Merge pull request #590 from jin38324/main

Enhance Robustness of insert Method with Pipeline Processing and Caching Mechanisms

.gitignore

@@ -21,3 +21,4 @@ rag_storage
 venv/
 examples/input/
 examples/output/
+.DS_Store

examples/lightrag_oracle_demo.py

@@ -20,7 +20,8 @@ BASE_URL = "http://xxx.xxx.xxx.xxx:8088/v1/"
 APIKEY = "ocigenerativeai"
 CHATMODEL = "cohere.command-r-plus"
 EMBEDMODEL = "cohere.embed-multilingual-v3.0"
-
+CHUNK_TOKEN_SIZE = 1024
+MAX_TOKENS = 4000
 
 if not os.path.exists(WORKING_DIR):
     os.mkdir(WORKING_DIR)
@@ -86,30 +87,46 @@ async def main():
         # We use Oracle DB as the KV/vector/graph storage
         # You can add `addon_params={"example_number": 1, "language": "Simplfied Chinese"}` to control the prompt
         rag = LightRAG(
-            enable_llm_cache=False,
+            # log_level="DEBUG",
             working_dir=WORKING_DIR,
-            chunk_token_size=512,
+            entity_extract_max_gleaning=1,
+            enable_llm_cache=True,
+            enable_llm_cache_for_entity_extract=True,
+            embedding_cache_config=None,  # {"enabled": True,"similarity_threshold": 0.90},
+            chunk_token_size=CHUNK_TOKEN_SIZE,
+            llm_model_max_token_size=MAX_TOKENS,
             llm_model_func=llm_model_func,
             embedding_func=EmbeddingFunc(
                 embedding_dim=embedding_dimension,
-                max_token_size=512,
+                max_token_size=500,
                 func=embedding_func,
             ),
             graph_storage="OracleGraphStorage",
             kv_storage="OracleKVStorage",
             vector_storage="OracleVectorDBStorage",
+            addon_params={
+                "example_number": 1,
+                "language": "Simplfied Chinese",
+                "entity_types": ["organization", "person", "geo", "event"],
+                "insert_batch_size": 2,
+            },
         )
 
         # Setthe KV/vector/graph storage's `db` property, so all operation will use same connection pool
-        rag.graph_storage_cls.db = oracle_db
-        rag.key_string_value_json_storage_cls.db = oracle_db
-        rag.vector_db_storage_cls.db = oracle_db
-        # add embedding_func for graph database, it's deleted in commit 5661d76860436f7bf5aef2e50d9ee4a59660146c
-        rag.chunk_entity_relation_graph.embedding_func = rag.embedding_func
+        rag.set_storage_client(db_client=oracle_db)
 
         # Extract and Insert into LightRAG storage
-        with open("./dickens/demo.txt", "r", encoding="utf-8") as f:
-            await rag.ainsert(f.read())
+        with open(WORKING_DIR + "/docs.txt", "r", encoding="utf-8") as f:
+            all_text = f.read()
+            texts = [x for x in all_text.split("\n") if x]
+
+        # New mode use pipeline
+        await rag.apipeline_process_documents(texts)
+        await rag.apipeline_process_chunks()
+        await rag.apipeline_process_extract_graph()
+
+        # Old method use ainsert
+        # await rag.ainsert(texts)
 
         # Perform search in different modes
         modes = ["naive", "local", "global", "hybrid"]

lightrag/kg/oracle_impl.py

@@ -153,8 +153,6 @@ class OracleDB:
                     if data is None:
                         await cursor.execute(sql)
                     else:
-                        # print(data)
-                        # print(sql)
                         await cursor.execute(sql, data)
                     await connection.commit()
         except Exception as e:
@@ -167,35 +165,64 @@ class OracleDB:
 @dataclass
 class OracleKVStorage(BaseKVStorage):
     # should pass db object to self.db
+    db: OracleDB = None
+    meta_fields = None
+
     def __post_init__(self):
         self._data = {}
-        self._max_batch_size = self.global_config["embedding_batch_num"]
+        self._max_batch_size = self.global_config.get("embedding_batch_num", 10)
 
     ################ QUERY METHODS ################
 
     async def get_by_id(self, id: str) -> Union[dict, None]:
-        """根据 id 获取 doc_full 数据."""
+        """get doc_full data based on id."""
         SQL = SQL_TEMPLATES["get_by_id_" + self.namespace]
         params = {"workspace": self.db.workspace, "id": id}
         # print("get_by_id:"+SQL)
-        res = await self.db.query(SQL, params)
+        if "llm_response_cache" == self.namespace:
+            array_res = await self.db.query(SQL, params, multirows=True)
+            res = {}
+            for row in array_res:
+                res[row["id"]] = row
+        else:
+            res = await self.db.query(SQL, params)
         if res:
-            data = res  # {"data":res}
-            # print (data)
-            return data
+            return res
+        else:
+            return None
+
+    async def get_by_mode_and_id(self, mode: str, id: str) -> Union[dict, None]:
+        """Specifically for llm_response_cache."""
+        SQL = SQL_TEMPLATES["get_by_mode_id_" + self.namespace]
+        params = {"workspace": self.db.workspace, "cache_mode": mode, "id": id}
+        if "llm_response_cache" == self.namespace:
+            array_res = await self.db.query(SQL, params, multirows=True)
+            res = {}
+            for row in array_res:
+                res[row["id"]] = row
+            return res
         else:
             return None
 
