atlan-application-sdk 1.1.1__py3-none-any.whl → 2.0.0__py3-none-any.whl

application_sdk/activities/common/sql_utils.py

@@ -0,0 +1,308 @@
+from typing import (
+    TYPE_CHECKING,
+    Any,
+    AsyncIterator,
+    Callable,
+    Dict,
+    Iterator,
+    List,
+    Optional,
+    Tuple,
+    Union,
+)
+
+from application_sdk.activities.common.models import ActivityStatistics
+from application_sdk.clients.sql import BaseSQLClient
+from application_sdk.common.utils import (
+    get_database_names,
+    parse_credentials_extra,
+    prepare_query,
+)
+from application_sdk.io.parquet import ParquetFileWriter
+from application_sdk.observability.logger_adaptor import get_logger
+
+if TYPE_CHECKING:
+    import pandas as pd
+
+logger = get_logger(__name__)
+
+
+async def setup_database_connection(
+    sql_client: BaseSQLClient,
+    database_name: str,
+) -> None:
+    """Setup connection for a specific database.
+
+    Args:
+        sql_client: The SQL client to configure.
+        database_name: The name of the database to connect to.
+    """
+    extra = parse_credentials_extra(sql_client.credentials)
+    extra["database"] = database_name
+    sql_client.credentials["extra"] = extra
+    await sql_client.load(sql_client.credentials)
+
+
+def prepare_database_query(
+    sql_query: str,
+    database_name: Optional[str],
+    workflow_args: Dict[str, Any],
+    temp_table_regex_sql: str = "",
+    use_posix_regex: bool = False,
+) -> str:
+    """Prepare query for database execution with proper substitutions.
+
+    Args:
+        sql_query: The raw SQL query string.
+        database_name: The database name to substitute into the query.
+        workflow_args: Workflow arguments for query preparation.
+        temp_table_regex_sql: SQL regex for temp table exclusion.
+        use_posix_regex: Whether to use POSIX regex syntax.
+
+    Returns:
+        The prepared SQL query string.
+
+    Raises:
+        ValueError: If query preparation fails.
+    """
+    # Replace database name placeholder if provided
+    fetch_sql = sql_query
+    if database_name:
+        fetch_sql = fetch_sql.replace("{database_name}", database_name)
+
+    # Prepare the query
+    prepared_query = prepare_query(
+        query=fetch_sql,
+        workflow_args=workflow_args,
+        temp_table_regex_sql=temp_table_regex_sql,
+        use_posix_regex=use_posix_regex,
+    )
+
+    if prepared_query is None:
+        db_context = f" for database {database_name}" if database_name else ""
+        raise ValueError(f"Failed to prepare query{db_context}")
+
+    return prepared_query
+
+
+async def execute_single_db(
+    sql_client: BaseSQLClient,
+    prepared_query: Optional[str],
+    parquet_output: Optional[ParquetFileWriter],
+    write_to_file: bool,
+) -> Tuple[
+    bool, Optional[Union[AsyncIterator["pd.DataFrame"], Iterator["pd.DataFrame"]]]
+]:
+    """Execute a query against a single database.
+
+    Args:
+        sql_client: The SQL client to use.
+        prepared_query: The prepared SQL query to execute.
+        parquet_output: Optional parquet writer for output.
+        write_to_file: Whether to write results to file.
+
+    Returns:
+        Tuple of (success boolean, optional result iterator).
+    """
+    if not prepared_query:
+        logger.error("Prepared query is None, cannot execute")
+        return False, None
+
+    try:
+        batched_iterator = await sql_client.get_batched_results(prepared_query)
+
+        if write_to_file and parquet_output:
+            await parquet_output.write_batches(batched_iterator)  # type: ignore
+            return True, None
+
+        return True, batched_iterator
+    except Exception as e:
+        logger.error(
+            f"Error during query execution or output writing: {e}", exc_info=True
+        )
+        raise
+
+
+async def finalize_multidb_results(
+    write_to_file: bool,
+    concatenate: bool,
+    return_dataframe: bool,
+    parquet_output: Optional[ParquetFileWriter],
+    dataframe_list: List[
+        Union[AsyncIterator["pd.DataFrame"], Iterator["pd.DataFrame"]]
+    ],
+    setup_parquet_output_func: Callable[[str, bool], Optional[ParquetFileWriter]],
+    output_path: str,
+    typename: str,
+) -> Optional[Union[ActivityStatistics, "pd.DataFrame"]]:
+    """Finalize results for multi-database execution.
+
+    Args:
+        write_to_file: Whether results were written to file.
+        concatenate: Whether to concatenate in-memory results.
+        return_dataframe: Whether to return the concatenated dataframe.
+        parquet_output: The parquet writer used (if any).
+        dataframe_list: List of dataframe iterators from each DB.
+        setup_parquet_output_func: Callback to create new parquet output.
+        output_path: Full path for output files.
+        typename: Type name for statistics.
+
+    Returns:
+        Statistics or DataFrame, or None.
+    """
+    if write_to_file and parquet_output:
+        return await parquet_output.close()
+
+    if not write_to_file and concatenate:
+        try:
+            import pandas as pd
+
+            valid_dataframes: List[pd.DataFrame] = []
+            for df_generator in dataframe_list:
+                if df_generator is None:
+                    continue
