diff --git a/.semversioner/next-release/patch-20250417174516646520.json b/.semversioner/next-release/patch-20250417174516646520.json new file mode 100644 index 0000000000..bdc2dfa7ed --- /dev/null +++ b/.semversioner/next-release/patch-20250417174516646520.json @@ -0,0 +1,4 @@ +{ + "type": "patch", + "description": "SQL server storage support for indexing" +} diff --git a/graphrag/config/defaults.py b/graphrag/config/defaults.py index 3977ed5820..e643fd9d4f 100644 --- a/graphrag/config/defaults.py +++ b/graphrag/config/defaults.py @@ -324,6 +324,10 @@ class OutputDefaults: container_name: None = None storage_account_blob_url: None = None cosmosdb_account_url: None = None + database_name: None = None + database_server_name: None = None + autogenerate_tables: None = None + client_id: None = None @dataclass diff --git a/graphrag/config/enums.py b/graphrag/config/enums.py index e382bf1a44..1c8e1705a4 100644 --- a/graphrag/config/enums.py +++ b/graphrag/config/enums.py @@ -66,6 +66,8 @@ class OutputType(str, Enum): """The blob output type.""" cosmosdb = "cosmosdb" """The cosmosdb output type""" + sqlserver = "sqlserver" + """The sqlserver output type""" def __repr__(self): """Get a string representation.""" diff --git a/graphrag/config/models/output_config.py b/graphrag/config/models/output_config.py index e38b137d0f..9bbf6bda4b 100644 --- a/graphrag/config/models/output_config.py +++ b/graphrag/config/models/output_config.py @@ -36,3 +36,19 @@ class OutputConfig(BaseModel): description="The cosmosdb account url to use.", default=graphrag_config_defaults.output.cosmosdb_account_url, ) + database_name: str | None = Field( + description="The database name to use for SQL Server.", + default=graphrag_config_defaults.output.database_name, + ) + database_server_name: str | None = Field( + description="The database server name to use for SQL Server.", + default=graphrag_config_defaults.output.database_server_name, + ) + autogenerate_tables: bool | None = Field( + description="Whether to automatically generate tables in SQL Server.", + default=graphrag_config_defaults.output.autogenerate_tables, + ) + client_id: str | None = Field( + description="The client ID for a User-Assigned Managed Identity (SQL Server).", + default=graphrag_config_defaults.output.client_id, + ) diff --git a/graphrag/index/operations/summarize_communities/graph_context/context_builder.py b/graphrag/index/operations/summarize_communities/graph_context/context_builder.py index e171ce40b6..6eb52ea788 100644 --- a/graphrag/index/operations/summarize_communities/graph_context/context_builder.py +++ b/graphrag/index/operations/summarize_communities/graph_context/context_builder.py @@ -44,7 +44,6 @@ def build_local_context( ): """Prep communities for report generation.""" levels = get_levels(nodes, schemas.COMMUNITY_LEVEL) - dfs = [] for level in progress_iterable(levels, callbacks.progress, len(levels)): diff --git a/graphrag/storage/factory.py b/graphrag/storage/factory.py index 8a6e0df4d6..5282b3ee27 100644 --- a/graphrag/storage/factory.py +++ b/graphrag/storage/factory.py @@ -12,6 +12,7 @@ from graphrag.storage.cosmosdb_pipeline_storage import create_cosmosdb_storage from graphrag.storage.file_pipeline_storage import create_file_storage from graphrag.storage.memory_pipeline_storage import MemoryPipelineStorage +from graphrag.storage.sql_server_pipeline_storage import create_sql_server_storage if TYPE_CHECKING: from graphrag.storage.pipeline_storage import PipelineStorage @@ -45,6 +46,8 @@ def create_storage( return create_cosmosdb_storage(**kwargs) case OutputType.file: return create_file_storage(**kwargs) + case OutputType.sqlserver: + return create_sql_server_storage(**kwargs) case OutputType.memory: return MemoryPipelineStorage() case _: diff --git a/graphrag/storage/sql_server_pipeline_storage.py b/graphrag/storage/sql_server_pipeline_storage.py new file mode 100644 index 0000000000..5426ab95c5 --- /dev/null +++ b/graphrag/storage/sql_server_pipeline_storage.py @@ -0,0 +1,519 @@ +# Copyright (c) 2024 Microsoft Corporation. +# Licensed under the MIT License + +"""Azure SQL Server implementation of PipelineStorage.""" + +import json +import logging +import re +import struct +from collections.abc import Iterator +from io import BytesIO +from typing import Any + +import numpy as np +import pandas as pd +import pyodbc +from azure.identity import DefaultAzureCredential +from pyodbc import Connection + +from graphrag.logger.base import ProgressLogger +from graphrag.logger.progress import Progress +from graphrag.storage.pipeline_storage import ( + PipelineStorage, + get_timestamp_formatted_with_local_tz, +) + +log = logging.getLogger(__name__) + + +class SQLServerPipelineStorage(PipelineStorage): + """Azure SQL Server implementation of PipelineStorage.""" + + _database_name: str + _database_server_name: str + _local_connection_string: str + _autogenerate_tables: bool + _connection: Connection + + def __init__( + self, + database_name: str, + database_server_name: str, + autogenerate_tables: bool = True, + client_id: str | None = None, + ): + """Initialize connection to Azure SQL Server.""" + # Currently, the SQL Server storage requires that the database and tables are created before indexing + # This initialization establishes a connection using the pyodbc SQL driver + self._database_name = database_name + self._database_server_name = database_server_name + self._autogenerate_tables = autogenerate_tables + + # Use password-less authentication for the db server + self._local_connection_string = f"Driver={{ODBC Driver 18 for SQL Server}};Server=tcp:{database_server_name}.database.windows.net,1433;Database={database_name};Encrypt=yes;TrustServerCertificate=no;Connection Timeout=30;LongAsMax=yes" + credential = DefaultAzureCredential() + + # These connection options are recommended by Microsoft + token_bytes = credential.get_token( + "https://database.windows.net/.default" + ).token.encode("UTF-16-LE") + token_struct = struct.pack( + f" None: + """Create tables in SQL Server. + + If autogenerate_tables is not enabled, this method will manually create tables for all parquet outputs using a predefined schema. + """ + # TODO: Currently, most parquet outputs are written to storage and updated multiple times throughout the indexing pipeline, making it difficult to start with a predefined schema. + # In a future PR, figure out how to use the SQL Server storage with a predefined table schema. + msg = "SQL Server storage does not yet support manually predefined table creation." + raise NotImplementedError(msg) + + def find( + self, + file_pattern: re.Pattern[str], + base_dir: str | None = None, + progress: ProgressLogger | None = None, + file_filter: dict[str, Any] | None = None, + max_count=-1, + ) -> Iterator[tuple[str, dict[str, Any]]]: + """Find tables in SQL Server matching a file pattern. + + This method lists available tables that match the pattern (table names in SQL Server). + + Args: + file_pattern: The regex pattern to match against table names + base_dir: Not used for SQL Server + progress: Optional progress logger + file_filter: Optional filter dictionary + max_count: Maximum number of results to return + + Returns + ------- + Iterator of tuples with table name and match groups + """ + log.info( + "Searching SQL Server database %s for tables matching %s", + self._database_name, + file_pattern.pattern, + ) + + def item_filter(item: dict[str, Any]) -> bool: + if file_filter is None: + return True + return all( + re.search(value, item.get(key, "")) + for key, value in file_filter.items() + ) + + try: + cursor = self._connection.cursor() + cursor.execute( + "SELECT TABLE_NAME FROM INFORMATION_SCHEMA.TABLES WHERE TABLE_TYPE = 'BASE TABLE'" + ) + + tables = [row[0] for row in cursor.fetchall()] + num_total = len(tables) + num_loaded = 0 + num_filtered = 0 + + if num_total == 0: + return + + for table_name in tables: + match = file_pattern.search(table_name) + if match: + group = match.groupdict() + if