From f968b4bbcb8421b117d813ad687cf24a077c172e Mon Sep 17 00:00:00 2001 From: =?UTF-8?q?Jos=C3=A9=20S=C3=A1nchez-Gallego?= Date: Thu, 20 Aug 2026 11:54:38 -0700 Subject: [PATCH 1/5] Changes to DatabaseConnection and subclasses * More robustly supports using `postgresql://` URIs for connection, including parsing the URI and extracting connection parameters. * Supports connecting to the PostgreSQL database using a socket connection instead of TCP/IP. * Type all methods and attributes. * Streamline the connection logic without (I think) changes to its current behaviour. * Deprecate `connect_from_parameters` in favour of `connect`. --- pyproject.toml | 1 + python/sdssdb/connection.py | 659 +++--- uv.lock | 4071 +++++++++++++++++++++++------------ 3 files changed, 3068 insertions(+), 1663 deletions(-) diff --git a/pyproject.toml b/pyproject.toml index 4ac48746..1b15d0f9 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -18,6 +18,7 @@ dependencies = [ "numpy>=1.18.2", "six>=1.12.0", "psycopg2-binary>=2.9.11", + "typing-extensions>=4.16.0", ] [project.urls] diff --git a/python/sdssdb/connection.py b/python/sdssdb/connection.py index 6f4c1fe9..f7e225aa 100644 --- a/python/sdssdb/connection.py +++ b/python/sdssdb/connection.py @@ -13,12 +13,15 @@ import os import re import socket +import urllib.parse + +from typing import TypedDict -import pgpasslib import six +from typing_extensions import deprecated from sqlalchemy import MetaData, create_engine -from sqlalchemy.engine import url +from sqlalchemy.engine import URL from sqlalchemy.exc import OperationalError as OpError from sqlalchemy.ext.declarative import DeferredReflection from sqlalchemy.orm import scoped_session, sessionmaker @@ -36,26 +39,60 @@ __all__ = ["DatabaseConnection", "PeeweeDatabaseConnection", "SQLADatabaseConnection"] -def _should_autoconnect(): +class ConnectionParams(TypedDict): + """Defines the connection parameters for a database connection.""" + + user: str | None + host: str | None + port: int | None + password: str | None + use_socket: bool + + +def _evaluate_envvar_bool(envvar: str, default: bool = False) -> bool: + """Evaluates an environment variable as a boolean. + + Returns False if the envvar is unset or set to "0" or "false", True otherwise. + + """ + + envvar_value = os.environ.get(envvar, None) + if envvar_value is None: + return default + + envvar_value = envvar_value.lower() + if envvar_value in ["0", "false"]: + return False + + return True + + +def _should_autoconnect() -> bool: """Determines whether we should autoconnect.""" - if "SDSSDB_AUTOCONNECT" in os.environ: - envvar_autoconnect = os.environ["SDSSDB_AUTOCONNECT"].lower() - if envvar_autoconnect == "0" or envvar_autoconnect == "false": - return False - else: - return sdssdb.autoconnect + return _evaluate_envvar_bool("SDSSDB_AUTOCONNECT", default=sdssdb.autoconnect) def get_database_uri( - dbname: str, + connect_params: ConnectionParams | None = None, + dbname: str | None = None, host: str | None = None, port: int | None = None, user: str | None = None, password: str | None = None, -): +) -> str: """Returns the URI to the database.""" + if connect_params is not None: + host = host if host is not None else connect_params.get("host", host) + port = port if port is not None else connect_params.get("port", port) + user = user if user is not None else connect_params.get("user", user) + password = password if password is not None else connect_params.get("password", password) + dbname = dbname if dbname is not None else connect_params.get("dbname", dbname) + + if dbname is None: + raise ValueError("Database name is missing in connection parameters.") + if user is None and password is None: auth: str = "" elif password is None: @@ -71,6 +108,40 @@ def get_database_uri( return f"postgresql://{auth}{host_port}/{dbname}" +def parse_uri(uri: str) -> tuple[str, ConnectionParams]: + """Parses a database URI and returns a dictionary with the parameters. + + Returns a tuple with the database name and a dictionary with the connection parameters. + + """ + + parsed = urllib.parse.urlparse(uri) + + if parsed.scheme != "postgresql": + raise ValueError(f"Only PostgreSQL URIs are supported: {uri}") + + dbname = parsed.path.strip("/") + if dbname == "": + raise ValueError("Database name is missing.") + + return dbname, { + "user": parsed.username, + "password": parsed.password, + "host": parsed.hostname, + "port": parsed.port, + "use_socket": False, + } + + +def is_uri(dbname_or_uri: str | None) -> bool: + """Returns whether a string is a database URI.""" + + if dbname_or_uri is None: + return False + + return dbname_or_uri.startswith("postgresql://") + + class DatabaseConnection(six.with_metaclass(abc.ABCMeta)): """A PostgreSQL database connection with profile and autoconnect features. @@ -85,91 +156,134 @@ class DatabaseConnection(six.with_metaclass(abc.ABCMeta)): Parameters ---------- - dbname : str - The database name. - profile : str + dbname_or_uri + The database name or a connection URI. + profile The configuration profile to use. The profile defines the default user, database server hostname, and port for a given location. If not provided, the profile is automatically determined based on the - current domain, or defaults to ``local``. - autoconnect : bool or None + current domain, or defaults to ``local``. If an URI is provided, the + profile is ignored. + autoconnect Whether to autoconnect to the database using the profile parameters. - Requites `.dbname` to be set. If `None`, whether to autoconnect is + Requires `.dbname` to be set. If `None`, whether to autoconnect is defined, in order, by the existence of an environment variable ``$SDSSDB_AUTOCONNECT`` or by ``sdssdb.autoconnect``. If they are set to ``0`` or ``false`` the database won't autoconnect. Note that this must be set before importing any model classes. - dbversion : str + silent_on_fail + If `True`, does not show a warning if the connection fails. + dbversion A database version. If specified, appends to dbname as "dbname_dbversion" and becomes the dbname used for connection strings. - use_psycopg3 : bool - Whether to use psycopg3 instead of psycopg2. If `None`, defaults to the value of the - environment variable ``$SDSSDB_PSYCOPG3`` (which defaults to `True` if not set). + use_socket + If `True`, uses a socket connection instead of TCP/IP. + use_psycopg3 + Whether to use psycopg3 instead of psycopg2. If `None`, defaults to the + value of the environment variable ``$SDSSDB_PSYCOPG3`` (which defaults to + `True` if not set). """ #: The database name. - dbname = None + dbname: str | None = None #: Database version - dbversion = None + dbversion: str | None = None #: # Whether to call Model.reflect() in Peewee after a connection. - auto_reflect = True + auto_reflect: bool = True def __init__( self, - dbname=None, - profile=None, - autoconnect=None, - dbversion=None, - use_psycopg3=None, + dbname_or_uri: str | None = None, + profile: str | None = None, + autoconnect: bool | None = None, + silent_on_fail: bool = False, + dbversion: str | None = None, + use_socket: bool = False, + use_psycopg3: bool | None = None, ): - self.profile = None - self._config = {} + self.profile: str | None = None + + self._connection_params: ConnectionParams | None = None + + if is_uri(dbname_or_uri): + assert isinstance(dbname_or_uri, str) + self.dbname, self._connection_params = parse_uri(dbname_or_uri) + elif dbname_or_uri is not None: + self.dbname = dbname_or_uri + + self.dbversion: str | None = dbversion or self.dbversion + if self.dbversion is not None and self.dbname is not None: + if not self.dbname.endswith(f"_{self.dbversion}"): + self.dbname = f"{self.dbname}_{self.dbversion}" - self.dbname = dbname if dbname else self.dbname - self.dbversion = dbversion or self.dbversion - if self.dbversion: - self.dbname = f"{self.dbname}_{self.dbversion}" + if profile is not None or self._connection_params is None: + self.set_profile(profile=profile, connect=False) - self.set_profile(profile=profile, connect=False) + if self._connection_params is not None: + self._connection_params["use_socket"] = use_socket - if use_psycopg3 is None: - use_psycopg3 = os.environ.get("SDSSDB_PSYCOPG3", "true").lower() in ["true", "1"] - self.use_psycopg3 = use_psycopg3 + self.use_psycopg3 = ( + _evaluate_envvar_bool("SDSSDB_PSYCOPG3", default=True) + if use_psycopg3 is None + else use_psycopg3 + ) if autoconnect is None: autoconnect = _should_autoconnect() if autoconnect and self.dbname: - self.connect(dbname=self.dbname, silent_on_fail=True) + self.connect(silent_on_fail=silent_on_fail) def __repr__(self): return "<{} (dbname={!r}, profile={!r}, connected={})>".format( self.