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Added NEO_DB Class
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@john681611
john681611 committed Aug 14, 2023
1 parent 8f69646 commit 71003a8
Showing 1 changed file with 98 additions and 46 deletions.
144 changes: 98 additions & 46 deletions application/database/db.py
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Original file line number Diff line number Diff line change
@@ -1,4 +1,6 @@

from neo4j import GraphDatabase
import neo4j
from sqlalchemy.orm import aliased
import os
import logging
Expand Down Expand Up @@ -157,14 +159,102 @@ class Embeddings(BaseModel): # type: ignore
)



class NEO_DB:
__instance = None

driver = None
connected = False
@classmethod
def instance(self):
if self.__instance is None:
self.__instance = self.__new__(self)

URI = os.getenv('NEO4J_URI') or "neo4j://localhost:7687"
AUTH = (os.getenv('NEO4J_USR') or "neo4j", os.getenv('NEO4J_PASS') or "password")
self.driver = GraphDatabase.driver(URI, auth=AUTH)

try:
self.driver.verify_connectivity()
self.connected = True
except neo4j.exceptions.ServiceUnavailable:
logger.error("NEO4J ServiceUnavailable error - disabling neo4j related features")

return self.__instance

def __init__(sel):
raise ValueError("NEO_DB is a singleton, please call instance() instead")

@classmethod
def add_cre(self, dbcre: CRE):
if not self.connected:
return
self.driver.execute_query(
"MERGE (n:CRE {id: $nid, name: $name, description: $description, external_id: $external_id})",
nid=dbcre.id,
name=dbcre.name,
description=dbcre.description,
external_id=dbcre.external_id,
database_="neo4j")

@classmethod
def add_dbnode(self, dbnode: Node):
if not self.connected:
return
self.driver.execute_query(
"MERGE (n:Node {id: $nid, name: $name, section: $section, section_id: $section_id, subsection: $subsection, tags: $tags, version: $version, description: $description, ntype: $ntype})",
nid=dbnode.id,
name=dbnode.name,
section=dbnode.section,
section_id=dbnode.section_id,
subsection=dbnode.subsection or "",
tags=dbnode.tags,
version=dbnode.version or "",
description=dbnode.description,
ntype=dbnode.ntype,
database_="neo4j")

@classmethod
def link_CRE_to_CRE(self, id1, id2, link_type):
if not self.connected:
return
self.driver.execute_query(
"MATCH (a:CRE), (b:CRE) "
"WHERE a.id = $aID AND b.id = $bID "
"CALL apoc.create.relationship(a,$relType, {},b) "
"YIELD rel "
"RETURN rel",
aID=id1,
bID=id2,
relType=str.upper(link_type).replace(' ', '_'),
database_="neo4j")

@classmethod
def link_CRE_to_Node(self, CRE_id, node_id, link_type):
if not self.connected:
return
self.driver.execute_query(
"MATCH (a:CRE), (b:Node) "
"WHERE a.id = $aID AND b.id = $bID "
"CALL apoc.create.relationship(a,$relType, {},b) "
"YIELD rel "
"RETURN rel",
aID=CRE_id,
bID=node_id,
relType=str.upper(link_type).replace(' ', '_'),
database_="neo4j")


class CRE_Graph:
graph: nx.Graph = None
neo_db: NEO_DB = None
__instance = None

@classmethod
def instance(cls, session):
def instance(cls, session, neo_db: NEO_DB):
if cls.__instance is None:
cls.__instance = cls.__new__(cls)
cls.neo_db = neo_db
cls.graph = cls.load_cre_graph(session)
return cls.__instance

Expand All @@ -180,13 +270,7 @@ def add_node(self, *args, **kwargs):
@classmethod
def add_cre(cls, dbcre: CRE, graph: nx.DiGraph) -> nx.DiGraph:
if dbcre:
Neo4j_driver.execute_query(
"MERGE (n:CRE {id: $nid, name: $name, description: $description, external_id: $external_id})",
nid=dbcre.id,
name=dbcre.name,
description=dbcre.description,
external_id=dbcre.external_id,
database_="neo4j")
cls.neo_db.add_cre(dbcre)
graph.add_node(
f"CRE: {dbcre.id}", internal_id=dbcre.id, external_id=dbcre.external_id
)
Expand All @@ -197,19 +281,7 @@ def add_cre(cls, dbcre: CRE, graph: nx.DiGraph) -> nx.DiGraph:
@classmethod
def add_dbnode(cls, dbnode: Node, graph: nx.DiGraph) -> nx.DiGraph:
if dbnode:
Neo4j_driver.execute_query(
"MERGE (n:Node {id: $nid, name: $name, section: $section, section_id: $section_id, subsection: $subsection, tags: $tags, version: $version, description: $description, ntype: $ntype})",
nid=dbnode.id,
name=dbnode.name,
section=dbnode.section,
section_id=dbnode.section_id,
subsection=dbnode.subsection or "",
tags=dbnode.tags,
version=dbnode.version or "",
description=dbnode.description,
ntype=dbnode.ntype,
database_="neo4j")

cls.neo_db.add_dbnode(dbnode)
# coma separated tags

graph.add_node(
Expand Down Expand Up @@ -238,16 +310,7 @@ def load_cre_graph(cls, session) -> nx.Graph:
graph = cls.add_cre(dbcre=cre, graph=graph)

graph.add_edge(f"CRE: {il.group}", f"CRE: {il.cre}", ltype=il.type)
Neo4j_driver.execute_query(
"MATCH (a:CRE), (b:CRE) "
"WHERE a.id = $aID AND b.id = $bID "
"CALL apoc.create.relationship(a,$relType, {},b) "
"YIELD rel "
"RETURN rel",
aID=il.group,
bID=il.cre,
relType=str.upper(il.type).replace(' ', '_'),
database_="neo4j")
cls.neo_db.link_CRE_to_CRE(il.group, il.cre, il.type)

for lnk in session.query(Links).all():
node = session.query(Node).filter(Node.id == lnk.node).first()
Expand All @@ -259,26 +322,19 @@ def load_cre_graph(cls, session) -> nx.Graph:
graph = cls.add_cre(dbcre=cre, graph=graph)

graph.add_edge(f"CRE: {lnk.cre}", f"Node: {str(lnk.node)}", ltype=lnk.type)
Neo4j_driver.execute_query(
"MATCH (a:CRE), (b:Node) "
"WHERE a.id = $aID AND b.id = $bID "
"CALL apoc.create.relationship(a,$relType, {},b) "
"YIELD rel "
"RETURN rel",
aID=lnk.cre,
bID=lnk.node,
relType=str.upper(lnk.type).replace(' ', '_'),
database_="neo4j")
cls.neo_db.link_CRE_to_Node(lnk.cre, lnk.node, lnk.type)
return graph


class Node_collection:
graph: nx.Graph = None
neo_db: NEO_DB = None
session = sqla.session

def __init__(self) -> None:
if not os.environ.get("NO_LOAD_GRAPH"):
self.graph = CRE_Graph.instance(sqla.session)
self.neo_db = NEO_DB.instance()
self.graph = CRE_Graph.instance(sqla.session, self.neo_db)
self.session = sqla.session

def __get_external_links(self) -> List[Tuple[CRE, Node, str]]:
Expand Down Expand Up @@ -1518,7 +1574,3 @@ def dbCREfromCRE(cre: cre_defs.CRE) -> CRE:
external_id=cre.id,
tags=",".join(tags),
)

URI = "neo4j://localhost:7687"
AUTH = ("neo4j", "password")
Neo4j_driver = GraphDatabase.driver(URI, auth=AUTH)

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