item_filter(group): + yield (table_name, group) + num_loaded += 1 + if max_count > 0 and num_loaded >= max_count: + break + else: + num_filtered += 1 + else: + num_filtered += 1 + + if progress is not None: + progress( + _create_progress_status(num_loaded, num_filtered, num_total) + ) + + except Exception: + log.exception("An error occurred while searching for tables in SQL Server") + + async def get( + self, key: str, as_bytes: bool | None = None, encoding: str | None = None + ) -> Any: + """Get data from SQL Server. + + For parquet files, this will query all rows from the table corresponding to the key. + + Args: + key: The name of the table/file to retrieve + as_bytes: If True, returns parquet bytes for DataFrame data + encoding: Not used for SQL Server + + Returns + ------- + Parquet bytes or JSON string representation of the data + """ + # Only retrieve table contents for parquet files + if key.endswith(".parquet") and as_bytes: + try: + table_name = key.split(".")[0] + query = f"SELECT * FROM [{table_name}]" # noqa: S608 + + cursor = self._connection.cursor() + cursor.execute(query) + + columns = [column[0] for column in cursor.description] + rows = cursor.fetchall() + + # Construct a dataframe from the query results + data = [] + for row in rows: + processed_row = [] + for val in row: + if val is None: + processed_row.append(val) + elif isinstance(val, bytearray): + processed_row.append(bytes(val)) + elif ( + isinstance(val, str) + and val.startswith("[") + and val.endswith("]") + ): + # Parse strings that are fetched as serialized lists + import ast + + try: + parsed_val = ast.literal_eval(val) + if isinstance(parsed_val, list): + processed_row.append(parsed_val) + else: + processed_row.append(val) + except (SyntaxError, ValueError): + processed_row.append(val) + else: + processed_row.append(val) + data.append(processed_row) + + # Create DataFrame from processed data + data_frame = pd.DataFrame(data, columns=np.array(columns)) + buffer = BytesIO() + data_frame.to_parquet(buffer) + buffer.seek(0) + + log.info( + "Successfully fetched table contents for %s from SQL Server", key + ) + return buffer.read() + except Exception: + log.exception("Error reading data %s", key) + return None + else: + log.warning( + "Attempted to call get() on SQL Server storage with non-parquet key %s. Skipping...", + key, + ) + return None + + def _get_embeddings_dimension(self, df: pd.DataFrame) -> int: + """Get the dimension of the embeddings column in the DataFrame. + + Args: + df: The DataFrame containing the embeddings column + + Returns + ------- + The dimension of the embeddings column + """ + if "embedding" in df.columns: + embedding_column = df["embedding"].iloc[0] + if isinstance(embedding_column, list): + return len(embedding_column) + if isinstance(embedding_column, np.ndarray): + return embedding_column.shape[0] + return 0 + + async def set(self, key: str, value: Any, encoding: str | None = None) -> None: + """Set data in SQL Server. + + For parquet files, this creates or replaces a table with the DataFrame data. + + Args: + key: The table/file name + value: Either bytes (parquet) or string (JSON) (only parquet files are written to SQL Server) + encoding: Not used for SQL Server + """ + try: + # Only store parquet file data + if isinstance(value, bytes) and key.endswith(".parquet"): + table_name = key.split(".")[0] + data_frame = pd.read_parquet(BytesIO(value)) + + # Automatically build CREATE TABLE statement based on DataFrame columns + if self._autogenerate_tables: + cursor = self._connection.cursor() + columns = [] + for col_name, dtype in zip( + data_frame.columns, data_frame.dtypes, strict=False + ): + sql_type = "NVARCHAR(MAX)" # Default type + + # Map pandas dtypes to SQL Server types + if col_name == "embedding": + # If we are writing the vector embeddings dataframe, set the embedding column to VECTOR + dim = self._get_embeddings_dimension(data_frame) + sql_type = f"VECTOR({dim})" if dim != 0 else "VECTOR(1536)" # GraphRAG