__class__.__name__, self.dbname, - self.profile, + self.profile if self.profile is not None else "none", self.connected, ) - def set_profile(self, profile=None, connect=True, **params): + @property + def uri(self) -> str: + """Returns the URI to the database connection.""" + + if self._connection_params is None and self.dbname is None: + raise RuntimeError("Not enough information to generate URI.") + + return get_database_uri(connect_params=self._connection_params, dbname=self.dbname) + + def set_profile( + self, + profile: str | None = None, + user: str | None = None, + host: str | None = None, + port: int | None = None, + use_socket: bool | None = None, + connect: bool = True, + ) -> bool: """Sets the profile from the configuration file. Parameters ----------- - profile : str + profile The profile to set. If `None`, uses the domain name to determine the profile. - connect : bool - If True, tries to connect to the database using the new profile. - params - Connection parameters (``user``, ``host``, ``port``, ``password``) - that will override the profile values. + user + Overrides the profile database user. + host + Overrides the profile database host. + port + Overrides the profile database port. + use_socket + If `True`, uses a socket connection instead of TCP/IP. + connect + If `True`, tries to connect to the database using the new profile. Returns ------- - connected : bool + connected Returns True if the database is connected. """ @@ -177,143 +291,147 @@ def set_profile(self, profile=None, connect=True, **params): previous_profile = self.profile if profile is not None: - assert profile in config, "profile not found in configuration file." + if profile not in config: + raise ValueError("profile not found in configuration file.") + self.profile = profile - self._config = config[profile].copy() + profile_config = config[profile].copy() else: # Get hostname hostname = socket.getfqdn() - # Initially set location to local. - self.profile = "local" - self._config = config[self.profile].copy() - # Tries to find a profile whose domain matches the hostname for profile in config: if "domain" in config[profile] and config[profile]["domain"] is not None: if re.match(config[profile]["domain"], hostname): self.profile = profile - self._config = config[profile].copy() + profile_config = config[profile].copy() # If the profile host matches the current hostname set the # value to None to force using localhost to prevent cases # in which the loopback is not configured properly in PostgreSQL. - if hostname == self._config["host"]: - self._config["host"] = None + if hostname == profile_config["host"]: + profile_config["host"] = None break - - self._config.update(params) + else: + # If no profile was found, use the local profile. + self.profile = "local" + profile_config = config[self.profile].copy() + + if user is not None: + profile_config["user"] = user + if host is not None: + profile_config["host"] = host + if port is not None: + profile_config["port"] = port + if use_socket is not None: + profile_config["use_socket"] = use_socket + + self._connection_params: ConnectionParams = { + "user": profile_config.get("user", None), + "host": profile_config.get("host", None), + "port": profile_config.get("port", None), + "password": profile_config.get("password", None), + "use_socket": profile_config.get("use_socket", False), + } if connect: if self.connected and self.profile == previous_profile: pass elif self.dbname is not None: - self.connect(**self._config) + self.connect() return self.connected @abc.abstractmethod - def _conn(self, dbname, **params): + def _conn(self) -> tuple[bool, ConnectionParams | None]: """Actually initialises the database connection. This method should be overridden depending on the ORM library being used. At the end, `.connected` should be set to True if the connection was successful. + Returns + ------- + connected + Returns `True` if the database is connected. + connection_error + Returns the connection error if the connection failed, or `None` if + the connection was successful. + """ pass - def connect(self, dbname=None, silent_on_fail=False, **connection_params): - """Initialises the database using the profile information. + def connect( + self, + dbname: str | None = None, + user: str | None = None, + host: str | None = None, + port: int | None = None, + use_socket: bool | None = None, + silent_on_fail: bool = False, + ) -> bool: + """Initialises the database using the current connection information. Parameters ---------- - dbname : `str` or `None` - The database name. If `None`, defaults to `.dbname`. ``dbname`` can also be - a full database URI, in which case the other connection parameters are ignored. - user : str - Overrides the profile database user. - host : str - Overrides the profile database host. - port : str - Overrides the profile database port. - silent_on_fail : `bool` + dbname + The database name. If `None`, defaults to the current configuration. + user + The user to connect to the database. Overrides the current configuration + if provided. + host + The host name of the database server. Overrides the current configuration + if provided. + port + The port of the database server. Overrides the current configuration + if provided. + use_socket + If `True`, uses a socket connection instead of TCP/IP. + silent_on_fail If `True`, does not show a warning if the connection fails. Returns ------- - connected : bool + connected Returns True if the database is connected. """ - if self.profile is None: - raise RuntimeError( - "the profile was not set when " - "DatabaseConnection was instantiated. Use " - "set_profile to set the profile in runtime." - ) + if dbname and is_uri(dbname): + dbname, self._connection_params = parse_uri(dbname) - # Gets the necessary configuration values from the profile - db_configuration = {} - for item in ["user", "host", "port"]: - if item in connection_params: - db_configuration[item] = connection_params[item] + if dbname is not None: + if self.dbversion is not None: + self.dbname = f"{dbname}_{self.dbversion}" else: - profile_value = self._config.get(item, None) - db_configuration[item] = profile_value + self.dbname = dbname - dbname = dbname or self.dbname - if dbname is None: - raise RuntimeError( - "the database name was not set when " - "DatabaseConnection was instantiated. " - "To set it in runtime change the dbname " - "attribute." - ) + if user is not None: + self._connection_params["user"] = user + if host is not None: + self._connection_params["host"] = host + if port is not None: + self._connection_params["port"] = port + if use_socket is not None: + self._connection_params["use_socket"] = use_socket - return self.connect_from_parameters( - dbname=dbname, - silent_on_fail=silent_on_fail, - **db_configuration, - ) + connected, error = self._conn() + if not connected and not silent_on_fail: + log.warning(f"Failed connecting to database {self.dbname!r}: {error}") - def connect_from_parameters(self, dbname=None, **params): - """Initialises the database from a dictionary of parameters. + return connected - Parameters - ---------- - dbname : `str` or `None` - The database name. If `None`, defaults to `.dbname`. - params : dict - A dictionary of parameters, which should include ``user``, - ``host``, and ``port``. + @deprecated("connect_from_parameters is deprecated. Use connect() instead.") + def connect_from_parameters(self, *args, **kwargs): + """Initialises the database from a dictionary of parameters. - Returns - ------- - connected : bool - Returns True if the database is connected. + This function has been deprecated. Use `.connect()` instead. """ - # Make hostname an alias of host. - if "hostname" in params: - if "host" not in params: - params["host"] = params.pop("hostname") - else: - raise KeyError("cannot use hostname and host at the same time.") - - dbname = dbname or self.dbname - if dbname is None: - raise RuntimeError( - "the database name was not set when " - "DatabaseConnection