diff --git a/README.md b/README.md index e9af621..93cc900 100644 --- a/README.md +++ b/README.md @@ -312,11 +312,12 @@ This target supports the [`x-sql-datatype` extension](https://sdk.meltano.com/en -| `x-sql-datatype` | Postgres | Description | -| :--------------- | :------- | :----------------------------------------------------------------- | -| smallint | smallint | small-range integer (-32768 to +32767) | -| integer | integer | typical choice for integer (-2147483648 to +2147483647) | -| bigint | bigint | large-range integer (-9223372036854775808 to +9223372036854775807) | +| `x-sql-datatype` | Postgres | Description | +| :--------------- | :------- | :------------------------------------------------------------------------------------------------------------------------------- | +| smallint | smallint | small-range integer (-32768 to +32767) | +| integer | integer | typical choice for integer (-2147483648 to +2147483647) | +| bigint | bigint | large-range integer (-9223372036854775808 to +9223372036854775807) | +| pgvector | vector | vector similarity search (requires [pgvector](https://github.com/pgvector/pgvector) extension and the `pgvector` Python package) | ### Using the Singer catalog to narrow down the Postgres data types @@ -350,6 +351,36 @@ plugins: x-sql-datatype: smallint ``` +For vector embeddings: + +```yaml +# meltano.yml +plugins: + extractors: + - name: tap-my-tap + schema: + some_stream_id: + embedding: + type: array + items: + type: number + x-sql-datatype: pgvector +``` + +**Important:** To use `pgvector` data types: +1. The [pgvector extension](https://github.com/pgvector/pgvector) **MUST** be installed and enabled in your PostgreSQL database: + ```sql + CREATE EXTENSION IF NOT EXISTS vector; + ``` +2. The `pgvector` Python package **MUST** be installed in your environment: + ```bash + pip install pgvector + # or with the target + pip install meltanolabs-target-postgres pgvector + ``` + +If the `pgvector` Python package is not installed, the target will fall back to using `ARRAY(INTEGER)` with a warning. + ## Content Encoding Support Json Schema supports the [`contentEncoding` keyword](https://datatracker.ietf.org/doc/html/rfc4648#section-8), which can be used to specify the encoding of input string types. diff --git a/pyproject.toml b/pyproject.toml index b8be397..f01dca2 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -56,11 +56,13 @@ lint = [ "ruff>=0.1.14", ] testing = [ + "pgvector>=0.4.1", "pytest>=9", "tap-countries", "tap-fundamentals", ] typing = [ + { include-group = "testing" }, "mypy>=1.6.1", "types-paramiko>=4", "types-simplejson>=3.19.0.2", @@ -83,6 +85,12 @@ warn_redundant_casts = true warn_unused_configs = true warn_unused_ignores = true +[[tool.mypy.overrides]] +follow_untyped_imports = true +module = [ + "pgvector.*", +] + [build-system] requires = [ "hatchling==1.27.0", @@ -119,12 +127,6 @@ select = [ "RUF", # ruff ] -[tool.ruff.lint.flake8-import-conventions] -banned-from = ["sqlalchemy"] - -[tool.ruff.lint.flake8-import-conventions.extend-aliases] -sqlalchemy = "sa" - [tool.ruff.lint.pydocstyle] convention = "google" diff --git a/target_postgres/connector.py b/target_postgres/connector.py index e49fc1c..ba73a2e 100644 --- a/target_postgres/connector.py +++ b/target_postgres/connector.py @@ -5,6 +5,7 @@ import atexit import io import itertools +import logging import math import signal import socket @@ -18,7 +19,8 @@ import paramiko import simplejson -import sqlalchemy as sa +import sqlalchemy +import sqlalchemy.engine from singer_sdk.sql import SQLConnector from singer_sdk.sql.connector import