exceptions.JSONDecodeError as e:
syntax_error_object = _extract_wikidata_syntax_error(r.text)
if syntax_error_object is not None:
return _serialize_error(syntax_error_object), 500
raise e
except Exception as e:
raise e
def cached_requests(url, params=None) -> tuple[dict, int]:
"""
params: instead of a dict, it is a tuple of (k, v) so that it is hashable and we can cache it
"""
res = _cached_requests(url, params)
json_object, status_code = res
# raise error if it is a known SPARQL error
_if_known_SPARQL_errors(json_object)
return json_object, status_code
countries = [
"united states of america",
"usa",
"us" "united kingdom",
"gb",
"canada",
"ca",
"australia",
"au",
"new zealand",
"nz",
"south africa",
"za",
"germany",
"de",
"france",
"fr",
"brazil",
"br",
"argentina",
"ar",
"china",
"cn",
"india",
"in",
"russia",
"ru",
"japan",
"jp",
"south korea",
"kr",
"mexico",
"mx",
"indonesia",
"id",
"nigeria",
"ng",
"egypt",
"eg",
"saudi arabia",
"sa",
"turkey",
"tr",
"iran",
"ir",
]
states = [
# United States
"alabama",
"al",
"alaska",
"ak",
"arizona",
"az",
"arkansas",
"ar",
"california",
"ca",
"colorado",
"co",
"connecticut",
"ct",
"delaware",
"de",
"florida",
"fl",
"georgia",
"ga",
"hawaii",
"hi",
"idaho",
"id",
"illinois",
"il",
"indiana",
"in",
"iowa",
"ia",
"kansas",
"ks",
"kentucky",
"ky",
"louisiana",
"la",
"maine",
"me",
"maryland",
"md",
"massachusetts",
"ma",
"michigan",
"mi",
"minnesota",
"mn",
"mississippi",
"ms",
"missouri",
"mo",
"montana",
"mt",
"nebraska",
"ne",
"nevada",
"nv",
"new hampshire",
"nh",
"new jersey",
"nj",
"new mexico",
"nm",
"new york",
"ny",
"north carolina",
"nc",
"north dakota",
"nd",
"ohio",
"oh",
"oklahoma",
"ok",
"oregon",
"or",
"pennsylvania",
"pa",
"rhode island",
"ri",
"south carolina",
"sc",
"south dakota",
"sd",
"tennessee",
"tn",
"texas",
"tx",
"utah",
"ut",
"vermont",
"vt",
"virginia",
"va",
"washington",
"wa",
"west virginia",
"wv",
"wisconsin",
"wi",
"wyoming",
"wy",
# Canada
"alberta",
"ab",
"british columbia",
"bc",
"manitoba",
"mb",
"new brunswick",
"nb",
"newfoundland and labrador",
"nl",
"nova scotia",
"ns",
"ontario",
"on",
"prince edward island",
"pe",
"quebec",
"qc",
"saskatchewan",
"sk",
"northwest territories",
"nt",
"nunavut",
"nu",
"yukon",
"yt",
]
states_and_abbreviations = {
"al": "alabama",
"ak": "alaska",
"az": "arizona",
"ar": "arkansas",
"ca": "california",
"co": "colorado",
"ct": "connecticut",
"de": "delaware",
"fl": "florida",
"ga": "georgia",
"hi": "hawaii",
"id": "idaho",
"il": "illinois",
"in": "indiana",
"ia": "iowa",
"ks": "kansas",
"ky": "kentucky",
"la": "louisiana",
"me": "maine",
"md": "maryland",
"ma": "massachusetts",
"mi": "michigan",
"mn": "minnesota",
"ms": "mississippi",
"mo": "missouri",
"mt": "montana",
"ne": "nebraska",
"nv": "nevada",
"nh": "new hampshire",
"nj": "new jersey",
"nm": "new mexico",
"ny": "new york",
"nc": "north carolina",
"nd": "north dakota",
"oh": "ohio",
"ok": "oklahoma",
"or": "oregon",
"pa": "pennsylvania",
"ri": "rhode island",
"sc": "south carolina",
"sd": "south dakota",
"tn": "tennessee",
"tx": "texas",
"ut": "utah",
"vt": "vermont",
"va": "virginia",
"wa": "washington",
"wv": "west virginia",
"wi": "wisconsin",
"wy": "wyoming",
}
def extract_id_from_uri(uri: str) -> str:
if "wikidata.org" in uri:
return uri[uri.rfind("/") + 1 :]
else:
# e.g. can be a statement like "statement/Q66072077-D5E883AA-1A7A-4F7C-A4B7-2723229A4385"
return uri
def spans(mention):
spans = []
tokens = mention.split()
for length in range(1, len(tokens) + 1):
for index in range(len(tokens) - length + 1):
span = " ".join(tokens[index : index + length])
spans.append(span)
return spans