was instantiated. " - "To set it in runtime change the dbname " - "attribute." - ) - - return self._conn(dbname, **params) + return self.connect(*args, **kwargs) @staticmethod def list_profiles(profile=None): @@ -335,21 +453,9 @@ def list_profiles(profile=None): def get_connection_uri(self): """Returns the URI to the database connection.""" - params = self.connection_params - if not self.connected or params is None or self.dbname is None: - raise RuntimeError("The database is not connected.") - - valid_params = { - "user": params.get("user", None), - "host": params.get("host", None), - "port": params.get("port", None), - "password": params.get("password", None), - } - - return get_database_uri(self.dbname, **valid_params) + return self.uri @property - @abc.abstractmethod def connection_params(self) -> dict | None: """Returns a dictionary with the connection parameters. @@ -362,9 +468,9 @@ def connection_params(self) -> dict | None: """ - pass + return self._connection_params.copy() - def become(self, user): + def become(self, user: str | None): """Change the connection to a certain user.""" dsn_params = self.connection_params @@ -374,57 +480,63 @@ def become(self, user): dsn_params.pop("password", None) # Do not keep the password since it may change. - if dsn_params is None: - raise RuntimeError("cannot determine the DSN parameters. The DB may be disconnected.") - dsn_params["user"] = user - if "dbname" not in dsn_params: - dsn_params["dbname"] = self.dbname self.connect(**dsn_params) - def become_admin(self, admin=None): + def become_admin(self, admin: str | None = None): """Becomes the admin user. If ``admin=None`` defaults to the ``admin`` value in the current profile. """ - assert self.profile is not None, ( - "this connection was not initialised from a profile. Try using become()." - ) + if self.profile is not None: + raise RuntimeError( + "The connection was not initialised from a profile. Try using become()." + ) - assert "admin" in self._config, "admin user not defined in profile" + if "admin" not in self._config: + raise RuntimeError("admin user not defined in profile") self.become(admin or self._config["admin"]) - def become_user(self, user=None): + def become_user(self, user: str | None = None): """Becomes the read-only user. If ``user=None`` defaults to the ``user`` value in the current profile. """ - assert self.profile is not None, ( - "this connection was not initialised from a profile. Try using become()." - ) + if self.profile is not None: + raise RuntimeError( + "The connection was not initialised from a profile. Try using become()." + ) if user is None: user = self._config["user"] if "user" in self._config else None self.become(user) - def change_version(self, dbversion=None): + def change_version(self, dbversion: str | None = None): """Change database version and attempt to reconnect - Parameters: - dbversion (str): - A database version + Parameters + ---------- + dbversion + A database version. + """ + + if self.dbname is None: + raise RuntimeError("Cannot change version if dbname is not set.") + self.dbversion = dbversion - dbname, *dbver = self.dbname.split("_") + + dbname, *_ = self.dbname.split("_") self.dbname = f"{dbname}_{self.dbversion}" if dbversion else dbname - self.connect(dbname=self.dbname, silent_on_fail=True) + + self.connect(silent_on_fail=True) def post_connect(self): """Hook called after a successfull connection.""" @@ -432,7 +544,7 @@ def post_connect(self): pass -class PeeweeDatabaseConnection(DatabaseConnection, PostgresqlDatabase): +class PeeweeDatabaseConnection(DatabaseConnection, PostgresqlDatabase): # type:ignore """Peewee database connection implementation. Attributes @@ -458,20 +570,6 @@ def connected(self): return self.is_connection_usable() - @property - def connection_params(self): - """Returns a dictionary with the connection parameters.""" - - if self.connected: - if self.psycopg_version == "psycopg2": - return self.connection().info.dsn_parameters - elif self.psycopg_version == "psycopg3": - return self.connection().info.get_parameters() - else: - raise RuntimeError("unknown psycopg version in use.") - - return None - @property def psycopg_version(self): """Returns the version of psycopg in use.""" @@ -486,41 +584,37 @@ def psycopg_version(self): else: return "unknown" - def _conn(self, dbname, silent_on_fail=False, **params): + def _conn(self): """Connects to the DB and tests the connection.""" - if dbname.startswith("postgresql://"): - PostgresqlDatabase.__init__(self, dbname, prefer_psycopg3=self.use_psycopg3) - else: - if "password" not in params: - pgpass_params = { - key: value for key, value in params.copy().items() if value is not None - } - - try: - params["password"] = pgpasslib.getpass(dbname=dbname, **pgpass_params) - except pgpasslib.FileNotFound: - params["password"] = None - - PostgresqlDatabase.init( - self, - dbname, - prefer_psycopg3=self.use_psycopg3, - **params, - ) - self._metadata = {} + if not self._connection_params or not self.dbname: + raise RuntimeError("Not enough information to connect to the database.") - try: - PostgresqlDatabase.connect(self) + host = self._connection_params.get("host", None) - conn_params = self.connection_params - dbname = conn_params.get("dbname", dbname) - self.dbname = dbname + # Handle socket connections. This is useful for local connections when the loopback is + # not configured properly in PostgreSQL and connecting on localhost fails. + use_socket = self._connection_params.get("use_socket", False) + if use_socket is True: + host = None - except OperationalError as ee: - if not silent_on_fail: - log.warning(f"failed connecting to database {self.database!r}: {ee}") + PostgresqlDatabase.__init__( + self, + self.dbname, + host=host, + user=self._connection_params.get("user", None), + password=self._connection_params.get("password", None), + port=None if host is None else self._connection_params.get("port", None), + prefer_psycopg3=self.use_psycopg3, + ) + + connection_error: str | None = None + + try: + PostgresqlDatabase.connect(self) + except OperationalError as err: PostgresqlDatabase.init(self, None) + connection_error = str(err) if self.is_connection_usable() and self.auto_reflect: with self.atomic(): @@ -532,22 +626,22 @@ def _conn(self, dbname, silent_on_fail=False, **params): if self.connected: self.post_connect() - return self.connected + return self.connected, connection_error - def get_model(self, table_name, schema=None): + def get_model(self, table_name: str, schema: str | None = None) -> type[peewee.Model] | None: """Returns the model for a table. Parameters ---------- - table_name : str + table_name The name of the table whose model will be returned. - schema : str + schema The schema for the table. If `None`, the first model that matches the table name will be returned. Returns ------- - :class:`peewee:Model` or `None` + model The model associated with the table, or `None` if no model was found. @@ -561,7 +655,7 @@ def get_model(self, table_name, schema=None): return None - def get_introspector(self, schema=None): + def get_introspector(self, schema: str | None = None): """Gets a Peewee database :class:`peewee:Introspector`.""" schema_key = schema or "" @@ -571,7 +665,7 @@ def get_introspector(self, schema=None): return self.introspector[schema_key] - def get_fields(self, table_name, schema=None, cache=True): + def get_fields(self, table_name: str, schema: str | None = None, cache: bool = True): """Returns a list of Peewee fields for a table.""" schema = schema or "public" @@ -611,7 +705,7 @@ def get_fields(self, table_name, schema=None, cache=True): return fields - def get_primary_keys(self, table_name, schema=None, cache=True): + def get_primary_keys(self, table_name: str, schema: str | None = None, cache: bool = True): # type: ignore """Returns the primary keys for a table.""" schema = schema or "public" @@ -637,104 +731,60 @@ def __init__(self, *args, **kwargs): #: Reports whether the connection is active. self.connected = False - self._connect_params = None DatabaseConnection.