-    # Query by id
     async def get_by_ids(self, ids: list[str], fields=None) -> Union[list[dict], None]:
-        """根据 id 获取 doc_chunks 数据"""
+        """get doc_chunks data based on id"""
         SQL = SQL_TEMPLATES["get_by_ids_" + self.namespace].format(
             ids=",".join([f"'{id}'" for id in ids])
         )
         params = {"workspace": self.db.workspace}
         # print("get_by_ids:"+SQL)
-        # print(params)
         res = await self.db.query(SQL, params, multirows=True)
+        if "llm_response_cache" == self.namespace:
+            modes = set()
+            dict_res: dict[str, dict] = {}
+            for row in res:
+                modes.add(row["mode"])
+            for mode in modes:
+                if mode not in dict_res:
+                    dict_res[mode] = {}
+            for row in res:
+                dict_res[row["mode"]][row["id"]] = row
+            res = [{k: v} for k, v in dict_res.items()]
         if res:
             data = res  # [{"data":i} for i in res]
             # print(data)
@@ -203,38 +230,43 @@ class OracleKVStorage(BaseKVStorage):
         else:
             return None
 
+    async def get_by_status_and_ids(
+        self, status: str, ids: list[str]
+    ) -> Union[list[dict], None]:
+        """Specifically for llm_response_cache."""
+        if ids is not None:
+            SQL = SQL_TEMPLATES["get_by_status_ids_" + self.namespace].format(
+                ids=",".join([f"'{id}'" for id in ids])
+            )
+        else:
+            SQL = SQL_TEMPLATES["get_by_status_" + self.namespace]
+        params = {"workspace": self.db.workspace, "status": status}
+        res = await self.db.query(SQL, params, multirows=True)
+        if res:
+            return res
+        else:
+            return None
+
     async def filter_keys(self, keys: list[str]) -> set[str]:
-        """过滤掉重复内容"""
+        """Return keys that don't exist in storage"""
         SQL = SQL_TEMPLATES["filter_keys"].format(
             table_name=N_T[self.namespace], ids=",".join([f"'{id}'" for id in keys])
         )
         params = {"workspace": self.db.workspace}
-        try:
-            await self.db.query(SQL, params)
-        except Exception as e:
-            logger.error(f"Oracle database error: {e}")
-            print(SQL)
-            print(params)
         res = await self.db.query(SQL, params, multirows=True)
-        data = None
         if res:
             exist_keys = [key["id"] for key in res]
             data = set([s for s in keys if s not in exist_keys])
+            return data
         else:
-            exist_keys = []
-            data = set([s for s in keys if s not in exist_keys])
-        return data
+            return set(keys)
 
     ################ INSERT METHODS ################
     async def upsert(self, data: dict[str, dict]):
-        left_data = {k: v for k, v in data.items() if k not in self._data}
-        self._data.update(left_data)
-        # print(self._data)
-        # values = []
         if self.namespace == "text_chunks":
             list_data = [
                 {
-                    "__id__": k,
+                    "id": k,
                     **{k1: v1 for k1, v1 in v.items()},
                 }
                 for k, v in data.items()
@@ -250,35 +282,50 @@ class OracleKVStorage(BaseKVStorage):
             embeddings = np.concatenate(embeddings_list)
             for i, d in enumerate(list_data):
                 d["__vector__"] = embeddings[i]
-            # print(list_data)
+
+            merge_sql = SQL_TEMPLATES["merge_chunk"]
             for item in list_data:
-                merge_sql = SQL_TEMPLATES["merge_chunk"]
-                data = {
-                    "check_id": item["__id__"],
-                    "id": item["__id__"],
+                _data = {
+                    "id": item["id"],
                     "content": item["content"],
                     "workspace": self.db.workspace,
                     "tokens": item["tokens"],
                     "chunk_order_index": item["chunk_order_index"],
                     "full_doc_id": item["full_doc_id"],
                     "content_vector": item["__vector__"],
+                    "status": item["status"],
                 }
-                # print(merge_sql)
-                await self.db.execute(merge_sql, data)
-
+                await self.db.execute(merge_sql, _data)
         if self.namespace == "full_docs":
-            for k, v in self._data.items():
+            for k, v in data.items():
                 # values.clear()
                 merge_sql = SQL_TEMPLATES["merge_doc_full"]
-                data = {
-                    "check_id": k,
+                _data = {
                     "id": k,
                     "content": v["content"],
                     "workspace": self.db.workspace,
                 }
-                # print(merge_sql)
-                await self.db.execute(merge_sql, data)
-        return left_data
+                await self.db.execute(merge_sql, _data)
+
+        if self.namespace == "llm_response_cache":
+            for mode, items in data.items():
+                for k, v in items.items():
+                    upsert_sql = SQL_TEMPLATES["upsert_llm_response_cache"]
+                    _data = {
+                        "workspace": self.db.workspace,
+                        "id": k,
+                        "original_prompt": v["original_prompt"],
+                        "return_value": v["return"],
+                        "cache_mode": mode,
+                    }
+
+                    await self.db.execute(upsert_sql, _data)
+        return None
+
+    async def change_status(self, id: str, status: str):
+        SQL = SQL_TEMPLATES["change_status"].format(table_name=N_T[self.namespace])
+        params = {"workspace": self.db.workspace, "id": id, "status": status}
+        await self.db.execute(SQL, params)
 
     async def index_done_callback(self):
         if self.namespace in ["full_docs", "text_chunks"]:
@@ -287,6 +334,8 @@ class OracleKVStorage(BaseKVStorage):
 
 @dataclass
 class OracleVectorDBStorage(BaseVectorStorage):
+    # should pass db object to self.db
+    db: OracleDB = None
     cosine_better_than_threshold: float = 0.2
 
     def __post_init__(self):
@@ -328,7 +377,7 @@ class OracleGraphStorage(BaseGraphStorage):
 
     def __post_init__(self):
         """从graphml文件加载图"""
-        self._max_batch_size = self.global_config["embedding_batch_num"]
+        self._max_batch_size = self.global_config.get("embedding_batch_num", 10)
 
     #################### insert method ################
 
@@ -362,7 +411,6 @@ class OracleGraphStorage(BaseGraphStorage):
             "content": content,
             "content_vector": content_vector,
         }
-        # print(merge_sql)
         await self.db.execute(merge_sql, data)
         # self._graph.add_node(node_id, **node_data)
 
