From 8587272d8bceec271f462747e3550abf1b3ad903 Mon Sep 17 00:00:00 2001 From: Mustafa Kerem Kurban Date: Sat, 8 Jun 2024 00:35:36 +0200 Subject: [PATCH] local edges and nodes instead of neo4j --- src/citation/flask/server.py | 89 +++++------------------------- src/citation/flask/server_neo4j.py | 81 +++++++++++++++++++++++++++ static/links.json | 1 + static/nodes.json | 1 + templates/bloom.html | 53 ++++++++++++++++++ templates/index.html | 31 +++++++++++ templates/neo4j.html | 50 +++++++++++++++++ templates/neo4j_limit.html | 52 +++++++++++++++++ templates/vr.html | 66 ++++++++++++++++++++++ 9 files changed, 348 insertions(+), 76 deletions(-) create mode 100644 src/citation/flask/server_neo4j.py create mode 100644 static/links.json create mode 100644 static/nodes.json create mode 100644 templates/bloom.html create mode 100644 templates/index.html create mode 100644 templates/neo4j.html create mode 100644 templates/neo4j_limit.html create mode 100644 templates/vr.html diff --git a/src/citation/flask/server.py b/src/citation/flask/server.py index f06b78d..25e344a 100644 --- a/src/citation/flask/server.py +++ b/src/citation/flask/server.py @@ -1,81 +1,18 @@ -from flask import Flask, jsonify, render_template, request -from neo4j import GraphDatabase -import time -import os +"""Flask server for the citation graph.""" +from flask import Flask, render_template -app = Flask(__name__, static_folder='../../../static', template_folder='../../../templates') +app = Flask( + __name__, + static_folder="../../../static", + template_folder="../../../templates", +) -# Neo4j connection details from environment variables -uri = os.getenv("NEO4J_URI", "bolt://localhost:7687") -username = os.getenv("NEO4J_USERNAME", "neo4j") -password = os.getenv("NEO4J_PASSWORD", "password") -driver = GraphDatabase.driver(uri, auth=(username, password)) - -def get_nodes_and_links(tx, limit=100): - nodes = [] - links = [] - - # Query to get limited nodes with all properties - result = tx.run(f""" - MATCH (n:Paper) - RETURN n - LIMIT {limit} - """) - for record in result: - node = record["n"] - node_data = { - "uid": node["uid"], - "label": node["title"] if "title" in node else node.id, - "is_bbp": node.get("is_bbp", False), - } - nodes.append(node_data) - - # Collect node UIDs - node_uids = [node["uid"] for node in nodes] - - # Query to get relationships between the limited nodes - result = tx.run(f""" - MATCH (n:Paper)-[r:CITES]->(m:Paper) - WHERE n.uid IN {node_uids} AND m.uid IN {node_uids} - RETURN n.uid AS source, m.uid AS target, r - """) - for record in result: - link_data = { - "source": record["source"], - "target": record["target"], - } - links.append(link_data) - - return nodes, links - -def with_retry(session_func, *args, retries=5, delay=1): - for attempt in range(retries): - try: - with driver.session() as session: - return session_func(session, *args) - except InterruptedError: - if attempt < retries - 1: - time.sleep(delay) - continue - else: - raise - -@app.route('/nodes') -def get_nodes(): - limit = int(request.args.get('limit', 100)) # Get limit from query parameter or default to 100 - nodes, _ = with_retry(lambda s: s.read_transaction(get_nodes_and_links, limit)) - return jsonify(nodes) - -@app.route('/links') -def get_links(): - limit = int(request.args.get('limit', 100)) # Get limit from query parameter or default to 100 - _, links = with_retry(lambda s: s.read_transaction(get_nodes_and_links, limit)) - return jsonify(links) - -@app.route('/') +@app.route("/") def index(): - return render_template('index.html') + """Render the index page.""" + return render_template("index.html") + -if __name__ == '__main__': - app.run(debug=True) \ No newline at end of file +if __name__ == "__main__": + app.run(debug=True) diff --git a/src/citation/flask/server_neo4j.py b/src/citation/flask/server_neo4j.py new file mode 100644 index 0000000..f06b78d --- /dev/null +++ b/src/citation/flask/server_neo4j.py @@ -0,0 +1,81 @@ +from flask import Flask, jsonify, render_template, request +from neo4j import GraphDatabase +import time +import os + +app = Flask(__name__, static_folder='../../../static', template_folder='../../../templates') + +# Neo4j connection details from environment variables +uri = os.getenv("NEO4J_URI", "bolt://localhost:7687") +username = os.getenv("NEO4J_USERNAME", "neo4j") +password = os.getenv("NEO4J_PASSWORD", "password") + +driver = GraphDatabase.driver(uri, auth=(username, password)) + +def get_nodes_and_links(tx, limit=100): + nodes = [] + links = [] + + # Query to get limited nodes with all properties + result = tx.run(f""" + MATCH (n:Paper) + RETURN n + LIMIT {limit} + """) + for record in result: + node = record["n"] + node_data = { + "uid": node["uid"], + "label": node["title"] if "title" in node else node.id, + "is_bbp": node.get("is_bbp", False), + } + nodes.append(node_data) + + # Collect node UIDs + node_uids = [node["uid"] for node in nodes] + + # Query to get relationships between the limited nodes + result = tx.run(f""" + MATCH (n:Paper)-[r:CITES]->(m:Paper) + WHERE n.uid IN {node_uids} AND m.uid IN {node_uids} + RETURN n.uid AS source, m.uid AS target, r + """) + for record in result: + link_data = { + "source": record["source"], + "target": record["target"], + } + links.append(link_data) + + return nodes, links + +def with_retry(session_func, *args, retries=5, delay=1): + for attempt in range(retries): + try: + with driver.session() as session: + return session_func(session, *args) + except InterruptedError: + if attempt < retries - 1: + time.sleep(delay) + continue + else: + raise + +@app.route('/nodes') +def get_nodes(): + limit = int(request.args.get('limit', 100)) # Get limit from query parameter or default to 100 + nodes, _ = with_retry(lambda s: s.read_transaction(get_nodes_and_links, limit)) + return jsonify(nodes) + +@app.route('/links') +def get_links(): + limit = int(request.args.get('limit', 100)) # Get limit from query parameter or default to 100 + _, links = with_retry(lambda s: s.read_transaction(get_nodes_and_links, limit)) + return jsonify(links) + +@app.route('/') +def index(): + return render_template('index.html') + +if __name__ == '__main__': + app.run(debug=True) \ No newline at end of file diff --git a/static/links.json b/static/links.json new file mode 100644 index 0000000..6ecf198 --- /dev/null +++ b/static/links.json @@ -0,0 +1 @@ +[{"source": "38645618", "target": "31121126", "type": "cites"}, {"source": "38470935", "target": "31121126", "type": "cites"}, {"source": "38408099", "target": "31121126", "type": "cites"}, {"source": "38410682", "target": "31121126", "type": "cites"}, {"source": "38228893", "target": "31121126", "type": "cites"}, {"source": "38032904", "target": "31121126", "type": "cites"}, {"source": "38025966", "target": "31121126", "type": "cites"}, {"source": "37399421", "target": "31121126", "type": "cites"}, {"source": "37196986", "target": "31121126", "type": "cites"}, {"source": "37011110", 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