__init__(self, *args, **kwargs) @property - def connection_params(self): - """Returns a dictionary with the connection parameters.""" - - return self._connect_params + def uri(self) -> str: + """Returns the URI to the database connection.""" - def _get_password(self, **params): - """Get a db password from a pgpass file + uri = super().uri - Parameters: - params (dict): - A dictionary of database connection parameters + # If we want to use the socket connection we need to change the connection string. + use_socket = self._connection_params.get("use_socket", False) + host = self._connection_params.get("host", None) - Returns: - The database password for a given set of connection parameters + uri = URL.create( + drivername="postgresql+" + ("psycopg" if self.use_psycopg3 else "psycopg2"), + username=self._connection_params.get("user", None), + host=None if use_socket else host, + port=None if use_socket else self._connection_params.get("port", None), + password=self._connection_params.get("password", None), + database=self.dbname, + query={"host": "/var/run/postgresql"} if use_socket else {}, + ) - """ + return str(uri) - password = params.get("password", None) - if not password: - try: - password = pgpasslib.getpass( - params["host"], - params["port"], - params["database"], - params["username"], - ) - except KeyError: - raise RuntimeError("ERROR: invalid server configuration") - return password - - def _make_connection_string(self, dbname_or_uri, **params): - """Build a db connection string - - Parameters: - dbname_or_uri (str): - The name of the database or the URI to connect to - params (dict): - A dictionary of database connection parameters - - Returns: - A database connection string + def _conn(self): + """Connects to the DB and tests the connection.""" - """ + connection_error: str | None = None - # Handle the case dbname_or_uri is a URI. - if dbname_or_uri.startswith("postgresql://"): - dbname_or_uri = dbname_or_uri.replace("postgresql://", "postgresql+psycopg://") - if not self.use_psycopg3: - dbname_or_uri = dbname_or_uri.replace("psycopg", "psycopg2") + try: + self.create_engine(self.uri, echo=False, pool_size=10, pool_recycle=1800) - if dbname_or_uri.startswith("postgresql"): - return dbname_or_uri + assert self.engine is not None + self.engine.connect() - # Now the case in which dbname_or_uri is a database name and parameters. - db_params = params.copy() - db_params["drivername"] = ( - "postgresql+psycopg" if self.use_psycopg3 else "postgresql+psycopg2" - ) - db_params["database"] = dbname_or_uri - db_params["username"] = db_params.pop("user", None) - db_params["host"] = db_params.pop("host", "localhost") - db_params["port"] = db_params.pop("port", 5432) - if db_params["username"]: - db_params["password"] = self._get_password(**db_params) - db_connection_string = url.URL.create(**db_params) - self._connect_params = params - return db_connection_string - - def _conn(self, dbname, silent_on_fail=False, **params): - """Connects to the DB and tests the connection.""" + except OpError as err: + connection_error = str(err) - # get connection string - db_connection_string = self._make_connection_string(dbname, **params) + if self.engine: + self.engine.dispose() - try: - self.create_engine(db_connection_string, echo=False, pool_size=10, pool_recycle=1800) - self.engine.connect() - except OpError: - if not silent_on_fail: - log.warning("Failed to connect to database {0}".format(dbname)) - self.engine.dispose() self.engine = None self.connected = False self.Session = None self.metadata = None + else: self.connected = True - self.dbname = dbname self.prepare_bases() if self.connected: self.post_connect() - return self.connected + return self.connected, connection_error def reset_engine(self): """Reset the engine, metadata, and session""" @@ -743,30 +793,27 @@ def reset_engine(self): self.engine.dispose() self.engine = None self.metadata = None - self.Session.close() + if self.Session: + self.Session.close() self.Session = None def create_engine( self, - db_connection_string=None, - echo=False, - pool_size=10, - pool_recycle=1800, - expire_on_commit=True, + db_connection_string: str | URL, + echo: bool = False, + pool_size: int = 10, + pool_recycle: int = 1800, + expire_on_commit: bool = True, ): """Create a new database engine - Resets and creates a new sqlalchemy database engine. Also creates and binds + Resets and creates a new sqlalchemy database engine. Also creates and binds engine metadata and a new scoped session. """ self.reset_engine() - if not db_connection_string: - dbname = self.dbname or self.DATABASE_NAME - db_connection_string = self._make_connection_string(dbname, **self.connection_params) - self.engine = create_engine( db_connection_string, echo=echo, @@ -776,10 +823,14 @@ def create_engine( ) self.metadata = MetaData() self.Session = scoped_session( - sessionmaker(bind=self.engine, expire_on_commit=expire_on_commit, future=True) + sessionmaker( + bind=self.engine, + expire_on_commit=expire_on_commit, + future=True, + ) ) - def add_base(self, base, prepare=True): + def add_base(self, base, prepare: bool = True): """Binds a base to this connection.""" if base not in self.bases: diff --git a/uv.lock b/uv.lock index 7d2c0dfe..88ac96ef 100644 --- a/uv.lock +++ b/uv.lock @@ -2,14 +2,17 @@ version = 1 revision = 3 requires-python = ">=3.9, <4.0" resolution-markers = [ - "python_full_version >= '3.14' and sys_platform == 'win32'", - "python_full_version >= '3.14' and sys_platform == 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class ConnectionParams(TypedDict): @@ -108,7 +116,7 @@ def get_database_uri( return f"postgresql://{auth}{host_port}/{dbname}" -def parse_uri(uri: str) -> tuple[str, ConnectionParams]: +def parse_uri(uri: str) -> tuple[str | None, ConnectionParams]: """Parses a database URI and returns a dictionary with the parameters. Returns a tuple with the database name and a dictionary with the connection parameters. @@ -122,7 +130,7 @@ def parse_uri(uri: str) -> tuple[str, ConnectionParams]: dbname = parsed.path.strip("/") if dbname == "": - raise ValueError("Database name is missing.") + dbname = None return dbname, { "user": parsed.username, @@ -344,7 +352,7 @@ def set_profile( return self.connected @abc.abstractmethod - def _conn(self) -> tuple[bool, ConnectionParams | None]: + def _conn(self) -> tuple[bool, str | None]: """Actually initialises the database connection. This method should be overridden depending on the ORM library being @@ -401,9 +409,11 @@ def connect( if dbname and is_uri(dbname): dbname, self._connection_params = parse_uri(dbname) + if dbname is None: + dbname = self.dbname if dbname is not None: - if self.dbversion is not None: + if self.dbversion is not None and not dbname.endswith(f"_{self.dbversion}"): self.dbname = f"{dbname}_{self.dbversion}" else: self.dbname = dbname @@ -419,10 +429,29 @@ def connect( connected, error = self._conn() if not connected and not silent_on_fail: - log.warning(f"Failed connecting to database {self.dbname!r}: {error}") + self._log_connection_error(error) return connected + def _log_connection_error(self, error: str | None): + """Logs a connection error.""" + + if error is None: + msg = f"Failed connecting to database {self.dbname!r} with unknown error." + else: + msg = f"Failed connecting to database {self.dbname!r}: {error}" + + msg = msg.strip() + if not msg.endswith("."): + msg += "." + + if self._connection_params: + conn_params = self._connection_params.copy() + conn_params.pop("password", None) + msg += f" Connection parameters: {conn_params}." + + log.warning(msg) + @deprecated("connect_from_parameters is deprecated. Use connect() instead.") def connect_from_parameters(self, *args, **kwargs): """Initialises the database from a dictionary of parameters. From e4835364f23119bf590f4baa74b5cf0125eefbac Mon Sep 17 00:00:00 2001 From: =?UTF-8?q?Jos=C3=A9=20S=C3=A1nchez-Gallego?= Date: Fri, 21 Aug 2026 07:56:40 -0700 Subject: [PATCH 3/5] Typing exceptions.py --- python/sdssdb/exceptions.py | 10 +++++----- 1 file changed, 5 insertions(+), 5 deletions(-) diff --git a/python/sdssdb/exceptions.py b/python/sdssdb/exceptions.py index 160410df..7ee43f6e 100644 --- a/python/sdssdb/exceptions.py +++ b/python/sdssdb/exceptions.py @@ -14,8 +14,8 @@ class SdssdbError(Exception): """A custom core Sdssdb exception""" - def __init__(self, message=None): - message = "There has been an error" if not message else message + def __init__(self, message: str | None = None): + message = "There has been an error" if message is None else message super(SdssdbError, self).