@@ -564,20 +612,26 @@ N_T = {
 TABLES = {
     "LIGHTRAG_DOC_FULL": {
         "ddl": """CREATE TABLE LIGHTRAG_DOC_FULL (
-                    id varchar(256)PRIMARY KEY,
+                    id varchar(256),
                     workspace varchar(1024),
                     doc_name varchar(1024),
                     content CLOB,
                     meta JSON,
+                    content_summary varchar(1024),
+                    content_length NUMBER,
+                    status varchar(256),
+                    chunks_count NUMBER,
                     createtime TIMESTAMP DEFAULT CURRENT_TIMESTAMP,
-                    updatetime TIMESTAMP DEFAULT NULL
+                    updatetime TIMESTAMP DEFAULT NULL,
+                    error varchar(4096)
                     )"""
     },
     "LIGHTRAG_DOC_CHUNKS": {
         "ddl": """CREATE TABLE LIGHTRAG_DOC_CHUNKS (
-                    id varchar(256) PRIMARY KEY,
+                    id varchar(256),
                     workspace varchar(1024),
                     full_doc_id varchar(256),
+                    status varchar(256),
                     chunk_order_index NUMBER,
                     tokens NUMBER,
                     content CLOB,
@@ -619,9 +673,15 @@ TABLES = {
     "LIGHTRAG_LLM_CACHE": {
         "ddl": """CREATE TABLE LIGHTRAG_LLM_CACHE (
                     id varchar(256) PRIMARY KEY,
-                    send clob,
-                    return clob,
-                    model varchar(1024),
+                    workspace varchar(1024),
+                    cache_mode varchar(256),
+                    model_name varchar(256),
+                    original_prompt clob,
+                    return_value clob,
+                    embedding CLOB,
+                    embedding_shape NUMBER,
+                    embedding_min NUMBER,
+                    embedding_max NUMBER,
                     createtime TIMESTAMP DEFAULT CURRENT_TIMESTAMP,
                     updatetime TIMESTAMP DEFAULT NULL
                     )"""
@@ -646,23 +706,44 @@ TABLES = {
 