def search_span(span: str, limit: int = 5, return_full_results=False, type="item"):
"""
type should be one of the following values: form, item, lexeme, property, sense
"""
candidates = []
params = {
"action": "wbsearchentities",
"search": span,
"language": "en",
"limit": limit,
"format": "json",
# "props": "description",
"type": type,
}
data, _ = cached_requests(wikidata_url, params=tuple(params.items()))
if "search" not in data:
with open("parser_error.log", "a") as fd:
fd.write(f"{span} threw error for search_span")
return []
# Accessing the results
results = data["search"]
if return_full_results:
return results
# Print the title of each result
for result in results:
candidates.append(result["id"])
return candidates
def location_search(mention):
"""
In some instances, when NED misses a necessary entity, the semantic parser is trained to predict that in natural language
This function tries to map those to their QIDs by searching Wikidata.
It includes some heuristics to deal with locations like wd:phoenix_az
"""
mention = mention.replace("_", " ")
tokenized = mention.split()
tokens = []
for token in tokenized:
if token in states_and_abbreviations:
tokens.append(states_and_abbreviations[token])
else:
tokens.append(token)
mention = " ".join(tokens)
candidates = search_span(mention)
if len(candidates) > 0:
return candidates[0]
for state in states:
if state in spans(mention):
index = mention.index(state)
candidates = search_span(mention[: index - 1] + ", " + mention[index:])
if len(candidates) > 0:
return candidates[0]
candidates = search_span(mention[: index - 1])
if len(candidates) > 0:
return candidates[0]
for country in countries:
if country in spans(mention):
index = mention.index(country)
candidates = search_span(mention[: index - 1] + ", " + mention[index:])
if len(candidates) > 0:
return candidates[0]
candidates = search_span(mention[: index - 1])
if len(candidates) > 0:
return candidates[0]
def remove_whitespace_string(string):
return "".join(string.split())
class SparqlExecutionStatus(str, Enum):
OK = "ok"
SYNTAX_ERROR = "syntax_error"
TIMED_OUT = "timed_out"
OTHER_ERROR = "other_error"
TOO_LARGE = "too_large"
@staticmethod
def from_http_status_code(http_status_code: int):
if http_status_code == 400:
return SparqlExecutionStatus.SYNTAX_ERROR
elif http_status_code > 400:
return SparqlExecutionStatus.OTHER_ERROR
else:
return SparqlExecutionStatus.OK
def __init__(self, default_message):
self.default_message = default_message
self.custom_message = None
def set_message(self, msg):
self.custom_message = msg
def get_message(self):
return self.custom_message if self.custom_message else self.default_message
@tenacity.retry(
retry=tenacity.retry_if_exception_type(requests.exceptions.RequestException),
wait=tenacity.wait_random_exponential(min=20, exp_base=3),
stop=tenacity.stop_after_attempt(7),
after=tenacity.after_log(logger, logging.INFO),
)
def execute_sparql(
sparql: str, return_status: bool = False
) -> bool | list | tuple[bool | list, SparqlExecutionStatus]:
"""
For syntactically incorrect SPARQLs returns None
"""
url = "https://query.wikidata.org/sparql"
try:
r, status_code = cached_requests(
url, params=tuple({"format": "json", "query": sparql}.items())
)
if status_code in {500, 400, 431, 413, 414}:
# These are unrecoverable errors
# 500: internal server error, 400: bad request (can happen when the SPARQL query is syntactically incorrect)
# 431 for Request Header Fields Too Large
# 413 for Content Too Large
# 414 for URI Too Long for url
if return_status:
return [], SparqlExecutionStatus.from_http_status_code(status_code)
else:
return []
if status_code >= 400:
# 429, too many tries, would be included in this case.
raise # Reraise the exception so that we can retry using tenacity
if "boolean" in r:
res = r["boolean"]
else:
res = r["results"]["bindings"]
if res == [] or (len(res) == 1 and res[0] == {}):
res = []
except requests.exceptions.ReadTimeout:
if return_status:
return [], SparqlExecutionStatus.TIMED_OUT
else:
return []
# except requests.exceptions.JSONDecodeError or json.decoder.JSONDecodeError:
# if return_status:
# return [], SparqlExecutionStatus.TIMED_OUT # TODO it this always the case?
# else:
# return []
except requests.exceptions.ConnectionError:
if return_status:
return [], SparqlExecutionStatus.OTHER_ERROR
else:
return []
except SPARQLResultsTooLargeError:
if return_status:
return [], SparqlExecutionStatus.TOO_LARGE
else:
return []
except SPARQLTimeoutError:
if return_status:
return [], SparqlExecutionStatus.TIMED_OUT
else:
return []
except SPARQLSyntaxError as e:
if return_status:
status = SparqlExecutionStatus.SYNTAX_ERROR
status.set_message(e.message)
return [], status
else:
return []
# except Exception as e:
# return res
# logger.exception(e)
if return_status:
return res, SparqlExecutionStatus.OK
else:
return res
def nl2sparql_execute_sparql_timeout(query):
from pymongo import MongoClient
mongo_client = MongoClient()
sparql_results = mongo_client["sparql_results"]["sparql_results"]
url = "https://query.wikidata.org/sparql"
try:
final_res = True
if sparql_results.find_one({"sparql": query}):
res = sparql_results.find_one({"sparql": query})["results"]
else:
r = requests.post(
url,
params={"format": "json", "query": query},
timeout=70,
headers={"User-Agent": "Stanford CS OVAL, Wikidata project"},
)
r.raise_for_status()
if "boolean" in r.json():
res = r.json()["boolean"]
else:
res = r.json()["results"]["bindings"]
if res == []:
final_res = False
try:
if not sparql_results.find_one({"sparql": query}):
sparql_results.insert_one({"sparql": query, "results": res})
except Exception:
pass
return final_res
except requests.exceptions.HTTPError as err:
# 431 for Request Header Fields Too Large
# 414 for URI Too Long for url
# 504 for Server Error: Gateway Timeout for url
# if r.status_code == 500 or r.status_code == 400 or r.status_code == 431 or r.status_code == 414:
if r.status_code == 429:
time.sleep(60)
res = nl2sparql_execute_sparql_timeout(query)
else:
res = str(err)
# raise # Reraise the exception if it's not a 500 error
except requests.exceptions.ReadTimeout as err:
res = str(err)
except requests.exceptions.JSONDecodeError or json.decoder.JSONDecodeError as err:
res = str(err)
except requests.exceptions.ConnectionError as err:
res = str(err)
except KeyError as err:
res = str(err)
except Exception as err:
res = str(err)
return res
def execute_predicted_sparql(sparql):
# first, let's replace the properties
sparql = sparql.replace("wdt:instance_of/wdt:subclass_of", "wdt:P31/wdt:P279")
url = "https://query.wikidata.org/sparql"
extracted_property_names = [
x[1]
for x in re.findall(r"(wdt:|p:|ps:|pq:)([a-zA-Z_\(\)(\/_)]+)(?![1-9])", sparql)
]
pid_replacements = {}
for replaced_property_name in extracted_property_names:
i = replaced_property_name.replace("_", " ").lower()
pid_query = (
"""
SELECT ?property ?propertyLabel WHERE {
?property rdf:type wikibase:Property .
?property rdfs:label "%s"@en .
