feat(ingest/athena): Add option for Athena partitioned profiling (dat…

…ahub-project#10723)

metadata-ingestion/setup.py

@@ -330,7 +330,14 @@
     # sqlalchemy-bigquery is included here since it provides an implementation of
     # a SQLalchemy-conform STRUCT type definition
     "athena": sql_common
-    | {"PyAthena[SQLAlchemy]>=2.6.0,<3.0.0", "sqlalchemy-bigquery>=1.4.1"},
+    # We need to set tenacity lower than 8.4.0 as
+    # this version has missing dependency asyncio
+    # https://github.com/jd/tenacity/issues/471
+    | {
+        "PyAthena[SQLAlchemy]>=2.6.0,<3.0.0",
+        "sqlalchemy-bigquery>=1.4.1",
+        "tenacity!=8.4.0",
+    },
     "azure-ad": set(),
     "bigquery": sql_common
     | bigquery_common

metadata-ingestion/src/datahub/ingestion/source/ge_data_profiler.py

@@ -13,6 +13,7 @@
 import uuid
 from functools import lru_cache
 from typing import (
+    TYPE_CHECKING,
     Any,
     Callable,
     Dict,
@@ -39,6 +40,7 @@
 from great_expectations.dataset.dataset import Dataset
 from great_expectations.dataset.sqlalchemy_dataset import SqlAlchemyDataset
 from great_expectations.datasource.sqlalchemy_datasource import SqlAlchemyDatasource
+from great_expectations.execution_engine.sqlalchemy_dialect import GXSqlDialect
 from great_expectations.profile.base import ProfilerDataType
 from great_expectations.profile.basic_dataset_profiler import BasicDatasetProfilerBase
 from sqlalchemy.engine import Connection, Engine
@@ -72,9 +74,14 @@
     get_query_columns,
 )
 
+if TYPE_CHECKING:
+    from pyathena.cursor import Cursor
+
 assert MARKUPSAFE_PATCHED
 logger: logging.Logger = logging.getLogger(__name__)
 
+_original_get_column_median = SqlAlchemyDataset.get_column_median
+
 P = ParamSpec("P")
 POSTGRESQL = "postgresql"
 MYSQL = "mysql"
@@ -203,6 +210,47 @@ def _get_column_quantiles_bigquery_patch(  # type:ignore
         return list()
 
 
+def _get_column_quantiles_awsathena_patch(  # type:ignore
+    self, column: str, quantiles: Iterable
+) -> list:
+    import ast
+
+    table_name = ".".join(
+        [f'"{table_part}"' for table_part in str(self._table).split(".")]
+    )
+
+    quantiles_list = list(quantiles)
+    quantiles_query = (
+        f"SELECT approx_percentile({column}, ARRAY{str(quantiles_list)}) as quantiles "
+        f"from (SELECT {column} from {table_name})"
+    )
+    try:
+        quantiles_results = self.engine.execute(quantiles_query).fetchone()[0]
+        quantiles_results_list = ast.literal_eval(quantiles_results)
+        return quantiles_results_list
+
+    except ProgrammingError as pe:
+        self._treat_quantiles_exception(pe)
+        return []
+
+
+def _get_column_median_patch(self, column):
+    # AWS Athena and presto have an special function that can be used to retrieve the median
+    if (
+        self.sql_engine_dialect.name.lower() == GXSqlDialect.AWSATHENA
+        or self.sql_engine_dialect.name.lower() == GXSqlDialect.TRINO
+    ):
+        table_name = ".".join(
+            [f'"{table_part}"' for table_part in str(self._table).split(".")]
+        )
+        element_values = self.engine.execute(
+            f"SELECT approx_percentile({column},  0.5) FROM {table_name}"
+        )
+        return convert_to_json_serializable(element_values.fetchone()[0])
+    else:
+        return _original_get_column_median(self, column)
+
+
 def _is_single_row_query_method(query: Any) -> bool:
     SINGLE_ROW_QUERY_FILES = {
         # "great_expectations/dataset/dataset.py",
@@ -1038,6 +1086,12 @@ def generate_profiles(
         ), unittest.mock.patch(
             "great_expectations.dataset.sqlalchemy_dataset.SqlAlchemyDataset._get_column_quantiles_bigquery",
             _get_column_quantiles_bigquery_patch,
+        ), unittest.mock.patch(
+            "great_expectations.dataset.sqlalchemy_dataset.SqlAlchemyDataset._get_column_quantiles_awsathena",
+            _get_column_quantiles_awsathena_patch,
+        ), unittest.mock.patch(
+            "great_expectations.dataset.sqlalchemy_dataset.SqlAlchemyDataset.get_column_median",
+            _get_column_median_patch,
         ), concurrent.futures.ThreadPoolExecutor(
             max_workers=max_workers
         ) as async_executor, SQLAlchemyQueryCombiner(
@@ -1114,15 +1168,16 @@ def _generate_profile_from_request(
             **request.batch_kwargs,
         )
 
