build_graph: Mise en place algorithme de construction du graph
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#!/usr/bin/env python
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from fetch import wikidata
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from neo4j import GraphDatabase
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NEO4J_URI = "bolt://localhost:7687"
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NEO4J_USR = "neo4j"
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NEO4J_PSW = "test"
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# Conection with Neo4j
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driver = GraphDatabase.driver(NEO4J_URI, auth=(NEO4J_USR, NEO4J_PSW))
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def define_link_from_type(link_id):
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"""
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Define typy of link from ID
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:param link_id: id of link
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:return: type corresponding
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"""
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if link_id in ["P780","P1542"]:
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return "Sign_symsymptoms"
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elif link_id == "P5642":
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return "Risk_factor"
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else:
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raise Exception("Error : unknow link id: " + link_id)
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# Create indexes
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with driver.session() as session:
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session.run("CREATE INDEX ON :Disease(id);")
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session.run("CREATE INDEX ON :Sign_symsymptoms(id);")
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session.run("CREATE INDEX ON :Risk_factor(id);")
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# Get all diseases, links, symptoms
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request_disease_links = (wikidata.request("""
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SELECT ?maladie ?maladieLabel ?link ?linkLabel ?signe_symptome ?signe_symptomeLabel
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WHERE {
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?maladie ?link ?signe_symptome.
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SERVICE wikibase:label { bd:serviceParam wikibase:language "fr"}.
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VALUES ?link {wdt:P780 wdt:p1542 wdt:P5642}
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}
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ORDER BY ?maladie
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"""
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))['results']['bindings']
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for link in request_disease_links:
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disease_id = link["maladie"]["value"].split("/")[-1]
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disease_label = link["maladieLabel"]["value"].lower()
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disease_type = "Disease"
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link_id = link["link"]["value"].split("/")[-1]
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link_label = link["linkLabel"]["value"].lower()
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link_type = "link_"+define_link_from_type(link_id)
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signe_symptome_id = link["signe_symptome"]["value"].split("/")[-1]
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signe_symptome_label = link["signe_symptomeLabel"]["value"].split("/")[-1].lower()
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signe_symptome_type = define_link_from_type(link_id)
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with driver.session() as session:
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# add dieadiseases
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session.run(
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"MERGE (d:" + disease_type + " {id:$disease_id, label:$disease_label})",
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disease_id=disease_id,
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disease_label=disease_label,
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)
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# add symptoms
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session.run(
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"MERGE (s:" + signe_symptome_type + " {id:$signe_symptome_id, label:$signe_symptome_label})",
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signe_symptome_id=signe_symptome_id,
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signe_symptome_label=signe_symptome_label,
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)
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# add link
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session.run(
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"MATCH (d:" + disease_type + " {id:$disease_id})"
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"MATCH (s:" + signe_symptome_type + " {id:$signe_symptome_id})"
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"MERGE (d)-[l:" + link_type + " {id:$link_id, label:$link_label}]->(s)",
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link_id=link_id,
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link_label=link_label,
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disease_id=disease_id,
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signe_symptome_id=signe_symptome_id
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)
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# Close Neo4j connection
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driver.close()
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