From 0d149bc9e7173c616f345a344ebc3d04d9d9061f Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?R=C3=A9mi=20C=C3=A9r=C3=A8s?= <remiceres@msn.com>
Date: Wed, 27 Nov 2019 00:38:13 -0500
Subject: [PATCH] build_graph: Mise en place algorithme de construction du
 graph

---
 data/build_graph.py | 89 +++++++++++++++++++++++++++++++++++++++++++++
 1 file changed, 89 insertions(+)
 create mode 100755 data/build_graph.py

diff --git a/data/build_graph.py b/data/build_graph.py
new file mode 100755
index 0000000..470e3e3
--- /dev/null
+++ b/data/build_graph.py
@@ -0,0 +1,89 @@
+#!/usr/bin/env python
+from fetch import wikidata
+from neo4j import GraphDatabase
+
+
+NEO4J_URI = "bolt://localhost:7687"
+NEO4J_USR = "neo4j"
+NEO4J_PSW = "test"
+
+# Conection with Neo4j
+driver = GraphDatabase.driver(NEO4J_URI, auth=(NEO4J_USR, NEO4J_PSW))
+
+
+
+def define_link_from_type(link_id):
+    """
+    Define typy of link from ID
+
+    :param link_id: id of link
+    :return: type corresponding
+    """
+    if link_id in ["P780","P1542"]:
+        return "Sign_symsymptoms"
+    elif link_id == "P5642":
+        return "Risk_factor"
+    else:
+        raise Exception("Error : unknow link id: " + link_id)
+
+
+
+# Create indexes
+with driver.session() as session:
+        session.run("CREATE INDEX ON :Disease(id);")
+        session.run("CREATE INDEX ON :Sign_symsymptoms(id);")
+        session.run("CREATE INDEX ON :Risk_factor(id);")
+
+# Get all diseases, links, symptoms
+request_disease_links = (wikidata.request("""
+    SELECT ?maladie ?maladieLabel ?link ?linkLabel ?signe_symptome ?signe_symptomeLabel
+    WHERE {
+    ?maladie ?link ?signe_symptome.
+    SERVICE wikibase:label { bd:serviceParam wikibase:language "fr"}.
+    VALUES ?link {wdt:P780 wdt:p1542 wdt:P5642}
+    }
+    ORDER BY ?maladie
+"""
+))['results']['bindings']
+
+for link in request_disease_links:
+    disease_id = link["maladie"]["value"].split("/")[-1]
+    disease_label = link["maladieLabel"]["value"].lower()
+    disease_type = "Disease"
+
+    link_id = link["link"]["value"].split("/")[-1]
+    link_label = link["linkLabel"]["value"].lower()
+    link_type = "link_"+define_link_from_type(link_id)
+
+    signe_symptome_id = link["signe_symptome"]["value"].split("/")[-1]
+    signe_symptome_label = link["signe_symptomeLabel"]["value"].split("/")[-1].lower()
+    signe_symptome_type = define_link_from_type(link_id)
+
+    with driver.session() as session:
+        # add dieadiseases
+        session.run(
+            "MERGE (d:" + disease_type + " {id:$disease_id, label:$disease_label})",
+            disease_id=disease_id,
+            disease_label=disease_label,
+        )
+
+        # add symptoms
+        session.run(
+            "MERGE (s:" + signe_symptome_type + " {id:$signe_symptome_id, label:$signe_symptome_label})",
+            signe_symptome_id=signe_symptome_id,
+            signe_symptome_label=signe_symptome_label,
+        )
+
+        # add link
+        session.run(
+            "MATCH (d:" + disease_type + " {id:$disease_id})"
+            "MATCH (s:" + signe_symptome_type + " {id:$signe_symptome_id})"
+            "MERGE (d)-[l:" + link_type + " {id:$link_id, label:$link_label}]->(s)",
+            link_id=link_id,
+            link_label=link_label,
+            disease_id=disease_id,
+            signe_symptome_id=signe_symptome_id
+        )
+
+# Close Neo4j connection
+driver.close()