-    def _drop_trino_temp_table(self, temp_dataset: Dataset) -> None:
+    def _drop_temp_table(self, temp_dataset: Dataset) -> None:
         schema = temp_dataset._table.schema
         table = temp_dataset._table.name
+        table_name = f'"{schema}"."{table}"' if schema else f'"{table}"'
         try:
             with self.base_engine.connect() as connection:
-                connection.execute(f"drop view if exists {schema}.{table}")
-                logger.debug(f"View {schema}.{table} was dropped.")
+                connection.execute(f"drop view if exists {table_name}")
+                logger.debug(f"View {table_name} was dropped.")
         except Exception:
-            logger.warning(f"Unable to delete trino temporary table: {schema}.{table}")
+            logger.warning(f"Unable to delete temporary table: {table_name}")
 
     def _generate_single_profile(
         self,
@@ -1149,6 +1204,19 @@ def _generate_single_profile(
         }
 
         bigquery_temp_table: Optional[str] = None
+        temp_view: Optional[str] = None
+        if platform and platform.upper() == "ATHENA" and (custom_sql):
+            if custom_sql is not None:
+                # Note that limit and offset are not supported for custom SQL.
+                temp_view = create_athena_temp_table(
+                    self, custom_sql, pretty_name, self.base_engine.raw_connection()
+                )
+                ge_config["table"] = temp_view
+                ge_config["schema"] = None
+                ge_config["limit"] = None
+                ge_config["offset"] = None
+                custom_sql = None
+
         if platform == BIGQUERY and (
             custom_sql or self.config.limit or self.config.offset
         ):
@@ -1234,8 +1302,16 @@ def _generate_single_profile(
                     )
                 return None
             finally:
-                if batch is not None and self.base_engine.engine.name == TRINO:
-                    self._drop_trino_temp_table(batch)
+                if batch is not None and self.base_engine.engine.name.upper() in [
+                    "TRINO",
+                    "AWSATHENA",
+                ]:
+                    if (
+                        self.base_engine.engine.name.upper() == "TRINO"
+                        or temp_view is not None
+                    ):
+                        self._drop_temp_table(batch)
+                    # if we are not on Trino then we only drop table if temp table variable was set
 
     def _get_ge_dataset(
         self,
@@ -1299,6 +1375,40 @@ def _get_column_types_to_ignore(dialect_name: str) -> List[str]:
     return []
 
 
+def create_athena_temp_table(
+    instance: Union[DatahubGEProfiler, _SingleDatasetProfiler],
+    sql: str,
+    table_pretty_name: str,
+    raw_connection: Any,
+) -> Optional[str]:
+    try:
+        cursor: "Cursor" = cast("Cursor", raw_connection.cursor())
+        logger.debug(f"Creating view for {table_pretty_name}: {sql}")
+        temp_view = f"ge_{uuid.uuid4()}"
+        if "." in table_pretty_name:
+            schema_part = table_pretty_name.split(".")[-1]
+            schema_part_quoted = ".".join(
+                [f'"{part}"' for part in str(schema_part).split(".")]
+            )
+            temp_view = f"{schema_part_quoted}_{temp_view}"
+
+        temp_view = f"ge_{uuid.uuid4()}"
+        cursor.execute(f'create or replace view "{temp_view}" as {sql}')
+    except Exception as e:
+        if not instance.config.catch_exceptions:
+            raise e
+        logger.exception(f"Encountered exception while profiling {table_pretty_name}")
+        instance.report.report_warning(
+            table_pretty_name,
+            f"Profiling exception {e} when running custom sql {sql}",
+        )
+        return None
+    finally:
+        raw_connection.close()
+
+    return temp_view
+
+
 def create_bigquery_temp_table(
     instance: Union[DatahubGEProfiler, _SingleDatasetProfiler],
     bq_sql: str,

metadata-ingestion/src/datahub/ingestion/source/ge_profiling_config.py

@@ -147,7 +147,7 @@ class GEProfilingConfig(ConfigModel):
 
     partition_profiling_enabled: bool = Field(
         default=True,
-        description="Whether to profile partitioned tables. Only BigQuery supports this. "
+        description="Whether to profile partitioned tables. Only BigQuery and Aws Athena supports this. "
         "If enabled, latest partition data is used for profiling.",
     )
     partition_datetime: Optional[datetime.datetime] = Field(