 SQL_TEMPLATES = {
     # SQL for KVStorage
-    "get_by_id_full_docs": "select ID,NVL(content,'') as content from LIGHTRAG_DOC_FULL where workspace=:workspace and ID=:id",
-    "get_by_id_text_chunks": "select ID,TOKENS,NVL(content,'') as content,CHUNK_ORDER_INDEX,FULL_DOC_ID from LIGHTRAG_DOC_CHUNKS where workspace=:workspace and ID=:id",
-    "get_by_ids_full_docs": "select ID,NVL(content,'') as content from LIGHTRAG_DOC_FULL where workspace=:workspace and ID in ({ids})",
-    "get_by_ids_text_chunks": "select ID,TOKENS,NVL(content,'') as content,CHUNK_ORDER_INDEX,FULL_DOC_ID  from LIGHTRAG_DOC_CHUNKS where workspace=:workspace and ID in ({ids})",
+    "get_by_id_full_docs": "select ID,content,status from LIGHTRAG_DOC_FULL where workspace=:workspace and ID=:id",
+    "get_by_id_text_chunks": "select ID,TOKENS,content,CHUNK_ORDER_INDEX,FULL_DOC_ID,status from LIGHTRAG_DOC_CHUNKS where workspace=:workspace and ID=:id",
+    "get_by_id_llm_response_cache": """SELECT id, original_prompt, NVL(return_value, '') as "return", cache_mode as "mode"
+        FROM LIGHTRAG_LLM_CACHE WHERE workspace=:workspace AND id=:id""",
+    "get_by_mode_id_llm_response_cache": """SELECT id, original_prompt, NVL(return_value, '') as "return", cache_mode as "mode"
+        FROM LIGHTRAG_LLM_CACHE WHERE workspace=:workspace AND cache_mode=:cache_mode AND id=:id""",
+    "get_by_ids_llm_response_cache": """SELECT id, original_prompt, NVL(return_value, '') as "return", cache_mode as "mode"
+        FROM LIGHTRAG_LLM_CACHE WHERE workspace=:workspace  AND id IN ({ids})""",
+    "get_by_ids_full_docs": "select t.*,createtime as created_at from LIGHTRAG_DOC_FULL t where workspace=:workspace and ID in ({ids})",
+    "get_by_ids_text_chunks": "select ID,TOKENS,content,CHUNK_ORDER_INDEX,FULL_DOC_ID  from LIGHTRAG_DOC_CHUNKS where workspace=:workspace and ID in ({ids})",
+    "get_by_status_ids_full_docs": "select id,status from LIGHTRAG_DOC_FULL t where workspace=:workspace AND status=:status and ID in ({ids})",
+    "get_by_status_ids_text_chunks": "select id,status from LIGHTRAG_DOC_CHUNKS where workspace=:workspace and status=:status ID in ({ids})",
+    "get_by_status_full_docs": "select id,status from LIGHTRAG_DOC_FULL t where workspace=:workspace AND status=:status",
+    "get_by_status_text_chunks": "select id,status from LIGHTRAG_DOC_CHUNKS where workspace=:workspace and status=:status",
     "filter_keys": "select id from {table_name} where workspace=:workspace and id in ({ids})",
-    "merge_doc_full": """ MERGE INTO LIGHTRAG_DOC_FULL a
-                    USING DUAL
-                    ON (a.id = :check_id)
-                    WHEN NOT MATCHED THEN
-                    INSERT(id,content,workspace) values(:id,:content,:workspace)
-                    """,
-    "merge_chunk": """MERGE INTO LIGHTRAG_DOC_CHUNKS a
-                    USING DUAL
-                    ON (a.id = :check_id)
-                    WHEN NOT MATCHED THEN
-                    INSERT(id,content,workspace,tokens,chunk_order_index,full_doc_id,content_vector)
-                    values (:id,:content,:workspace,:tokens,:chunk_order_index,:full_doc_id,:content_vector) """,
+    "change_status": "update {table_name} set status=:status,updatetime=SYSDATE where workspace=:workspace and id=:id",
+    "merge_doc_full": """MERGE INTO LIGHTRAG_DOC_FULL a
+        USING DUAL
+        ON (a.id = :id and a.workspace = :workspace)
+        WHEN NOT MATCHED THEN
+        INSERT(id,content,workspace) values(:id,:content,:workspace)""",
+    "merge_chunk": """MERGE INTO LIGHTRAG_DOC_CHUNKS
+        USING DUAL
+        ON (id = :id and workspace = :workspace)
+        WHEN NOT MATCHED THEN INSERT
+            (id,content,workspace,tokens,chunk_order_index,full_doc_id,content_vector,status)
+            values (:id,:content,:workspace,:tokens,:chunk_order_index,:full_doc_id,:content_vector,:status) """,
+    "upsert_llm_response_cache": """MERGE INTO LIGHTRAG_LLM_CACHE a
+        USING DUAL
+        ON (a.id = :id)
+        WHEN NOT MATCHED THEN
+        INSERT (workspace,id,original_prompt,return_value,cache_mode)
+            VALUES (:workspace,:id,:original_prompt,:return_value,:cache_mode)
+        WHEN MATCHED THEN UPDATE
+            SET original_prompt = :original_prompt,
+            return_value = :return_value,
+            cache_mode = :cache_mode,
+            updatetime = SYSDATE""",
     # SQL for VectorStorage
     "entities": """SELECT name as entity_name FROM
         (SELECT id,name,VECTOR_DISTANCE(content_vector,vector(:embedding_string,{dimension},{dtype}),COSINE) as distance
@@ -714,16 +795,22 @@ SQL_TEMPLATES = {
             COLUMNS (a.name as source_name,b.name as target_name))""",
     "merge_node": """MERGE INTO LIGHTRAG_GRAPH_NODES a
                     USING DUAL
-                    ON (a.workspace = :workspace and a.name=:name and a.source_chunk_id=:source_chunk_id)
+                    ON (a.workspace=:workspace and a.name=:name)
                 WHEN NOT MATCHED THEN
                     INSERT(workspace,name,entity_type,description,source_chunk_id,content,content_vector)
-                    values (:workspace,:name,:entity_type,:description,:source_chunk_id,:content,:content_vector) """,
+                    values (:workspace,:name,:entity_type,:description,:source_chunk_id,:content,:content_vector)
+                WHEN MATCHED THEN
+                    UPDATE SET
+                    entity_type=:entity_type,description=:description,source_chunk_id=:source_chunk_id,content=:content,content_vector=:content_vector,updatetime=SYSDATE""",
     "merge_edge": """MERGE INTO LIGHTRAG_GRAPH_EDGES a
                     USING DUAL
-                    ON (a.workspace = :workspace and a.source_name=:source_name and a.target_name=:target_name and a.source_chunk_id=:source_chunk_id)
+                    ON (a.workspace=:workspace and a.source_name=:source_name and a.target_name=:target_name)
                 WHEN NOT MATCHED THEN
                     INSERT(workspace,source_name,target_name,weight,keywords,description,source_chunk_id,content,content_vector)
-                    values (:workspace,:source_name,:target_name,:weight,:keywords,:description,:source_chunk_id,:content,:content_vector) """,
+                    values (:workspace,:source_name,:target_name,:weight,:keywords,:description,:source_chunk_id,:content,:content_vector)
+                WHEN MATCHED THEN
+                    UPDATE SET
+                    weight=:weight,keywords=:keywords,description=:description,source_chunk_id=:source_chunk_id,content=:content,content_vector=:content_vector,updatetime=SYSDATE""",
     "get_all_nodes": """WITH t0 AS (
                         SELECT name AS id, entity_type AS label, entity_type, description,
                             '["' || replace(source_chunk_id, '<SEP>', '","') || '"]'     source_chunk_ids

lightrag/lightrag.py

@@ -28,6 +28,7 @@ from .utils import (
     convert_response_to_json,
     logger,
     set_logger,
+    statistic_data,
 )
 from .base import (
     BaseGraphStorage,
@@ -38,21 +39,30 @@ from .base import (
     DocStatus,
 )
 
-from .storage import (
-    JsonKVStorage,
-    NanoVectorDBStorage,
-    NetworkXStorage,
-    JsonDocStatusStorage,
-)
-
 from .prompt import GRAPH_FIELD_SEP
 
-
-# future KG integrations
-
-# from .kg.ArangoDB_impl import (
-#     GraphStorage as ArangoDBStorage
-# )
+STORAGES = {
+    "JsonKVStorage": ".storage",
+    "NanoVectorDBStorage": ".storage",
+    "NetworkXStorage": ".storage",
+    "JsonDocStatusStorage": ".storage",
+    "Neo4JStorage": ".kg.neo4j_impl",
+    "OracleKVStorage": ".kg.oracle_impl",
+    "OracleGraphStorage": ".kg.oracle_impl",
+    "OracleVectorDBStorage": ".kg.oracle_impl",
+    "MilvusVectorDBStorge": ".kg.milvus_impl",
+    "MongoKVStorage": ".kg.mongo_impl",
+    "ChromaVectorDBStorage": ".kg.chroma_impl",
+    "TiDBKVStorage": ".kg.tidb_impl",
+    "TiDBVectorDBStorage": ".kg.tidb_impl",
+    "TiDBGraphStorage": ".kg.tidb_impl",
+    "PGKVStorage": ".kg.postgres_impl",
+    "PGVectorStorage": ".kg.postgres_impl",
+    "AGEStorage": ".kg.age_impl",
+    "PGGraphStorage": ".kg.postgres_impl",
+    "GremlinStorage": ".kg.gremlin_impl",
+    "PGDocStatusStorage": ".kg.postgres_impl",
+}
 
 
 def lazy_external_import(module_name: str, class_name: str):
@@ -68,34 +78,13 @@ def lazy_external_import(module_name: str, class_name: str):
     def import_class(*args, **kwargs):
         import importlib
 