SERVICE wikibase:label { bd:serviceParam wikibase:language "en". }
}"""
% i
)
data = execute_sparql(pid_query)
if (
"results" in data
and "bindings" in data["results"]
and len(data["results"]["bindings"]) > 0
):
# Extract the property ID from the response
property_id = data["results"]["bindings"][0]["property"]["value"]
property_id = property_id.replace("http://www.wikidata.org/entity/", "")
else:
# try querying f"{wikidata_url}?action=wbsearchentities&search=songwriter&language=en&limit=20&format=json&type=property"
params = {
"action": "wbsearchentities",
"search": i,
"language": "en",
"limit": 20,
"format": "json",
"type": "property",
}
encoded_url = wikidata_url + "?" + urlencode(params)
response = cached_requests(url=encoded_url)
data = response[0]
if "search" in data and len(data["search"]) > 0:
property_id = data["search"][0]["id"]
else:
# logger.warning("CANNOT FIND PROPERTY: {} for SPARQL {}".format(replaced_property_name, sparql))
return [], sparql
pid_replacements[replaced_property_name] = property_id
def sub_fcn(match):
prefix = match.group(1)
value = match.group(2)
return prefix + pid_replacements[value]
sparql = re.sub(
r"(wdt:|p:|ps:|pq:)([a-zA-Z_\(\)(\/_)]+)(?![1-9])",
lambda match: sub_fcn(match),
sparql,
)
# next, we need to replace the entities
extracted_entity_names = [
x[1] for x in re.findall(r"(wd:)([a-zA-PR-Z_0-9-]+)", sparql)
]
qid_replacements = {}
for extracted_entity_name in extracted_entity_names:
try_location = location_search(extracted_entity_name.replace("_", " "))
if try_location is not None:
try_location = "wd:" + try_location
# print("inserting {} for {}".format(try_location, extracted_entity_name))
qid_replacements[extracted_entity_name] = try_location
else:
# print("CANNOT FIND ENTITY: {} for SPARQL {}".format(extracted_entity_name, sparql))
return [], sparql
def sub_entity_fcn(match):
value = match.group(2)
return qid_replacements[value]
sparql = re.sub(
r"(wd:)([a-zA-PR-Z_0-9-]+)", lambda match: sub_entity_fcn(match), sparql
)
# finally, we can execute
prediction_results = execute_sparql(sparql)
return prediction_results, sparql
@lru_cache()
def get_name_from_qid(qid):
if "wd:" in qid:
qid = qid.replace("wd:", "")
query = f"""
SELECT ?label
WHERE {{
wd:{qid} rdfs:label ?label.
FILTER(LANG(?label) = "en").
}}
"""
r = execute_sparql(query)
if r == [] or r is None:
return None
name = r[0]["label"]["value"]
return name
def format_date(match):
date_string = match.group(0)
if date_string == "0000-00-00T00:00:00Z":
return "0"
if date_string.startswith("0000-"):
# year zero is not allowed in Wikidata dates, but we still encounter it rarely
return datetime.strptime(date_string[5:], "%m-%dT%H:%M:%SZ").strftime("%-d %B")
return datetime.strptime(date_string, "%Y-%m-%dT%H:%M:%SZ").strftime("%-d %B %Y")
def convert_if_date(x: str) -> str:
if x is None:
return x
if type(x) is bool:
return x
return re.sub(r"\d{4}-\d{2}-\d{2}T\d{2}:\d{2}:\d{2}Z", format_date, x)
def convert_each_result(result: str):
# print("result = ", end=None)
# pprint(result)
if "x" in result:
result = result["x"]
elif "count" in result:
result = result["count"]
elif "number" in result:
result = result["number"]
else:
# logger.warning("Did not find 'x' or 'count' in %s", str(i))
found_good_key = False
candidates = []
for key in result:
if "type" in result[key] and result[key]["type"] == "literal":
candidates.append(result[key])
if candidates:
result = min(candidates, key=lambda x: len(x["value"]))
found_good_key = len(candidates) > 0
if not found_good_key:
for key in result:
if "type" in result[key] and result[key]["type"] == "uri":
found_good_key = True
result = result[key]
break
if not found_good_key:
logger.error(
"Could not convert the result %s", str(result)
) # just to make sure we are not missing anything
return ""