__init__(message) @@ -23,8 +23,8 @@ def __init__(self, message=None): class SdssdbNotImplemented(SdssdbError): """A custom exception for not yet implemented features.""" - def __init__(self, message=None): - message = "This feature is not implemented yet." if not message else message + def __init__(self, message: str | None = None): + message = "This feature is not implemented yet." if message is None else message super(SdssdbNotImplemented, self).__init__(message) @@ -32,7 +32,7 @@ def __init__(self, message=None): class SdssdbAPIError(SdssdbError): """A custom exception for API errors""" - def __init__(self, message=None): + def __init__(self, message: str | None = None): if not message: message = "Error with Http Response from Sdssdb API" else: From 04e1a5623f847f117e357c4bbeb3d0e8eb15abeb Mon Sep 17 00:00:00 2001 From: =?UTF-8?q?Jos=C3=A9=20S=C3=A1nchez-Gallego?= Date: Fri, 21 Aug 2026 07:57:59 -0700 Subject: [PATCH 4/5] Remove sdss_install files --- etc/config.ini | 8 ----- etc/sdssdb.module | 74 ----------------------------------------------- 2 files changed, 82 deletions(-) delete mode 100644 etc/config.ini delete mode 100644 etc/sdssdb.module diff --git a/etc/config.ini b/etc/config.ini deleted file mode 100644 index 4bfa2a51..00000000 --- a/etc/config.ini +++ /dev/null @@ -1,8 +0,0 @@ -# -# This configuration file provides options to sdss4install specific to this product -# - -[sdss4install] -evilmake = True -no_python_package = True - diff --git a/etc/sdssdb.module b/etc/sdssdb.module deleted file mode 100644 index b0a2a392..00000000 --- a/etc/sdssdb.module +++ /dev/null @@ -1,74 +0,0 @@ -#%Module1.0 -# The first line of this file tells Modules that this is a module file. -# DO NOT ALTER IT! -# -# ABOUT THIS FILE -# -# This file is designed to be processed by Python. Specifically, this file -# will be read into a string, and the .format() method will be applied to it. -# This file is not a valid module file on its own. -# -# METADATA AND DOCUMENTATION SECTION -# -# This function is part of the Modules help system. You can modify -# the second line if needed, but most products should -# leave this alone. -# -proc ModulesHelp {{ }} {{ - global product version - puts stderr This module adds $product/$version to your environment. - -}} -# -# These variables are used below. The product variable should be set to -# the name of the product and never changed. The version variable will -# be set at install time, so it should be left alone. The conflict line -# prevents multiple versions from being loaded simultaneously. Do not -# change it. -# -set product {name} -set version {version} -conflict $product -# -# The line below is another part of the Modules help system. You can -# modify the part in quotes if you really need to, but most products should -# leave this alone. -# -module-whatis "Sets up $product/$version in your environment." -# -# DEPENDENCIES SECTION -# -# If your product requires other software to function, that should be declared -# here. There are two types of dependencies: mandatory and optional. -# A mandatory dependency is a module load command followed by a prereq -# command. An optional dependency is not followed by a prereq statement. -# - - - -# -# ENVIRONMENT SECTION -# -# The PRODUCT_ROOT and PRODUCT_DIR variables are used to set other -# environment variables, exported to the actual environment, by sdss4install -# -set PRODUCT_ROOT {root} -set PRODUCT_DIR $PRODUCT_ROOT/$product/$version -# -# This line creates an environment variable pointing to the install -# directory of your product. -# -setenv [string toupper $product]_DIR $PRODUCT_DIR -# -# The lines below set various other environment variables. They assume the -# template product layout. These will be set or commented as needed by the -# sdss4install script. -# -{needs_bin}prepend-path PATH $PRODUCT_DIR/bin -{needs_python}prepend-path PYTHONPATH $PRODUCT_DIR/lib/{pyversion}/site-packages -{needs_trunk_python}prepend-path PYTHONPATH $PRODUCT_DIR/python -{needs_ld_lib}prepend-path LD_LIBRARY_PATH $PRODUCT_DIR/lib -{needs_idl}prepend-path IDL_PATH +$PRODUCT_DIR/pro -# -# Add any non-standard Module code below this point. -# From 4bb1a09c724ed3e3e32f7161904cf69ed6ce2c7d Mon Sep 17 00:00:00 2001 From: =?UTF-8?q?Jos=C3=A9=20S=C3=A1nchez-Gallego?= Date: Thu, 27 Aug 2026 10:48:06 -0700 Subject: [PATCH 5/5] Move and split connections. Add basic tests with testcontainers --- pyproject.toml | 35 +- python/sdssdb/__init__.py | 11 +- python/sdssdb/connection/__init__.py | 27 + python/sdssdb/{ => connection}/connection.py | 402 +-- python/sdssdb/connection/peewee.py | 209 ++ python/sdssdb/connection/sqlalchemy.py | 182 ++ python/sdssdb/connection/sqlmodel.py | 67 + tests/__init__.py | 7 - tests/conftest.py | 208 +- tests/connection/conftest.py | 57 + tests/connection/test_peewee_connection.py | 23 + tests/connection/test_sqla_connection.py | 23 + tests/connection/test_sqlmodel_connection.py | 23 + uv.lock | 2741 +++--------------- 14 files changed, 1188 insertions(+), 2827 deletions(-) create mode 100644 python/sdssdb/connection/__init__.py rename python/sdssdb/{ => connection}/connection.py (58%) create mode 100644 python/sdssdb/connection/peewee.py create mode 100644 python/sdssdb/connection/sqlalchemy.py create mode 100644 python/sdssdb/connection/sqlmodel.py create mode 100644 tests/connection/conftest.py create mode 100644 tests/connection/test_peewee_connection.py create mode 100644 tests/connection/test_sqla_connection.py create mode 100644 tests/connection/test_sqlmodel_connection.py diff --git a/pyproject.toml b/pyproject.toml index 1b15d0f9..9f8b842c 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -8,16 +8,14 @@ authors = [ description = "SDSS product for database management" keywords = ["astronomy", "software", "database"] license = {text = "BSD 3-Clause License", file = "LICENSE.md"} -requires-python = ">=3.9,<4.0" +requires-python = ">=3.10,<4.0" dependencies = [ "pgpasslib>=1.1.0", "psycopg[binary]>=3.2.13", - "peewee>=4.0.0", - "sqlalchemy>=2.0.0", + "psycopg2-binary>=2.9.11", "sdsstools>=1.9.7", - "numpy>=1.18.2", + "numpy>=2.0.0", "six>=1.12.0", - "psycopg2-binary>=2.9.11", "typing-extensions>=4.16.0", ] @@ -31,6 +29,9 @@ file = "README.md" content-type = "text/markdown" [project.optional-dependencies] +sqlalchemy = ["sqlalchemy>=2.0.0"] +peewee = ["peewee>=4.0.0"] +sqlmodel = ["sqlmodel>=0.0.39"] extras = [ "progressbar2>=3.46.1", "pydot>=1.4.1", @@ -51,18 +52,22 @@ extras = [ "psycopg[binary]>=3.2.13", ] dev = [ - "pytest>=5.2", - "pytest-cov>=2.4.0", - "pytest-sugar>=0.8.0", "ipython>=8.0.0", "ipdb>=0.13.2", - "pytest-postgresql>=2.2.1,<6", - "factory_boy>=2.12.0", - "pytest-factoryboy>=2.0.3", "pyyaml>=5.1", "ruff>=0.14.8", "ty>=0.0.14", ] +test = [ + "pytest>=5.2", + "pytest-cov>=2.4.0", + "pytest-sugar>=0.8.0", + "pytest-mock>=3.15.1", + "pytest-factoryboy>=2.0.3", + "pytest-postgresql>=2.2.1,<6", + "factory_boy>=2.12.0", + "testcontainers[postgres]>=4.15.0", +] docs = [ "Sphinx>=7.0.0", "furo>=2021.9.22", @@ -118,7 +123,13 @@ asyncio_default_fixture_loop_scope = "function" branch = true include = ["python/sdssdb/*"] omit = [ - "*/__init__.py", + "python/sdssdb/peewee/sdss5db/**/*.py", + "python/sdssdb/peewee/lvmdb/*.py", + "python/sdssdb/peewee/operationsdb/**/*.py", + "python/sdssdb/sqlalchemy/sdss5db/*.py", + "python/sdssdb/sqlalchemy/operationsdb/**/*.py", + "python/sdssdb/sqlalchemy/mangadb/*.py", + "python/sdssdb/sqlalchemy/archive/*.py", ] [tool.coverage.report] diff --git a/python/sdssdb/__init__.py b/python/sdssdb/__init__.py index d118ec6a..998d15a8 100644 --- a/python/sdssdb/__init__.py +++ b/python/sdssdb/__init__.py @@ -6,14 +6,6 @@ from sdsstools import get_config, get_logger, get_package_version -try: - from sqlalchemy.exc import MovedIn20Warning - - warnings.filterwarnings("ignore", category=MovedIn20Warning) -except ModuleNotFoundError: # We are using SQLA > 2.0 - pass - - warnings.filterwarnings( "ignore", ".*Skipped unsupported reflection of expression-based index .*q3c.*", @@ -39,5 +31,4 @@ autoconnect = True -from .connection import PeeweeDatabaseConnection # noqa -from .connection import SQLADatabaseConnection # noqa +from .connection import * diff --git a/python/sdssdb/connection/__init__.py b/python/sdssdb/connection/__init__.py new file mode 100644 index 00000000..5183d679 --- /dev/null +++ b/python/sdssdb/connection/__init__.py @@ -0,0 +1,27 @@ +#!