-        # Import the module using importlib
         module = importlib.import_module(module_name, package=package)
-
-        # Get the class from the module and instantiate it
         cls = getattr(module, class_name)
         return cls(*args, **kwargs)
 
     return import_class
 
 
-Neo4JStorage = lazy_external_import(".kg.neo4j_impl", "Neo4JStorage")
-OracleKVStorage = lazy_external_import(".kg.oracle_impl", "OracleKVStorage")
-OracleGraphStorage = lazy_external_import(".kg.oracle_impl", "OracleGraphStorage")
-OracleVectorDBStorage = lazy_external_import(".kg.oracle_impl", "OracleVectorDBStorage")
-MilvusVectorDBStorge = lazy_external_import(".kg.milvus_impl", "MilvusVectorDBStorge")
-MongoKVStorage = lazy_external_import(".kg.mongo_impl", "MongoKVStorage")
-ChromaVectorDBStorage = lazy_external_import(".kg.chroma_impl", "ChromaVectorDBStorage")
-TiDBKVStorage = lazy_external_import(".kg.tidb_impl", "TiDBKVStorage")
-TiDBVectorDBStorage = lazy_external_import(".kg.tidb_impl", "TiDBVectorDBStorage")
-TiDBGraphStorage = lazy_external_import(".kg.tidb_impl", "TiDBGraphStorage")
-PGKVStorage = lazy_external_import(".kg.postgres_impl", "PGKVStorage")
-PGVectorStorage = lazy_external_import(".kg.postgres_impl", "PGVectorStorage")
-AGEStorage = lazy_external_import(".kg.age_impl", "AGEStorage")
-PGGraphStorage = lazy_external_import(".kg.postgres_impl", "PGGraphStorage")
-GremlinStorage = lazy_external_import(".kg.gremlin_impl", "GremlinStorage")
-PGDocStatusStorage = lazy_external_import(".kg.postgres_impl", "PGDocStatusStorage")
-
-
 def always_get_an_event_loop() -> asyncio.AbstractEventLoop:
     """
     Ensure that there is always an event loop available.
@@ -199,34 +188,51 @@ class LightRAG:
         logger.setLevel(self.log_level)
 
         logger.info(f"Logger initialized for working directory: {self.working_dir}")
+        if not os.path.exists(self.working_dir):
+            logger.info(f"Creating working directory {self.working_dir}")
+            os.makedirs(self.working_dir)
 
-        _print_config = ",\n  ".join([f"{k} = {v}" for k, v in asdict(self).items()])
+        # show config
+        global_config = asdict(self)
+        _print_config = ",\n  ".join([f"{k} = {v}" for k, v in global_config.items()])
         logger.debug(f"LightRAG init with param:\n  {_print_config}\n")
 
-        # @TODO: should move all storage setup here to leverage initial start params attached to self.
+        # Init LLM
+        self.embedding_func = limit_async_func_call(self.embedding_func_max_async)(
+            self.embedding_func
+        )
 
+        # Initialize all storages
         self.key_string_value_json_storage_cls: Type[BaseKVStorage] = (
-            self._get_storage_class()[self.kv_storage]
+            self._get_storage_class(self.kv_storage)
         )
-        self.vector_db_storage_cls: Type[BaseVectorStorage] = self._get_storage_class()[
+        self.vector_db_storage_cls: Type[BaseVectorStorage] = self._get_storage_class(
             self.vector_storage
-        ]
-        self.graph_storage_cls: Type[BaseGraphStorage] = self._get_storage_class()[
+        )
+        self.graph_storage_cls: Type[BaseGraphStorage] = self._get_storage_class(
             self.graph_storage
-        ]
+        )
 
-        if not os.path.exists(self.working_dir):
-            logger.info(f"Creating working directory {self.working_dir}")
-            os.makedirs(self.working_dir)
+        self.key_string_value_json_storage_cls = partial(
+            self.key_string_value_json_storage_cls, global_config=global_config
+        )
 
-        self.llm_response_cache = self.key_string_value_json_storage_cls(
-            namespace="llm_response_cache",
-            global_config=asdict(self),
+        self.vector_db_storage_cls = partial(
+            self.vector_db_storage_cls, global_config=global_config
+        )
+
+        self.graph_storage_cls = partial(
+            self.graph_storage_cls, global_config=global_config
+        )
+
+        self.json_doc_status_storage = self.key_string_value_json_storage_cls(
+            namespace="json_doc_status_storage",
             embedding_func=None,
         )
 
-        self.embedding_func = limit_async_func_call(self.embedding_func_max_async)(
-            self.embedding_func
+        self.llm_response_cache = self.key_string_value_json_storage_cls(
+            namespace="llm_response_cache",
+            embedding_func=None,
         )
 
         ####
@@ -234,17 +240,14 @@ class LightRAG:
         ####
         self.full_docs = self.key_string_value_json_storage_cls(
             namespace="full_docs",
-            global_config=asdict(self),
             embedding_func=self.embedding_func,
         )
         self.text_chunks = self.key_string_value_json_storage_cls(
             namespace="text_chunks",
-            global_config=asdict(self),
             embedding_func=self.embedding_func,
         )
         self.chunk_entity_relation_graph = self.graph_storage_cls(
             namespace="chunk_entity_relation",
-            global_config=asdict(self),
             embedding_func=self.embedding_func,
         )
         ####
@@ -253,72 +256,69 @@ class LightRAG:
 
         self.entities_vdb = self.vector_db_storage_cls(
             namespace="entities",
-            global_config=asdict(self),
             embedding_func=self.embedding_func,
             meta_fields={"entity_name"},
         )
         self.relationships_vdb = self.vector_db_storage_cls(
             namespace="relationships",
-            global_config=asdict(self),
             embedding_func=self.embedding_func,
             meta_fields={"src_id", "tgt_id"},
         )
         self.chunks_vdb = self.vector_db_storage_cls(
             namespace="chunks",
-            global_config=asdict(self),
             embedding_func=self.embedding_func,
         )
 