if result["type"] == "uri":
# extract QID part from results
qid = extract_id_from_uri(result["value"])
name = get_name_from_qid(qid)
if name:
return name
# then it was most likely a url like https://de.wikipedia.org/wiki/Gambling,_Gods_and_LSD
return result["value"]
elif result["type"] == "literal":
return result["value"]
else:
raise ValueError()
def get_actual_names_from_results(executed_result):
# convert QIDs to their actual names
if isinstance(executed_result, bool):
return [executed_result]
# if there are too many results, it would not pass anyways, so just choose the top 20
# executed_result = executed_result[:20]
ret = [convert_if_date(convert_each_result(r)) for r in executed_result]
ret = [
r for r in ret if r is not None
] # some entities like Q24941172 don't have a human-readable label in Wikidata, ignore them
return ret
def check_sparql_syntax(query):
try:
# Attempt to parse the SPARQL query
parse_result = parseQuery(query)
# If parsing succeeds, the query is syntactically correct
return True
except Exception as e:
# If parsing fails, the query is syntactically incorrect
return False
def get_property_examples(pid: str):
"""Get a list of examples (according to property P1855)
for a given property
Args:
pid (str): e.g. "P155" or "wd:P155" or "wdt:155"
Returns:
a list of tuples, [(subject, pid_label, object)], where in WikiData
there exists a tuple of the form:
(subject, pid, object)
and subject and object are already in their labels
e.g., for P155, we will have:
[..., ('April', 'follows', 'March'), ...]
meaning that April follows March
"""
if pid.startswith("wd:"):
pid = pid.replace("wd:", "")
if pid.startswith("wdt:"):
pid = pid.replace("wdt:", "")
sparql_query = f"""
SELECT DISTINCT ?subLabel ?objLabel WHERE {{
wd:{pid} p:P1855 ?v.
?v ps:P1855 ?sub.
?v pq:{pid} ?obj.
SERVICE wikibase:label {{ bd:serviceParam wikibase:language "[AUTO_LANGUAGE],en" . }}
}}
"""
res = execute_sparql(sparql_query)
try:
res = [
(
i["subLabel"]["value"],
get_property_or_entity_description(pid)["label"],
i["objLabel"]["value"],
)
for i in res
]
except Exception as e:
logger.warning(
"Property %s throw exception %s in get_property_examples()", pid, str(e)
)
if not res:
logger.warning("Property %s has no examples", pid)
return res
def get_property_or_entity_description(p_or_qid: str):
"""Get label and description for a given property or entity
Args:
p_or_qid (str): e.g. "P155" or "wd:P155" or "wdt:P155"
Returns:
{
"label": property label in English,
"description": property description in English
}
"""
if p_or_qid.startswith("wd:"):
p_or_qid = p_or_qid.replace("wd:", "")
if p_or_qid.startswith("wdt:"):
p_or_qid = p_or_qid.replace("wdt:", "")
sparql_query = f"""
SELECT ?propertyLabel ?propertyDesc
WHERE {{
SERVICE wikibase:label {{
bd:serviceParam wikibase:language "en" .
wd:{p_or_qid} rdfs:label ?propertyLabel .
wd:{p_or_qid} schema:description ?propertyDesc .
}}
}}
"""
res = execute_sparql(sparql_query)
# not "propertyDesc" in res[0] would denote no description available
if not res or not "propertyDesc" in res[0]:
return None
return {
"label": res[0]["propertyLabel"]["value"],
"description": res[0]["propertyDesc"]["value"],
}
@lru_cache()
def get_outgoing_edges(qid: str, compact: bool):
"""
QID example: Q679545
compact: if True, will exclude the "Description" field from the output
"""
property_sparql = f"""
SELECT DISTINCT ?p ?v ?p2Label ?vLabel ?vDescription WHERE {{
wd:{qid} ?p ?v.
FILTER(STRSTARTS(STR(?p), str(wdt:))) .
BIND (IRI(replace(str(?p), str(wdt:), str(wd:))) AS ?p2)
?p2 wikibase:propertyType ?type .
FILTER (?type != wikibase:ExternalId) .
OPTIONAL {{
?v schema:description ?vDescription .
FILTER(LANG(?vDescription) = "en")
}}
SERVICE wikibase:label {{ bd:serviceParam wikibase:language "[AUTO_LANGUAGE],en" . }}
}}
"""