/usr/bin/env python +# -*- coding: utf-8 -*- +# +# @Author: José Sánchez-Gallego (gallegoj@uw.edu) +# @Date: 2026-08-21 +# @Filename: __init__.py +# @License: BSD 3-clause (http://www.opensource.org/licenses/BSD-3-Clause) + +from __future__ import annotations + +from .connection import DatabaseConnection + + +try: + from .peewee import PeeweeDatabaseConnection +except ImportError: + pass + +try: + from .sqlalchemy import SQLADatabaseConnection +except ImportError: + pass + +try: + from .sqlmodel import SQLModelDatabaseConnection +except ImportError: + pass diff --git a/python/sdssdb/connection.py b/python/sdssdb/connection/connection.py similarity index 58% rename from python/sdssdb/connection.py rename to python/sdssdb/connection/connection.py index fee52605..48ad425a 100644 --- a/python/sdssdb/connection.py +++ b/python/sdssdb/connection/connection.py @@ -9,7 +9,6 @@ from __future__ import annotations import abc -import importlib import os import re import socket @@ -20,26 +19,12 @@ import six from typing_extensions import deprecated -from sqlalchemy import MetaData, create_engine -from sqlalchemy.engine import URL -from sqlalchemy.exc import OperationalError as OpError -from sqlalchemy.ext.declarative import DeferredReflection -from sqlalchemy.orm import scoped_session, sessionmaker - -import peewee -from peewee import OperationalError, PostgresqlDatabase -from playhouse.postgres_ext import ArrayField -from playhouse.reflection import Introspector, UnknownField - import sdssdb from sdssdb import config, log -from sdssdb.utils.internals import get_database_columns __all__ = [ "DatabaseConnection", - "PeeweeDatabaseConnection", - "SQLADatabaseConnection", "get_database_uri", "parse_uri", "is_uri", @@ -54,7 +39,7 @@ class ConnectionParams(TypedDict): host: str | None port: int | None password: str | None - use_socket: bool + use_socket_file: bool | None def _evaluate_envvar_bool(envvar: str, default: bool = False) -> bool: @@ -137,7 +122,7 @@ def parse_uri(uri: str) -> tuple[str | None, ConnectionParams]: "password": parsed.password, "host": parsed.hostname, "port": parsed.port, - "use_socket": False, + "use_socket_file": None, } @@ -164,7 +149,7 @@ class DatabaseConnection(six.with_metaclass(abc.ABCMeta)): Parameters ---------- - dbname_or_uri + dbname The database name or a connection URI. profile The configuration profile to use. The profile defines the default @@ -184,8 +169,6 @@ class DatabaseConnection(six.with_metaclass(abc.ABCMeta)): dbversion A database version. If specified, appends to dbname as "dbname_dbversion" and becomes the dbname used for connection strings. - use_socket - If `True`, uses a socket connection instead of TCP/IP. use_psycopg3 Whether to use psycopg3 instead of psycopg2. If `None`, defaults to the value of the environment variable ``$SDSSDB_PSYCOPG3`` (which defaults to @@ -204,23 +187,22 @@ class DatabaseConnection(six.with_metaclass(abc.ABCMeta)): def __init__( self, - dbname_or_uri: str | None = None, + dbname: str | None = None, profile: str | None = None, autoconnect: bool | None = None, silent_on_fail: bool = False, dbversion: str | None = None, - use_socket: bool = False, use_psycopg3: bool | None = None, ): self.profile: str | None = None self._connection_params: ConnectionParams | None = None - if is_uri(dbname_or_uri): - assert isinstance(dbname_or_uri, str) - self.dbname, self._connection_params = parse_uri(dbname_or_uri) - elif dbname_or_uri is not None: - self.dbname = dbname_or_uri + if is_uri(dbname): + assert isinstance(dbname, str) + self.dbname, self._connection_params = parse_uri(dbname) + elif dbname is not None: + self.dbname = dbname self.dbversion: str | None = dbversion or self.dbversion if self.dbversion is not None and self.dbname is not None: @@ -230,9 +212,6 @@ def __init__( if profile is not None or self._connection_params is None: self.set_profile(profile=profile, connect=False) - if self._connection_params is not None: - self._connection_params["use_socket"] = use_socket - self.use_psycopg3 = ( _evaluate_envvar_bool("SDSSDB_PSYCOPG3", default=True) if use_psycopg3 is None @@ -268,7 +247,7 @@ def set_profile( user: str | None = None, host: str | None = None, port: int | None = None, - use_socket: bool | None = None, + use_socket_file: bool | None = None, connect: bool = True, ) -> bool: """Sets the profile from the configuration file. @@ -284,8 +263,8 @@ def set_profile( Overrides the profile database host. port Overrides the profile database port. - use_socket - If `True`, uses a socket connection instead of TCP/IP. + use_socket_file + If `True`, and ``host=None``, uses the socket file connection instead of TCP/IP. connect If `True`, tries to connect to the database using the new profile. @@ -303,7 +282,7 @@ def set_profile( raise ValueError("profile not found in configuration file.") self.profile = profile - profile_config = config[profile].copy() + profile_config: ConnectionParams = config[profile].copy() else: # Get hostname @@ -314,7 +293,7 @@ def set_profile( if "domain" in config[profile] and config[profile]["domain"] is not None: if re.match(config[profile]["domain"], hostname): self.profile = profile - profile_config = config[profile].copy() + profile_config: ConnectionParams = config[profile].copy() # If the profile host matches the current hostname set the # value to None to force using localhost to prevent cases # in which the loopback is not configured properly in PostgreSQL. @@ -324,7 +303,17 @@ def set_profile( else: # If no profile was found, use the local profile. self.profile = "local" - profile_config = config[self.profile].copy() + + if self.profile in config: + profile_config: ConnectionParams = config[self.profile].copy() + else: + profile_config: ConnectionParams = { + "user": None, + "host": None, + "port": 5432, + "password": None, + "use_socket_file": None, + } if user is not None: profile_config["user"] = user @@ -332,15 +321,15 @@ def set_profile( profile_config["host"] = host if port is not None: profile_config["port"] = port - if use_socket is not None: - profile_config["use_socket"] = use_socket + if use_socket_file is not None: + profile_config["use_socket_file"] = use_socket_file self._connection_params: ConnectionParams = { "user": profile_config.get("user", None), "host": profile_config.get("host", None), "port": profile_config.get("port", None), "password": profile_config.get("password", None), - "use_socket": profile_config.get("use_socket", False), + "use_socket_file": profile_config.get("use_socket_file", None), } if connect: @@ -377,7 +366,7 @@ def connect( user: str | None = None, host: str | None = None, port: int | None = None, - use_socket: bool | None = None, + use_socket_file: bool | None = None, silent_on_fail: bool = False, ) -> bool: """Initialises the database using the current connection information. @@ -395,8 +384,8 @@ def connect( port The port of the database server. Overrides the current configuration if provided. - use_socket - If `True`, uses a socket connection instead of TCP/IP. + use_socket_file + If `True`, and `host=None`, uses the socket file connection instead of TCP/IP. silent_on_fail If `True`, does not show a warning if the connection fails. @@ -424,8 +413,8 @@ def connect( self._connection_params["host"] = host if port is not None: self._connection_params["port"] = port - if use_socket is not None: - self._connection_params["use_socket"] = use_socket + if use_socket_file is not None: + self._connection_params["use_socket_file"] = use_socket_file connected, error = self._conn() if not connected and not silent_on_fail: @@ -571,328 +560,3 @@ def post_connect(self): """Hook called after a successfull connection.""" pass - - -class PeeweeDatabaseConnection(DatabaseConnection, PostgresqlDatabase): # type:ignore - """Peewee database connection implementation. - - Attributes - ---------- - models : list - Models bound to this database. Only models that are bound using - `~sdssdb.peewee.BaseModel` are handled. - - """ - - def __init__(self, *args, **kwargs): - self.models = {} - self.introspector = {} - - self._metadata = {} - - PostgresqlDatabase.__init__(self, None) - DatabaseConnection.