default embedding dimension + elif pd.api.types.is_integer_dtype(dtype): + sql_type = "BIGINT" + elif pd.api.types.is_float_dtype(dtype): + sql_type = "FLOAT" + elif pd.api.types.is_bool_dtype(dtype): + sql_type = "BIT" + elif pd.api.types.is_datetime64_dtype(dtype): + sql_type = "DATETIME2" + + columns.append(f"[{col_name}] {sql_type}") + + cursor.execute( + f"IF OBJECT_ID('{table_name}', 'U') IS NOT NULL DROP TABLE [{table_name}]" + ) + create_table_sql = ( + f"CREATE TABLE [{table_name}] ({', '.join(columns)})" + ) + log.info( + "Automatically generated table: %s with columns: %s", + table_name, + columns, + ) + cursor.execute(create_table_sql) + self._connection.commit() + + # Insert parquet data into SQL server + num_rows = len(data_frame) + placeholders = ", ".join([ + "?" for _ in range(len(data_frame.columns)) + ]) + column_names = ", ".join([ + f"[{col}]" for col in data_frame.columns + ]) + insert_sql = f"INSERT INTO [{table_name}] ({column_names}) VALUES ({placeholders})" # noqa: S608 + log.info( + "Inserting %s rows into table %s", num_rows, table_name + ) + + # Use a row-wise cursor loop for small tables + if num_rows < 1000: + cursor = self._connection.cursor() + for _, row in data_frame.iterrows(): + try: + # Handle various value types, converting complex types to strings + values = [] + for val in row: + if isinstance(val, np.ndarray): + values.append(json.dumps(val.tolist())) + elif isinstance(val, list): + values.append(json.dumps(val)) + elif pd.isna(val): + values.append(None) + else: + values.append(val) + cursor.execute(insert_sql, values) + except Exception: # noqa: BLE001 + log.info( + "Error inserting row %s into table: %s, skipping...", + row.to_dict(), + table_name, + ) + continue + # For large tables, use a bulk insert strategy + else: + cursor = self._connection.cursor() + cursor.fast_executemany = True + bulk_values = [] + for row in data_frame.itertuples(index=False): + # Handle various value types, converting complex types to strings + values = [] + for val in row: + if isinstance(val, np.ndarray): + values.append(json.dumps(val.tolist())) + elif isinstance(val, list): + values.append(json.dumps(val)) + elif pd.isna(val): + values.append(None) + else: + values.append(val) + bulk_values.append(values) + cursor.executemany(insert_sql, bulk_values) + self._connection.commit() + log.info("Successfully stored %s in SQL Server", key) + else: + log.warning( + "Attempted to call set() on SQL Server storage with non-parquet key %s. Skipping...", + key, + ) + except Exception: + self._connection.commit() + log.exception("Error writing data %s: %s.", key) + + async def has(self, key: str) -> bool: + """Check if a table/file exists in SQL Server. + + Args: + key: The table/file name to check + + Returns + ------- + True if the table or metadata entry exists + """ + try: + # Only check existence for parquet files, otherwise return False + if key.endswith(".parquet"): + cursor = self._connection.cursor() + table_name = key.split(".")[0] + cursor.execute( + "SELECT 1 FROM INFORMATION_SCHEMA.TABLES WHERE TABLE_NAME = ?", + table_name, + ) + return cursor.fetchone() is not None + except Exception: + log.exception("Error checking existence of %s: %s", key) + return False + else: + log.warning( + "Attempted to call has() on SQL Server storage with non-parquet key %s", + key, + ) + return False + + async def delete(self, key: str) -> None: + """Delete a table/file from SQL Server. + + Args: + key: The table/file name to delete + """ + # Only delete parquet files + if key.endswith(".parquet"): + try: + table_name = key.split(".")