+                # Handle both async and sync iterators
+                if hasattr(df_generator, "__aiter__"):
+                    async for dataframe in df_generator:  # type: ignore
+                        if dataframe is None or (
+                            hasattr(dataframe, "empty") and dataframe.empty
+                        ):
+                            continue
+                        valid_dataframes.append(dataframe)
+                else:
+                    for dataframe in df_generator:  # type: ignore
+                        if dataframe is None or (
+                            hasattr(dataframe, "empty") and dataframe.empty
+                        ):
+                            continue
+                        valid_dataframes.append(dataframe)
+
+            if not valid_dataframes:
+                logger.warning(
+                    "No valid dataframes collected across databases for concatenation"
+                )
+                return None
+
+            concatenated = pd.concat(valid_dataframes, ignore_index=True)
+
+            if return_dataframe:
+                return concatenated
+
+            # Create new parquet output for concatenated data
+            concatenated_parquet_output = setup_parquet_output_func(output_path, True)
+            if concatenated_parquet_output:
+                await concatenated_parquet_output.write(concatenated)  # type: ignore
+                return await concatenated_parquet_output.close()
+        except Exception as e:
+            logger.error(
+                f"Error concatenating multi-DB dataframes: {str(e)}",
+                exc_info=True,
+            )
+            raise
+
+    logger.warning(
+        "multidb execution returned no output to write (write_to_file=False, concatenate=False)"
+    )
+    return None
+
+
+async def execute_multidb_flow(
+    sql_client: BaseSQLClient,
+    sql_query: str,
+    workflow_args: Dict[str, Any],
+    fetch_database_sql: Optional[str],
+    output_path: str,
+    typename: str,
+    write_to_file: bool,
+    concatenate: bool,
+    return_dataframe: bool,
+    parquet_output: Optional[ParquetFileWriter],
+    temp_table_regex_sql: str,
+    setup_parquet_output_func: Callable[[str, bool], Optional[ParquetFileWriter]],
+) -> Optional[Union[ActivityStatistics, "pd.DataFrame"]]:
+    """Execute multi-database flow with proper error handling and result finalization.
+
+    Args:
+        sql_client: The SQL client to use.
+        sql_query: The SQL query to execute on each database.
+        workflow_args: Workflow arguments.
+        fetch_database_sql: SQL to fetch list of databases.
+        output_path: Full path for output files.
+        typename: Type name for statistics.
+        write_to_file: Whether to write results to file.
+        concatenate: Whether to concatenate in-memory results.
+        return_dataframe: Whether to return the concatenated dataframe.
+        parquet_output: The parquet writer used (if any).
+        temp_table_regex_sql: SQL regex for temp table exclusion.
+        setup_parquet_output_func: Callback to create new parquet output.
+
+    Returns:
+        Statistics or DataFrame, or None.
+    """
+    # Resolve databases to iterate
+    database_names = await get_database_names(
+        sql_client, workflow_args, fetch_database_sql
+    )
+    if not database_names:
+        logger.warning("No databases found to process")
+        return None
+
+    successful_databases: List[str] = []
+    dataframe_list: List[
+        Union[AsyncIterator["pd.DataFrame"], Iterator["pd.DataFrame"]]
+    ] = []
+
+    # Iterate databases and execute
+    for database_name in database_names or []:
+        try:
+            # Setup connection for this database
+            await setup_database_connection(sql_client, database_name)
+
+            # Prepare query for this database
+            prepared_query = prepare_database_query(
+                sql_query,
+                database_name,
+                workflow_args,
+                temp_table_regex_sql,
+                use_posix_regex=True,
+            )
+
+            # Execute using helper method
+            success, batched_iterator = await execute_single_db(
+                sql_client,
+                prepared_query,
+                parquet_output,
+                write_to_file,
+            )
+
+            if success:
+                logger.info(f"Successfully processed database: {database_name}")
+
+        except Exception as e:
+            logger.error(
+                f"Failed to process database '{database_name}': {str(e)}. Failing the workflow.",
+                exc_info=True,
+            )
+            raise
+
+        if success:
+            successful_databases.append(database_name)
+            if not write_to_file and batched_iterator:
+                dataframe_list.append(batched_iterator)
+
+    # Log results
+    logger.info(
+        f"Successfully processed {len(successful_databases)} databases: {successful_databases}"
+    )
+
+    # Finalize results
+    return await finalize_multidb_results(
+        write_to_file,
+        concatenate,
+        return_dataframe,
+        parquet_output,
+        dataframe_list,
+        setup_parquet_output_func,
+        output_path,
+        typename,
+    )