+        if self.llm_response_cache and hasattr(
+            self.llm_response_cache, "global_config"
+        ):
+            hashing_kv = self.llm_response_cache
+        else:
+            hashing_kv = self.key_string_value_json_storage_cls(
+                namespace="llm_response_cache",
+                embedding_func=None,
+            )
+
         self.llm_model_func = limit_async_func_call(self.llm_model_max_async)(
             partial(
                 self.llm_model_func,
-                hashing_kv=self.llm_response_cache
-                if self.llm_response_cache
-                and hasattr(self.llm_response_cache, "global_config")
-                else self.key_string_value_json_storage_cls(
-                    namespace="llm_response_cache",
-                    global_config=asdict(self),
-                    embedding_func=None,
-                ),
+                hashing_kv=hashing_kv,
                 **self.llm_model_kwargs,
             )
         )
 
         # Initialize document status storage
-        self.doc_status_storage_cls = self._get_storage_class()[self.doc_status_storage]
+        self.doc_status_storage_cls = self._get_storage_class(self.doc_status_storage)
         self.doc_status = self.doc_status_storage_cls(
             namespace="doc_status",
-            global_config=asdict(self),
+            global_config=global_config,
             embedding_func=None,
         )
 
-    def _get_storage_class(self) -> dict:
-        return {
-            # kv storage
-            "JsonKVStorage": JsonKVStorage,
-            "OracleKVStorage": OracleKVStorage,
-            "MongoKVStorage": MongoKVStorage,
-            "TiDBKVStorage": TiDBKVStorage,
-            # vector storage
-            "NanoVectorDBStorage": NanoVectorDBStorage,
-            "OracleVectorDBStorage": OracleVectorDBStorage,
-            "MilvusVectorDBStorge": MilvusVectorDBStorge,
-            "ChromaVectorDBStorage": ChromaVectorDBStorage,
-            "TiDBVectorDBStorage": TiDBVectorDBStorage,
-            # graph storage
-            "NetworkXStorage": NetworkXStorage,
-            "Neo4JStorage": Neo4JStorage,
-            "OracleGraphStorage": OracleGraphStorage,
-            "AGEStorage": AGEStorage,
-            "PGGraphStorage": PGGraphStorage,
-            "PGKVStorage": PGKVStorage,
-            "PGDocStatusStorage": PGDocStatusStorage,
-            "PGVectorStorage": PGVectorStorage,
-            "TiDBGraphStorage": TiDBGraphStorage,
-            "GremlinStorage": GremlinStorage,
-            # "ArangoDBStorage": ArangoDBStorage
-            "JsonDocStatusStorage": JsonDocStatusStorage,
-        }
+    def _get_storage_class(self, storage_name: str) -> dict:
+        import_path = STORAGES[storage_name]
+        storage_class = lazy_external_import(import_path, storage_name)
+        return storage_class
+
+    def set_storage_client(self, db_client):
+        # Now only tested on Oracle Database
+        for storage in [
+            self.vector_db_storage_cls,
+            self.graph_storage_cls,
+            self.doc_status,
+            self.full_docs,
+            self.text_chunks,
+            self.llm_response_cache,
+            self.key_string_value_json_storage_cls,
+            self.chunks_vdb,
+            self.relationships_vdb,
+            self.entities_vdb,
+            self.graph_storage_cls,
+            self.chunk_entity_relation_graph,
+            self.llm_response_cache,
+        ]:
+            # set client
+            storage.db = db_client
 
     def insert(
         self, string_or_strings, split_by_character=None, split_by_character_only=False
@@ -540,6 +540,195 @@ class LightRAG:
             if update_storage:
                 await self._insert_done()
 