__init__(self, *args, **kwargs) - - @property - def connected(self): - """Reports whether the connection is active.""" - - return self.is_connection_usable() - - @property - def psycopg_version(self): - """Returns the version of psycopg in use.""" - - if not self.connected: - raise RuntimeError("The database is not connected.") - - if isinstance(self._adapter, self.psycopg2_adapter): - return "psycopg2" - elif isinstance(self._adapter, self.psycopg3_adapter): - return "psycopg3" - else: - return "unknown" - - def _conn(self): - """Connects to the DB and tests the connection.""" - - if not self._connection_params or not self.dbname: - raise RuntimeError("Not enough information to connect to the database.") - - host = self._connection_params.get("host", None) - - # Handle socket connections. This is useful for local connections when the loopback is - # not configured properly in PostgreSQL and connecting on localhost fails. - use_socket = self._connection_params.get("use_socket", False) - if use_socket is True: - host = None - - PostgresqlDatabase.__init__( - self, - self.dbname, - host=host, - user=self._connection_params.get("user", None), - password=self._connection_params.get("password", None), - port=None if host is None else self._connection_params.get("port", None), - prefer_psycopg3=self.use_psycopg3, - ) - - connection_error: str | None = None - - try: - PostgresqlDatabase.connect(self) - except OperationalError as err: - PostgresqlDatabase.init(self, None) - connection_error = str(err) - - if self.is_connection_usable() and self.auto_reflect: - with self.atomic(): - for model in self.models.values(): - if getattr(model._meta, "use_reflection", False): - if hasattr(model, "reflect"): - model.reflect() - - if self.connected: - self.post_connect() - - return self.connected, connection_error - - def get_model(self, table_name: str, schema: str | None = None) -> type[peewee.Model] | None: - """Returns the model for a table. - - Parameters - ---------- - table_name - The name of the table whose model will be returned. - schema - The schema for the table. If `None`, the first model that - matches the table name will be returned. - - Returns - ------- - model - The model associated with the table, or `None` if no model - was found. - - """ - - for model in self.models.values(): - if schema and model._meta.schema != schema: - continue - if model._meta.table_name == table_name: - return model - - return None - - def get_introspector(self, schema: str | None = None): - """Gets a Peewee database :class:`peewee:Introspector`.""" - - schema_key = schema or "" - - if schema_key not in self.introspector: - self.introspector[schema_key] = Introspector.from_database(self, schema=schema) - - return self.introspector[schema_key] - - def get_fields(self, table_name: str, schema: str | None = None, cache: bool = True): - """Returns a list of Peewee fields for a table.""" - - schema = schema or "public" - - if schema not in self._metadata or not cache: - self._metadata[schema] = get_database_columns(self, schema=schema) - - if table_name not in self._metadata[schema]: - return [] - - table_metadata = self._metadata[schema][table_name] - - pk = table_metadata["pk"] - composite_key = pk is not None and len(pk) > 1 - - columns = table_metadata["columns"] - - fields = [] - for col_name, field_type, array_type, nullable in columns: - is_pk = True if (pk is not None and not composite_key and pk[0] == col_name) else False - - params = { - "column_name": col_name, - "null": nullable, - "primary_key": is_pk, - "unique": is_pk, - } - - if array_type: - field = ArrayField(array_type, **params) - elif array_type is False and field_type is UnknownField: - field = peewee.BareField(**params) - else: - field = field_type(**params) - - fields.append(field) - - return fields - - def get_primary_keys(self, table_name: str, schema: str | None = None, cache: bool = True): # type: ignore - """Returns the primary keys for a table.""" - - schema = schema or "public" - - if schema not in self._metadata or not cache: - self._metadata[schema] = get_database_columns(self, schema=schema) - - if table_name not in self._metadata[schema]: - return [] - else: - return self._metadata[schema][table_name]["pk"] or [] - - -class SQLADatabaseConnection(DatabaseConnection): - """SQLAlchemy database connection implementation""" - - engine = None - bases = [] - Session = None - metadata = None - - def __init__(self, *args, **kwargs): - #: Reports whether the connection is active. - self.connected = False - - DatabaseConnection.__init__(self, *args, **kwargs) - - @property - def uri(self) -> str: - """Returns the URI to the database connection.""" - - uri = super().uri - - # If we want to use the socket connection we need to change the connection string. - use_socket = self._connection_params.get("use_socket", False) - host = self._connection_params.get("host", None) - - uri = URL.create( - drivername="postgresql+" + ("psycopg" if self.use_psycopg3 else "psycopg2"), - username=self._connection_params.get("user", None), - host=None if use_socket else host, - port=None if use_socket else self._connection_params.get("port", None), - password=self._connection_params.get("password", None), - database=self.dbname, - query={"host": "/var/run/postgresql"} if use_socket else {}, - ) - - return str(uri) - - def _conn(self): - """Connects to the DB and tests the connection.""" - - connection_error: str | None = None - - try: - self.create_engine(self.uri, echo=False, pool_size=10, pool_recycle=1800) - - assert self.engine is not None - self.engine.connect() - - except OpError as err: - connection_error = str(err) - - if self.engine: - self.engine.dispose() - - self.engine = None - self.connected = False - self.Session = None - self.metadata = None - - else: - self.connected = True - self.prepare_bases() - - if self.connected: - self.post_connect() - - return self.connected, connection_error - - def reset_engine(self): - """Reset the engine, metadata, and session""" - - if self.engine: - self.engine.dispose() - self.engine = None - self.metadata = None - if self.Session: - self.Session.close() - self.Session = None - - def create_engine( - self, - db_connection_string: str | URL, - echo: bool = False, - pool_size: int = 10, - pool_recycle: int = 1800, - expire_on_commit: bool = True, - ): - """Create a new database engine - - Resets and creates a new sqlalchemy database engine. Also creates and binds - engine metadata and a new scoped session. - - """ - - self.reset_engine() - - self.engine = create_engine( - db_connection_string, - echo=echo, - pool_size=pool_size, - pool_recycle=pool_recycle, - future=True, - ) - self.metadata = MetaData() - self.Session = scoped_session( - sessionmaker( - bind=self.engine, - expire_on_commit=expire_on_commit, - future=True, - ) - ) - - def add_base(self, base, prepare: bool = True): - """Binds a base to this connection.""" - - if base not in self.bases: - self.bases.append(base) - - if prepare and self.connected: - self.prepare_bases(base=base) - - def prepare_bases(self, base=None): - """Prepare a Model Base - - Prepares a SQLalchemy Base for reflection. This binds a database - engine to a specific Base which maps to a set of ModelClasses. - If ``base`` is passed only that base will be prepared. Otherwise, - all the bases bound to this database connection will be prepared. - - """ - - do_bases = [base] if base else self.bases - - for base in do_bases: - if issubclass(base, DeferredReflection): - base.prepare(self.engine, views=True) - - # If the base has an attribute _relations that's the function - # to call to set up the relationships once the engine has been - # bound to the base. - if hasattr(base, "_relations"): - if isinstance(base._relations, str): - module = importlib.import_module(base.__module__) - relations_func = getattr(module, base._relations) - relations_func() - elif callable(base._relations): - base._relations() - else: - pass diff --git a/python/sdssdb/connection/peewee.py b/python/sdssdb/connection/peewee.py new file mode 100644 index 00000000..389c84fb --- /dev/null +++ b/python/sdssdb/connection/peewee.py @@ -0,0 +1,209 @@ +#!