application_sdk/activities/common/utils.py

@@ -5,11 +5,10 @@ including workflow ID retrieval, automatic heartbeating, and periodic heartbeat
 """
 
 import asyncio
-import glob
 import os
 from datetime import timedelta
 from functools import wraps
-from typing import Any, Awaitable, Callable, List, Optional, TypeVar, cast
+from typing import Any, Awaitable, Callable, Optional, TypeVar, cast
 
 from temporalio import activity
 
@@ -230,46 +229,3 @@ async def send_periodic_heartbeat(delay: float, *details: Any) -> None:
     while True:
         await asyncio.sleep(delay)
         activity.heartbeat(*details)
-
-
-def find_local_files_by_extension(
-    path: str,
-    extension: str,
-    file_names: Optional[List[str]] = None,
-) -> List[str]:
-    """Find local files at the specified local path, optionally filtering by file names.
-
-    Args:
-        path (str): Local path to search in (file or directory)
-        extension (str): File extension to filter by (e.g., '.parquet', '.json')
-        file_names (Optional[List[str]]): List of file names (basenames) to filter by, paths are not supported
-
-    Returns:
-        List[str]: List of matching file paths
-
-    Example:
-        >>> find_local_files_by_extension("/data", ".parquet", ["file1.parquet", "file2.parquet"])
-        ['file1.parquet', 'file2.parquet']
-
-        >>> find_local_files_by_extension("/data/single.json", ".json")
-        ['single.json']
-    """
-    if os.path.isfile(path) and path.endswith(extension):
-        # Single file - return it directly
-        return [path]
-
-    elif os.path.isdir(path):
-        # Directory - find all files in directory
-        all_files = glob.glob(
-            os.path.join(path, "**", f"*{extension}"),
-            recursive=True,
-        )
-
-        # Filter by file names if specified
-        if file_names:
-            file_names_set = set(file_names)  # Convert to set for O(1) lookup
-            return [f for f in all_files if os.path.basename(f) in file_names_set]
-        else:
-            return all_files
-
-    return []