+    async def apipeline_process_documents(self, string_or_strings):
+        """Input list remove duplicates, generate document IDs and initial pendding status, filter out already stored documents, store docs
+        Args:
+            string_or_strings: Single document string or list of document strings
+        """
+        if isinstance(string_or_strings, str):
+            string_or_strings = [string_or_strings]
+
+        # 1. Remove duplicate contents from the list
+        unique_contents = list(set(doc.strip() for doc in string_or_strings))
+
+        logger.info(
+            f"Received {len(string_or_strings)} docs, contains {len(unique_contents)} new unique documents"
+        )
+
+        # 2. Generate document IDs and initial status
+        new_docs = {
+            compute_mdhash_id(content, prefix="doc-"): {
+                "content": content,
+                "content_summary": self._get_content_summary(content),
+                "content_length": len(content),
+                "status": DocStatus.PENDING,
+                "created_at": datetime.now().isoformat(),
+                "updated_at": None,
+            }
+            for content in unique_contents
+        }
+
+        # 3. Filter out already processed documents
+        _not_stored_doc_keys = await self.full_docs.filter_keys(list(new_docs.keys()))
+        if len(_not_stored_doc_keys) < len(new_docs):
+            logger.info(
+                f"Skipping {len(new_docs)-len(_not_stored_doc_keys)} already existing documents"
+            )
+        new_docs = {k: v for k, v in new_docs.items() if k in _not_stored_doc_keys}
+
+        if not new_docs:
+            logger.info("All documents have been processed or are duplicates")
+            return None
+
+        # 4. Store original document
+        for doc_id, doc in new_docs.items():
+            await self.full_docs.upsert({doc_id: {"content": doc["content"]}})
+            await self.full_docs.change_status(doc_id, DocStatus.PENDING)
+        logger.info(f"Stored {len(new_docs)} new unique documents")
+
+    async def apipeline_process_chunks(self):
+        """Get pendding documents, split into chunks,insert chunks"""
+        # 1. get all pending and failed documents
+        _todo_doc_keys = []
+        _failed_doc = await self.full_docs.get_by_status_and_ids(
+            status=DocStatus.FAILED, ids=None
+        )
+        _pendding_doc = await self.full_docs.get_by_status_and_ids(
+            status=DocStatus.PENDING, ids=None
+        )
+        if _failed_doc:
+            _todo_doc_keys.extend([doc["id"] for doc in _failed_doc])
+        if _pendding_doc:
+            _todo_doc_keys.extend([doc["id"] for doc in _pendding_doc])
+        if not _todo_doc_keys:
+            logger.info("All documents have been processed or are duplicates")
+            return None
+        else:
+            logger.info(f"Filtered out {len(_todo_doc_keys)} not processed documents")
+
+        new_docs = {
+            doc["id"]: doc for doc in await self.full_docs.get_by_ids(_todo_doc_keys)
+        }
+
+        # 2. split docs into chunks, insert chunks, update doc status
+        chunk_cnt = 0
+        batch_size = self.addon_params.get("insert_batch_size", 10)
+        for i in range(0, len(new_docs), batch_size):
+            batch_docs = dict(list(new_docs.items())[i : i + batch_size])
+            for doc_id, doc in tqdm_async(
+                batch_docs.items(),
+                desc=f"Level 1 - Spliting doc in batch {i//batch_size + 1}",
+            ):
+                try:
+                    # Generate chunks from document
+                    chunks = {
+                        compute_mdhash_id(dp["content"], prefix="chunk-"): {
+                            **dp,
+                            "full_doc_id": doc_id,
+                            "status": DocStatus.PENDING,
+                        }
+                        for dp in chunking_by_token_size(
+                            doc["content"],
+                            overlap_token_size=self.chunk_overlap_token_size,
+                            max_token_size=self.chunk_token_size,
+                            tiktoken_model=self.tiktoken_model_name,
+                        )
+                    }
+                    chunk_cnt += len(chunks)
+                    await self.text_chunks.upsert(chunks)
+                    await self.text_chunks.change_status(doc_id, DocStatus.PROCESSED)
+
+                    try:
+                        # Store chunks in vector database
+                        await self.chunks_vdb.upsert(chunks)
+                        # Update doc status
+                        await self.full_docs.change_status(doc_id, DocStatus.PROCESSED)
+                    except Exception as e:
+                        # Mark as failed if any step fails
+                        await self.full_docs.change_status(doc_id, DocStatus.FAILED)
+                        raise e
+                except Exception as e:
+                    import traceback
+
+                    error_msg = f"Failed to process document {doc_id}: {str(e)}\n{traceback.format_exc()}"
+                    logger.error(error_msg)
+                    continue
+        logger.info(f"Stored {chunk_cnt} chunks from {len(new_docs)} documents")
+
+    async def apipeline_process_extract_graph(self):
+        """Get pendding or failed chunks, extract entities and relationships from each chunk"""
+        # 1. get all pending and failed chunks
+        _todo_chunk_keys = []
+        _failed_chunks = await self.text_chunks.get_by_status_and_ids(
+            status=DocStatus.FAILED, ids=None
+        )
+        _pendding_chunks = await self.text_chunks.get_by_status_and_ids(
+            status=DocStatus.PENDING, ids=None
+        )
+        if _failed_chunks:
+            _todo_chunk_keys.extend([doc["id"] for doc in _failed_chunks])
+        if _pendding_chunks:
+            _todo_chunk_keys.extend([doc["id"] for doc in _pendding_chunks])
+        if not _todo_chunk_keys:
+            logger.info("All chunks have been processed or are duplicates")
+            return None
+
+        # Process documents in batches
+        batch_size = self.addon_params.get("insert_batch_size", 10)
+
+        semaphore = asyncio.Semaphore(
+            batch_size
+        )  # Control the number of tasks that are processed simultaneously
+
+        async def process_chunk(chunk_id):
+            async with semaphore:
+                chunks = {
+                    i["id"]: i for i in await self.text_chunks.get_by_ids([chunk_id])
+                }
+                # Extract and store entities and relationships
+                try:
+                    maybe_new_kg = await extract_entities(
+                        chunks,
+                        knowledge_graph_inst=self.chunk_entity_relation_graph,
+                        entity_vdb=self.entities_vdb,
+                        relationships_vdb=self.relationships_vdb,
+                        llm_response_cache=self.llm_response_cache,
+                        global_config=asdict(self),
+                    )
+                    if maybe_new_kg is None:
+                        logger.info("No entities or relationships extracted!")
+                    # Update status to processed
+                    await self.text_chunks.change_status(chunk_id, DocStatus.PROCESSED)
+                except Exception as e:
+                    logger.error("Failed to extract entities and relationships")
+                    # Mark as failed if any step fails
+                    await self.text_chunks.change_status(chunk_id, DocStatus.FAILED)
+                    raise e
+
+        with tqdm_async(
+            total=len(_todo_chunk_keys),
+            desc="\nLevel 1 - Processing chunks",
+            unit="chunk",
+            position=0,
+        ) as progress:
+            tasks = []
+            for chunk_id in _todo_chunk_keys:
+                task = asyncio.create_task(process_chunk(chunk_id))
+                tasks.append(task)
+
+            for future in asyncio.as_completed(tasks):
+                await future
+                progress.update(1)
+                progress.set_postfix(
+                    {
+                        "LLM call": statistic_data["llm_call"],
+                        "LLM cache": statistic_data["llm_cache"],
+                    }
+                )
+
+        # Ensure all indexes are updated after each document
+        await self._insert_done()
+
     async def _insert_done(self):
         tasks = []
         for storage_inst in [