JSONSchemaToSQL from sqlalchemy.dialects.postgresql import ( @@ -29,7 +31,6 @@ SMALLINT, UUID, ) -from sqlalchemy.engine import URL from sqlalchemy.engine.url import make_url from sqlalchemy.types import ( BOOLEAN, @@ -43,8 +44,25 @@ TypeDecorator, ) +try: + from pgvector.sqlalchemy import VECTOR + + PGVECTOR_AVAILABLE = True +except ImportError: + PGVECTOR_AVAILABLE = False + if t.TYPE_CHECKING: from singer_sdk.sql.connector import FullyQualifiedName + from sqlalchemy import types + +logger = logging.getLogger(__name__) + + +def _handle_vector_type(schema: dict) -> VECTOR | ARRAY: + if not PGVECTOR_AVAILABLE: + logger.warning("pgvector is not available, falling back to ARRAY(INTEGER)") + return ARRAY(INTEGER()) + return VECTOR() class SSHTunnelForwarder: @@ -245,7 +263,7 @@ def __init__(self, config: dict) -> None: Args: config: Configuration for the connector. """ - url: URL = make_url(self.get_sqlalchemy_url(config=config)) + url: sqlalchemy.engine.URL = make_url(self.get_sqlalchemy_url(config=config)) ssh_config = config.get("ssh_tunnel", {}) self.ssh_tunnel: SSHTunnelForwarder | None = None @@ -305,10 +323,10 @@ def prepare_table( # type: ignore[override] # noqa: PLR0913 full_table_name: str | FullyQualifiedName, schema: dict, primary_keys: t.Sequence[str], - connection: sa.engine.Connection, + connection: sqlalchemy.engine.Connection, partition_keys: list[str] | None = None, as_temp_table: bool = False, - ) -> sa.Table: + ) -> sqlalchemy.Table: """Adapt target table to provided schema if possible. Args: @@ -323,8 +341,8 @@ def prepare_table( # type: ignore[override] # noqa: PLR0913 The table object. """ _, schema_name, table_name = self.parse_full_table_name(full_table_name) - meta = sa.MetaData(schema=schema_name) - table: sa.Table + meta = sqlalchemy.MetaData(schema=schema_name) + table: sqlalchemy.Table if not self.table_exists(full_table_name=full_table_name): return self.create_empty_table( table_name=table_name, @@ -364,10 +382,10 @@ def prepare_table( # type: ignore[override] # noqa: PLR0913 def copy_table_structure( self, full_table_name: str | FullyQualifiedName, - from_table: sa.Table, - connection: sa.engine.Connection, + from_table: sqlalchemy.Table, + connection: sqlalchemy.engine.Connection, as_temp_table: bool = False, - ) -> sa.Table: + ) -> sqlalchemy.Table: """Copy table structure. Args: @@ -380,40 +398,49 @@ def copy_table_structure( The new table object. """ _, schema_name, table_name = self.parse_full_table_name(full_table_name) - meta = sa.MetaData(schema=schema_name) - new_table: sa.Table + meta = sqlalchemy.MetaData(schema=schema_name) + new_table: sqlalchemy.Table if self.table_exists(full_table_name=full_table_name): raise RuntimeError("Table already exists") columns = [column._copy() for column in from_table.columns] if as_temp_table: - new_table = sa.Table(table_name, meta, *columns, prefixes=["TEMPORARY"]) + new_table = sqlalchemy.Table( + table_name, + meta, + *columns, + prefixes=["TEMPORARY"], + ) new_table.create(bind=connection) return new_table - new_table = sa.Table(table_name, meta, *columns) + new_table = sqlalchemy.Table(table_name, meta, *columns) new_table.create(bind=connection) return new_table @contextmanager - def _connect(self) -> t.Iterator[sa.engine.Connection]: + def _connect(self) -> t.Iterator[sqlalchemy.engine.Connection]: with self._engine.connect().execution_options() as conn: yield conn - def drop_table(self, table: sa.Table, connection: sa.engine.Connection): + def drop_table( + self, table: sqlalchemy.Table, connection: sqlalchemy.engine.Connection + ): """Drop table