[0] + cursor = self._connection.cursor() + cursor.execute( + f"IF OBJECT_ID('{table_name}', 'U') IS NOT NULL DROP TABLE [{table_name}]" + ) + self._connection.commit() + log.info("Successfully deleted %s from SQL Server", key) + except Exception: + self._connection.rollback() + log.exception("Error deleting %s: %s", key) + else: + log.warning( + "Attempted to call delete() on SQL Server storage with non-parquet key %s. Skipping...", + key, + ) + + async def clear(self) -> None: + """Clear the pipeline storage.""" + msg = "SQL Server storage does not yet support the clear operation." + raise NotImplementedError(msg) + + def child(self, name: str | None) -> "PipelineStorage": + """Create a child pipeline storage.""" + return self + + def keys(self) -> list[str]: + """List all keys in the storage.""" + msg = "SQL Server storage does not yet support listing keys." + raise NotImplementedError(msg) + + async def get_creation_date(self, key: str) -> str: + """Get the creation date for a table or metadata entry. + + Args: + key: The table/file name + + Returns + ------- + Formatted timestamp of creation date or empty string + """ + try: + # Only get creation date for parquet files + if key.endswith(".parquet"): + cursor = self._connection.cursor() + table_name = key.split(".")[0] + cursor.execute( + """ + SELECT create_date + FROM sys.tables t + JOIN sys.objects o ON t.object_id = o.object_id + WHERE t.name = ? + """, + table_name, + ) + row = cursor.fetchone() + if row: + log.info("Successfully retrieved creation date for %s", key) + return get_timestamp_formatted_with_local_tz(row[0]) + return "" + except Exception: + log.exception("Error getting creation date for %s: %s", key) + return "" + else: + log.warning( + "Attempted to call get_creation_date() on SQL Server storage with non-parquet key %s", + key, + ) + return "" + + +def create_sql_server_storage(**kwargs: Any) -> PipelineStorage: + """Create a SQLServer storage instance.""" + log.info("Creating SQL Server storage") + database_name = kwargs.get("database_name") + database_server_name = kwargs.get("database_server_name") + autogenerate_tables = kwargs.get("autogenerate_tables", True) + connection_string = kwargs.get("connection_string") + client_id = kwargs.get("client_id") + if connection_string: + msg = "SQL Server storage does not support connection string authentication. Use managed-identities instead." + raise ValueError(msg) + if not database_name or not database_server_name: + msg = "Both 'database_name' and 'database_server_name' must be provided." + raise ValueError(msg) + return SQLServerPipelineStorage( + database_name=database_name, + database_server_name=database_server_name, + autogenerate_tables=autogenerate_tables, + client_id=client_id, + ) + + +def _create_progress_status( + num_loaded: int, num_filtered: int, num_total: int +) -> Progress: + return Progress( + total_items=num_total, + completed_items=num_loaded + num_filtered, + description=f"{num_loaded} files loaded ({num_filtered} filtered)", + ) diff --git a/poetry.lock b/poetry.lock index 397330cb52..fb0a1e8bb2 100644 --- a/poetry.lock +++ b/poetry.lock @@ -1,4 +1,4 @@ -# This file is automatically @generated by Poetry 1.6.1 and should not be changed by hand. +# This file is automatically @generated by Poetry 1.8.3 and should not be changed by hand. [[package]] name = "aiofiles" @@ -57,18 +57,15 @@ trio = ["trio (>=0.26.1)"] [[package]] name = "anytree" -version = "2.12.1" +version = "2.13.0" description = "Powerful and Lightweight Python Tree Data Structure with various plugins" optional = false -python-versions = ">=3.7.2,<4" +python-versions = "<4.0,>=3.9.2" files = [ - {file = "anytree-2.12.1-py3-none-any.whl", hash = "sha256:5ea9e61caf96db1e5b3d0a914378d2cd83c269dfce1fb8242ce96589fa3382f0"}, - {file = "anytree-2.12.1.tar.gz", hash = "sha256:244def434ccf31b668ed282954e5d315b4e066c4940b94aff4a7962d85947830"}, + {file = "anytree-2.13.0-py3-none-any.whl", hash = "sha256:4cbcf10df36b1f1cba131b7e487ff3edafc9d6e932a3c70071b5b768bab901ff"}, + {file = "anytree-2.13.0.tar.gz", hash = "sha256:c9d3aa6825fdd06af7ebb05b4ef291d2db63e62bb1f9b7d9b71354be9d362714"}, ] -[package.dependencies] -six = "*" - [[package]] name = "appnope" version = "0.1.4" @@ -237,13 +234,13 @@ files = [ [[package]] name = "azure-core" -version = "1.32.0" +version = 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