lightrag/operate.py

@@ -20,6 +20,7 @@ from .utils import (
     handle_cache,
     save_to_cache,
     CacheData,
+    statistic_data,
 )
 from .base import (
     BaseGraphStorage,
@@ -96,6 +97,10 @@ async def _handle_entity_relation_summary(
     description: str,
     global_config: dict,
 ) -> str:
+    """Handle entity relation summary
+    For each entity or relation, input is the combined description of already existing description and new description.
+    If too long, use LLM to summarize.
+    """
     use_llm_func: callable = global_config["llm_model_func"]
     llm_max_tokens = global_config["llm_model_max_token_size"]
     tiktoken_model_name = global_config["tiktoken_model_name"]
@@ -176,6 +181,7 @@ async def _merge_nodes_then_upsert(
     knowledge_graph_inst: BaseGraphStorage,
     global_config: dict,
 ):
+    """Get existing nodes from knowledge graph use name,if exists, merge data, else create, then upsert."""
     already_entity_types = []
     already_source_ids = []
     already_description = []
@@ -356,7 +362,7 @@ async def extract_entities(
                 llm_response_cache.global_config = new_config
                 need_to_restore = True
             if history_messages:
-                history = json.dumps(history_messages)
+                history = json.dumps(history_messages, ensure_ascii=False)
                 _prompt = history + "\n" + input_text
             else:
                 _prompt = input_text
@@ -368,8 +374,10 @@ async def extract_entities(
             if need_to_restore:
                 llm_response_cache.global_config = global_config
             if cached_return:
+                logger.debug(f"Found cache for {arg_hash}")
+                statistic_data["llm_cache"] += 1
                 return cached_return
-
+            statistic_data["llm_call"] += 1
             if history_messages:
                 res: str = await use_llm_func(
                     input_text, history_messages=history_messages
@@ -388,6 +396,11 @@ async def extract_entities(
             return await use_llm_func(input_text)
 
     async def _process_single_content(chunk_key_dp: tuple[str, TextChunkSchema]):
+        """ "Prpocess a single chunk
+        Args:
+            chunk_key_dp (tuple[str, TextChunkSchema]):
+                ("chunck-xxxxxx", {"tokens": int, "content": str, "full_doc_id": str, "chunk_order_index": int})
+        """
         nonlocal already_processed, already_entities, already_relations
         chunk_key = chunk_key_dp[0]
         chunk_dp = chunk_key_dp[1]
@@ -451,10 +464,8 @@ async def extract_entities(
         now_ticks = PROMPTS["process_tickers"][
             already_processed % len(PROMPTS["process_tickers"])
         ]
-        print(
+        logger.debug(
             f"{now_ticks} Processed {already_processed} chunks, {already_entities} entities(duplicated), {already_relations} relations(duplicated)\r",
-            end="",
-            flush=True,
         )
         return dict(maybe_nodes), dict(maybe_edges)
 
@@ -462,8 +473,10 @@ async def extract_entities(
     for result in tqdm_async(
         asyncio.as_completed([_process_single_content(c) for c in ordered_chunks]),
         total=len(ordered_chunks),
-        desc="Extracting entities from chunks",
+        desc="Level 2 - Extracting entities and relationships",
         unit="chunk",
+        position=1,
+        leave=False,
     ):
         results.append(await result)
 
@@ -474,7 +487,7 @@ async def extract_entities(
             maybe_nodes[k].extend(v)
         for k, v in m_edges.items():
             maybe_edges[tuple(sorted(k))].extend(v)
-    logger.info("Inserting entities into storage...")
+    logger.debug("Inserting entities into storage...")
     all_entities_data = []
     for result in tqdm_async(
         asyncio.as_completed(
@@ -484,12 +497,14 @@ async def extract_entities(
             ]
         ),
         total=len(maybe_nodes),
-        desc="Inserting entities",
+        desc="Level 3 - Inserting entities",
         unit="entity",
+        position=2,
+        leave=False,
     ):
         all_entities_data.append(await result)
 
-    logger.info("Inserting relationships into storage...")
+    logger.debug("Inserting relationships into storage...")
     all_relationships_data = []
     for result in tqdm_async(
         asyncio.as_completed(
@@ -501,8 +516,10 @@ async def extract_entities(
             ]
         ),
         total=len(maybe_edges),
-        desc="Inserting relationships",
+        desc="Level 3 - Inserting relationships",
         unit="relationship",
+        position=3,
+        leave=False,
     ):
         all_relationships_data.append(await result)
 

lightrag/utils.py

@@ -30,13 +30,18 @@ class UnlimitedSemaphore:
 
 ENCODER = None
 
+statistic_data = {"llm_call": 0, "llm_cache": 0, "embed_call": 0}
+
 logger = logging.getLogger("lightrag")
 
+# Set httpx logging level to WARNING
+logging.getLogger("httpx").setLevel(logging.WARNING)
+
 
 def set_logger(log_file: str):
     logger.setLevel(logging.DEBUG)
 
-    file_handler = logging.FileHandler(log_file)
+    file_handler = logging.FileHandler(log_file, encoding="utf-8")
     file_handler.setLevel(logging.DEBUG)
 
     formatter = logging.Formatter(
@@ -453,7 +458,8 @@ async def handle_cache(hashing_kv, args_hash, prompt, mode="default"):
         return None, None, None, None
 
     # For naive mode, only use simple cache matching
-    if mode == "naive":
+    # if mode == "naive":
+    if mode == "default":
         if exists_func(hashing_kv, "get_by_mode_and_id"):
             mode_cache = await hashing_kv.get_by_mode_and_id(mode, args_hash) or {}
         else:
@@ -473,7 +479,9 @@ async def handle_cache(hashing_kv, args_hash, prompt, mode="default"):
     quantized = min_val = max_val = None
     if is_embedding_cache_enabled:
         # Use embedding cache
-        embedding_model_func = hashing_kv.global_config["embedding_func"]["func"]
+        embedding_model_func = hashing_kv.global_config[
+            "embedding_func"
+        ].func  # ["func"]
         llm_model_func = hashing_kv.global_config.get("llm_model_func")
 
         current_embedding = await embedding_model_func([prompt])