data.""" table.drop(bind=connection) def clone_table( self, new_table_name, table, metadata, connection, temp_table - ) -> sa.Table: + ) -> sqlalchemy.Table: """Clone a table.""" - new_columns = [sa.Column(column.name, column.type) for column in table.columns] + new_columns = [ + sqlalchemy.Column(column.name, column.type) for column in table.columns + ] if temp_table is True: - new_table = sa.Table( + new_table = sqlalchemy.Table( new_table_name, metadata, *new_columns, prefixes=["TEMPORARY"] ) else: - new_table = sa.Table(new_table_name, metadata, *new_columns) + new_table = sqlalchemy.Table(new_table_name, metadata, *new_columns) new_table.create(bind=connection) return new_table @@ -475,9 +502,10 @@ def jsonschema_to_sql(self) -> JSONSchemaToSQL: to_sql.register_sql_datatype_handler("smallint", SMALLINT) to_sql.register_sql_datatype_handler("integer", INTEGER) to_sql.register_sql_datatype_handler("bigint", BIGINT) + to_sql.register_sql_datatype_handler("pgvector", _handle_vector_type) return to_sql - def to_sql_type(self, jsonschema_type: dict) -> sa.types.TypeEngine: + def to_sql_type(self, jsonschema_type: dict) -> types.TypeEngine: """Return a JSON Schema representation of the provided type. By default will call `typing.to_sql_type()`. @@ -583,13 +611,13 @@ def pick_best_sql_type(sql_type_array: list): def create_empty_table( # type: ignore[override] # noqa: PLR0913 self, table_name: str, - meta: sa.MetaData, + meta: sqlalchemy.MetaData, schema: dict, - connection: sa.engine.Connection, + connection: sqlalchemy.engine.Connection, primary_keys: t.Sequence[str] | None = None, partition_keys: list[str] | None = None, as_temp_table: bool = False, - ) -> sa.Table: + ) -> sqlalchemy.Table: """Create an empty target table. Args: @@ -608,7 +636,7 @@ def create_empty_table( # type: ignore[override] # noqa: PLR0913 NotImplementedError: if temp tables are unsupported and as_temp_table=True. RuntimeError: if a variant schema is passed with no properties defined. """ - columns: list[sa.Column] = [] + columns: list[sqlalchemy.Column] = [] primary_keys = primary_keys or [] try: properties: dict = schema["properties"] @@ -621,7 +649,7 @@ def create_empty_table( # type: ignore[override] # noqa: PLR0913 for property_name, property_jsonschema in properties.items(): is_primary_key = property_name in primary_keys columns.append( - sa.Column( + sqlalchemy.Column( property_name, self.to_sql_type(property_jsonschema), primary_key=is_primary_key, @@ -629,11 +657,13 @@ def create_empty_table( # type: ignore[override] # noqa: PLR0913 ) ) if as_temp_table: - new_table = sa.Table(table_name, meta, *columns, prefixes=["TEMPORARY"]) + new_table = sqlalchemy.Table( + table_name, meta, *columns, prefixes=["TEMPORARY"] + ) new_table.create(bind=connection) return new_table - new_table = sa.Table(table_name, meta, *columns) + new_table = sqlalchemy.Table(table_name, meta, *columns) new_table.create(bind=connection) return new_table @@ -641,9 +671,9 @@ def prepare_column( self, full_table_name: str | FullyQualifiedName, column_name: str, - sql_type: sa.types.TypeEngine, - connection: sa.engine.Connection | None = None, - column_object: sa.Column | None = None, + sql_type: types.TypeEngine, + connection: sqlalchemy.engine.Connection | None = None, + column_object: sqlalchemy.Column | None = None, ) -> None: """Adapt target table to provided schema if possible. @@ -666,7 +696,7 @@ def prepare_column( if not column_exists: self._create_empty_column( - # We should migrate every function to use sa.Table + # We should migrate every function to use sqlalchemy.Table # instead of having to know what the function wants table_name=table_name, column_name=column_name, @@ -690,8 +720,8 @@ def _create_empty_column( # type: ignore[override] schema_name: str, table_name: str, column_name: str, - sql_type: sa.types.TypeEngine, - connection: sa.engine.Connection, + sql_type: types.TypeEngine, + connection: sqlalchemy.engine.Connection, ) -> None: """Create a new column. @@ -722,8 +752,8 @@ def get_column_add_ddl( # type: ignore[override] table_name: str, schema_name: str, column_name: str, - column_type: sa.types.TypeEngine, - ) -> sa.DDL: + column_type: types.TypeEngine, + ) -> sqlalchemy.DDL: """Get the create column DDL statement. Args: @@ -735,9 +765,9 @@ def get_column_add_ddl( # type: ignore[override] Returns: A sqlalchemy DDL instance. """ - column = sa.Column(column_name, column_type) + column = sqlalchemy.Column(column_name, column_type) - return sa.DDL( + return sqlalchemy.DDL( ( 'ALTER TABLE "%(schema_name)s"."%(table_name)s"' "ADD COLUMN %(column_name)s %(column_type)s" @@ -755,9 +785,9 @@ def _adapt_column_type( # type: ignore[override] # noqa: PLR0913 schema_name: str, table_name: str, column_name: str, - sql_type: sa.types.TypeEngine, - connection: sa.engine.Connection, - column_object: sa.Column | None, + sql_type: types.TypeEngine, + connection: sqlalchemy.engine.Connection, + column_object: sqlalchemy.Column | None, ) -> None: """Adapt table column type to support the new JSON schema type. @@ -772,9 +802,9 @@ def _adapt_column_type( # type: ignore[override] # noqa: PLR0913 Raises: NotImplementedError: if altering columns is not supported. """ - current_type: sa.types.TypeEngine + current_type: types.TypeEngine if column_object is not None: - current_type = t.cast("sa.types.TypeEngine", column_object.type) + current_type = t.cast("types.TypeEngine", column_object.type) else: current_type = self._get_column_type( schema_name=schema_name, @@ -825,8 +855,8 @@ def get_column_alter_ddl( # type: ignore[override] schema_name: str, table_name: str, column_name: str, - column_type: sa.types.TypeEngine, - ) -> sa.DDL: + column_type: types.TypeEngine, + ) -> sqlalchemy.DDL: """Get the alter column DDL statement. Override this if your database uses a different syntax for altering columns. @@ -840,8 +870,8 @@ def get_column_alter_ddl( # type: ignore[override] Returns: A sqlalchemy DDL instance. """ - column = sa.Column(column_name, column_type) - return sa.DDL( + column = sqlalchemy.Column(column_name, column_type) + return sqlalchemy.DDL( ( 'ALTER TABLE "%(schema_name)s"."%(table_name)s"' "ALTER COLUMN %(column_name)s %(column_type)s" @@ -863,7 +893,7 @@ def get_sqlalchemy_url(self, config: dict) -> str: if config.get("sqlalchemy_url"): return cast("str", config["sqlalchemy_url"]) - sqlalchemy_url = URL.create( + sqlalchemy_url = sqlalchemy.engine.URL.create( drivername=config["dialect+driver"], username=config["user"], password=config["password"], @@ -993,8 +1023,8 @@ def _get_column_type( # type: ignore[override] schema_name: str, table_name: str, column_name: str, - connection: sa.engine.Connection, - ) -> sa.types.TypeEngine: + connection: sqlalchemy.engine.Connection, + ) -> types.TypeEngine: """Get the SQL type of the declared column. Args: @@ -1022,15 +1052,15 @@ def _get_column_type( # type: ignore[override] ) raise KeyError(msg) from ex - return t.cast("sa.types.TypeEngine", column.type) + return t.cast("types.TypeEngine", column.type) def get_table_columns( # type: ignore[override] self, schema_name: str, table_name: str, - connection: sa.engine.Connection, + connection: sqlalchemy.engine.Connection, column_names: list[str] | None = None, - ) -> dict[str, sa.Column]: + ) -> dict[str, sqlalchemy.Column]: """Return a list of table columns. Overrode to support schema_name @@ -1044,11 +1074,11 @@ def get_table_columns( # type: ignore[override] Returns: An ordered list of column objects. """ - inspector = sa.inspect(connection) + inspector = sqlalchemy.inspect(connection) columns = inspector.get_columns(table_name, schema_name) return { - col_meta["name"]: sa.Column( + col_meta["name"]: sqlalchemy.Column( col_meta["name"], col_meta["type"], nullable=col_meta.get("nullable", False), @@ -1062,7 +1092,7 @@ def column_exists( # type: ignore[override] self, full_table_name: str | FullyQualifiedName, column_name: str, - connection: sa.engine.Connection, + connection: sqlalchemy.engine.Connection, ) -> bool: """Determine if the target column already exists. diff --git a/target_postgres/tests/test_types.py b/target_postgres/tests/test_types.py index 436aa8d..b00e02c 100644 --- a/target_postgres/tests/test_types.py +++ b/target_postgres/tests/test_types.py @@ -1,7 +1,8 @@ """Test custom types and the type hierarchy.""" import pytest -import sqlalchemy as sa +from pgvector.sqlalchemy import VECTOR +from sqlalchemy import types from sqlalchemy.dialects.postgresql import BIGINT, SMALLINT from target_postgres.connector import NOTYPE, JSONSchemaToPostgres, PostgresConnector @@ -27,11 +28,31 @@ def connector(): @pytest.mark.parametrize( ("types", "expected"), [ - pytest.param([sa.Integer(), sa.String()], sa.String, id="int+str=str"), - pytest.param([sa.Boolean(), sa.String()], sa.String, id="bool+str=str"), - pytest.param([sa.Integer(), sa.DateTime()], sa.Integer, id="int+datetime=int"), - pytest.param([NOTYPE(), sa.String()], sa.String, id="none+str=str"), - pytest.param([NOTYPE(), sa.Integer()], NOTYPE, id="none+int=none"), + pytest.param( + [types.Integer(), types.String()], + types.String, + id="int+str=str", + ), + pytest.param( + [types.Boolean(), types.String()], + types.String, + id="bool+str=str", + ), + pytest.param( + [types.Integer(), types.DateTime()], + types.Integer, + id="int+datetime=int", + ), + pytest.param( + [NOTYPE(), types.String()], + types.String, + id="none+str=str", + ), + pytest.param( + [NOTYPE(), types.Integer()], + NOTYPE, + id="none+int=none", + ), ], ) def test_type_hierarchy(connector, types, expected): @@ -47,10 +68,21 @@ def to_postgres(self, connector: PostgresConnector): """Create a JSONSchemaToPostgres instance.""" return connector.jsonschema_to_sql + @pytest.fixture + def base_vector_schema(self): + """Create a base vector schema.""" + return { + "type": "array", + "items": { + "type": "number", + }, + "x-sql-datatype": "pgvector", + } + def test_datetime_string(self, to_postgres: JSONSchemaToPostgres): """Test conversion of JSON schema string to Postgres datetime.""" result = to_postgres.to_sql_type({"type": "string", "format": "date-time"}) - assert type(result) is sa.TIMESTAMP + assert type(result) is types.TIMESTAMP @pytest.mark.parametrize( ("jsonschema", "expected"), @@ -81,7 +113,7 @@ def test_datetime_string(self, to_postgres: JSONSchemaToPostgres): "minimum": 0, "maximum": 2**31 - 1, }, - sa.INTEGER, + types.INTEGER, id="integer", ), pytest.param( @@ -107,8 +139,52 @@ def test_integers( self, to_postgres: JSONSchemaToPostgres, jsonschema: dict, - expected: type[sa.types.TypeEngine], + expected: type[types.TypeEngine], ): """Test conversion of JSON schema types to Postgres types.""" result = to_postgres.to_sql_type(jsonschema) assert type(result) is expected + + def test_vector_no_dimension( + self, + to_postgres: JSONSchemaToPostgres, + base_vector_schema: dict, + subtests: pytest.Subtests, + monkeypatch: pytest.MonkeyPatch, + ): + """Test conversion of to pgvector without dimension specified.""" + result = to_postgres.to_sql_type({**base_vector_schema}) + assert isinstance(result, VECTOR) + assert result.dim is None + + @pytest.mark.xfail(reason="Dimension is not supported yet.", strict=True) + def test_vector_with_dimension( + self, + to_postgres: JSONSchemaToPostgres, + base_vector_schema: dict, + subtests: pytest.Subtests, + monkeypatch: pytest.MonkeyPatch, + ): + """Test conversion of to pgvector with dimension specified.""" + dim = 10 + result = to_postgres.to_sql_type( + { + **base_vector_schema, + "x-sql-datatype-properties": {"dim": dim}, + } + ) + assert isinstance(result, VECTOR) + assert result.dim == dim + + def test_vector_library_not_available( + self, + to_postgres: JSONSchemaToPostgres, + base_vector_schema: dict, + subtests: pytest.Subtests, + monkeypatch: pytest.MonkeyPatch, + ): + """Test conversion of to pgvector with library not available.""" + monkeypatch.setattr("target_postgres.connector.PGVECTOR_AVAILABLE", False) + result = to_postgres.to_sql_type({**base_vector_schema}) + assert isinstance(result, types.ARRAY) + assert isinstance(result.item_type, types.INTEGER) diff --git a/uv.lock b/uv.lock index 4edd45f..79f95da 100644 --- a/uv.lock +++ b/uv.lock @@ -1,6 +1,10 @@ version = 1 revision = 3 requires-python = ">=3.10" +resolution-markers = [ + "python_full_version >= '3.11'", + "python_full_version < '3.11'", +] [[package]] name = "attrs" @@ -604,6 +608,7 @@ faker = [ [package.dev-dependencies] dev = [ { name = "mypy" }, + { name = "pgvector" }, { name = "pytest" }, { name = "remote-pdb" }, { name = "tap-countries" }, @@ -617,12 +622,17 @@ lint = [ { name = "ruff" }, ] testing = [ + { name = "pgvector" }, { name = "pytest" }, { name = "tap-countries" }, { name = "tap-fundamentals" }, ] typing = [ { name = "mypy" }, + { name = "pgvector" }, + { name = "pytest" }, + { name = "tap-countries" }, + { name = "tap-fundamentals" }, { name = "types-jsonschema" }, { name = "types-paramiko" }, { name = "types-simplejson" }, @@ -643,6 +653,7 @@ provides-extras = ["faker"] [package.metadata.requires-dev] dev = [ { name = "mypy", specifier = ">=1.6.1" }, + { name = "pgvector", specifier = ">=0.4.1" }, { name = "pytest", specifier = ">=9" }, { name = "remote-pdb", specifier = ">=2.1.0" }, { name = "tap-countries", git = "https://github.com/meltano/sdk.git?subdirectory=packages%2Ftap-countries&rev=main" }, @@ -654,12 +665,17 @@ dev = [ ] lint = [{ name = "ruff", specifier = ">=0.1.14" }] testing = [ + { name = "pgvector", specifier = ">=0.4.1" }, { name = "pytest", specifier = ">=9" }, { name = "tap-countries", git = "https://github.com/meltano/sdk.git?subdirectory=packages%2Ftap-countries&rev=main" }, { name = "tap-fundamentals", git = "https://github.com/meltano/sdk.git?subdirectory=packages%2Ftap-fundamentals&rev=main" }, ] typing = [ { name = "mypy", specifier = ">=1.6.1" }, + { name = "pgvector", specifier = ">=0.4.1" }, + { name = "pytest", specifier = ">=9" }, + { name = "tap-countries", git = "https://github.com/meltano/sdk.git?subdirectory=packages%2Ftap-countries&rev=main" }, + { name = "tap-fundamentals", git = "https://github.com/meltano/sdk.git?subdirectory=packages%2Ftap-fundamentals&rev=main" }, { name = "types-jsonschema", specifier = ">=4.19.0.3" }, { name = "types-paramiko", specifier = ">=4" }, { name = "types-simplejson", specifier = ">=3.19.0.2" }, @@ -776,6 +792,155 @@ wheels = [ { url = 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