/usr/bin/env python +# -*- coding: utf-8 -*- +# +# @Author: José Sánchez-Gallego (gallegoj@uw.edu) +# @Date: 2026-08-21 +# @Filename: peewee.py +# @License: BSD 3-clause (http://www.opensource.org/licenses/BSD-3-Clause) + +from __future__ import annotations + +import peewee +from peewee import OperationalError, PostgresqlDatabase +from playhouse.postgres_ext import ArrayField +from playhouse.reflection import Introspector, UnknownField + +from sdssdb.utils.internals import get_database_columns + +from .connection import DatabaseConnection + + +class PeeweeDatabaseConnection(DatabaseConnection, PostgresqlDatabase): # type:ignore + """Peewee database connection implementation. + + Attributes + ---------- + models : list + Models bound to this database. Only models that are bound using + `~sdssdb.peewee.BaseModel` are handled. + + """ + + def __init__( + self, + dbname: str | None = None, + profile: str | None = None, + autoconnect: bool | None = None, + silent_on_fail: bool = False, + dbversion: str | None = None, + use_psycopg3: bool | None = None, + ): + self.models = {} + self.introspector = {} + + self._metadata = {} + + PostgresqlDatabase.__init__(self, None) + DatabaseConnection.__init__( + self, + dbname=dbname, + profile=profile, + autoconnect=autoconnect, + silent_on_fail=silent_on_fail, + dbversion=dbversion, + use_psycopg3=use_psycopg3, + ) + + @property + def connected(self) -> bool: + """Reports whether the connection is active.""" + + return self.is_connection_usable() + + @property + def psycopg_version(self): + """Returns the version of psycopg in use.""" + + if not self.connected: + raise RuntimeError("The database is not connected.") + + if isinstance(self._adapter, self.psycopg2_adapter): + return "psycopg2" + elif isinstance(self._adapter, self.psycopg3_adapter): + return "psycopg3" + else: + return "unknown" + + def _conn(self): + """Connects to the DB and tests the connection.""" + + if not self._connection_params or not self.dbname: + raise RuntimeError("Not enough information to connect to the database.") + + host = self._connection_params.get("host", None) + + # Handle socket file connections. This is useful for local connections when the + # loopback is not configured properly in PostgreSQL and connecting on localhost fails. + use_socket_file = self._connection_params.get("use_socket_file", False) + if use_socket_file is False and host is None: + host = host or "localhost" + + PostgresqlDatabase.__init__( + self, + self.dbname, + host=host, + user=self._connection_params.get("user", None), + password=self._connection_params.get("password", None), + port=self._connection_params.get("port", None), + prefer_psycopg3=self.use_psycopg3, + ) + + connection_error: str | None = None + + try: + PostgresqlDatabase.connect(self) + except OperationalError as err: + PostgresqlDatabase.init(self, None) + connection_error = str(err) + + if self.is_connection_usable() and self.auto_reflect: + with self.atomic(): + for model in self.models.values(): + if getattr(model._meta, "use_reflection", False): + if hasattr(model, "reflect"): + model.reflect() + + if self.connected: + self.post_connect() + + return self.connected, connection_error + + def get_model(self, table_name: str, schema: str | None = None) -> type[peewee.Model] | None: + """Returns the model for a table. + + Parameters + ---------- + table_name + The name of the table whose model will be returned. + schema + The schema for the table. If `None`, the first model that + matches the table name will be returned. + + Returns + ------- + model + The model associated with the table, or `None` if no model + was found. + + """ + + for model in self.models.values(): + if schema and model._meta.schema != schema: + continue + if model._meta.table_name == table_name: + return model + + return None + + def get_introspector(self, schema: str | None = None): + """Gets a Peewee database :class:`peewee:Introspector`.""" + + schema_key = schema or "" + + if schema_key not in self.introspector: + self.introspector[schema_key] = Introspector.from_database(self, schema=schema) + + return self.introspector[schema_key] + + def get_fields(self, table_name: str, schema: str | None = None, cache: bool = True): + """Returns a list of Peewee fields for a table.""" + + schema = schema or "public" + + if schema not in self._metadata or not cache: + self._metadata[schema] = get_database_columns(self, schema=schema) + + if table_name not in self._metadata[schema]: + return [] + + table_metadata = self._metadata[schema][table_name] + + pk = table_metadata["pk"] + composite_key = pk is not None and len(pk) > 1 + + columns = table_metadata["columns"] + + fields = [] + for col_name, field_type, array_type, nullable in columns: + is_pk = True if (pk is not None and not composite_key and pk[0] == col_name) else False + + params = { + "column_name": col_name, + "null": nullable, + "primary_key": is_pk, + "unique": is_pk, + } + + if array_type: + field = ArrayField(array_type, **params) + elif array_type is False and field_type is UnknownField: + field = peewee.BareField(**params) + else: + field = field_type(**params) + + fields.append(field) + + return fields + + def get_primary_keys(self, table_name: str, schema: str | None = None, cache: bool = True): # type: ignore + """Returns the primary keys for a table.""" + + schema = schema or "public" + + if schema not in self._metadata or not cache: + self._metadata[schema] = get_database_columns(self, schema=schema) + + if table_name not in self._metadata[schema]: + return [] + else: + return self._metadata[schema][table_name]["pk"] or [] diff --git a/python/sdssdb/connection/sqlalchemy.py b/python/sdssdb/connection/sqlalchemy.py new file mode 100644 index 00000000..c679f7ff --- /dev/null +++ b/python/sdssdb/connection/sqlalchemy.py @@ -0,0 +1,182 @@ +#!/usr/bin/env python +# -*- coding: utf-8 -*- +# +# @Author: José Sánchez-Gallego (gallegoj@uw.edu) +# @Date: 2026-08-21 +# @Filename: sqlalchemy.py +# @License: BSD 3-clause (http://www.opensource.org/licenses/BSD-3-Clause) + +from __future__ import annotations + +import importlib + +from typing import Literal + +from sqlalchemy import Engine, MetaData, create_engine +from sqlalchemy.engine import URL +from sqlalchemy.exc import OperationalError as OpError +from sqlalchemy.ext.declarative import DeferredReflection +from sqlalchemy.orm import DeclarativeBase, scoped_session, sessionmaker + +from .connection import DatabaseConnection + + +class SQLADatabaseConnection(DatabaseConnection): + """SQLAlchemy database connection implementation""" + + _orm: Literal["SQLA", "SQLModel"] = "SQLA" + + engine: Engine | None = None + bases: list[type[DeclarativeBase | DeferredReflection]] = [] + Session: scoped_session | None = None + metadata: MetaData | None = None + + def __init__(self, *args, **kwargs): + #: Reports whether the connection is active. + self.connected = False + + DatabaseConnection.__init__(self, *args, **kwargs) + + @property + def uri(self) -> str: + """Returns the URI to the database connection.""" + + # If we want to use the socket connection we need to change the connection string. + use_socket = self._connection_params.get("use_socket", False) + host = self._connection_params.get("host", None) + + uri = URL.create( + drivername="postgresql+" + ("psycopg" if self.use_psycopg3 else "psycopg2"), + username=self._connection_params.get("user", None), + host=None if use_socket else (host or "localhost"), + port=None if use_socket else self._connection_params.get("port", None), + password=self._connection_params.get("password", None), + database=self.dbname, + query={"host": "/var/run/postgresql"} if use_socket else {}, + ) + + return str(uri) + + def _conn(self): + """Connects to the DB and tests the connection.""" + + connection_error: str | None = None + + try: + self.create_engine(self.uri, echo=False, pool_size=10, pool_recycle=1800) + + assert self.engine is not None + self.engine.connect() + + except OpError as err: + connection_error = str(err) + + if self.engine: + self.engine.dispose() + + self.engine = None + self.connected = False + self.Session = None + self.metadata = None + + else: + self.connected = True + self.prepare_bases() + + if self.connected: + self.post_connect() + + return self.connected, connection_error + + def reset_engine(self): + """Reset the engine, metadata, and session""" + + if self.engine: + self.engine.dispose() + self.engine = None + self.metadata = None + if self.Session: + self.Session.close() + self.Session = None + + def create_engine( + self, + db_connection_string: str | URL, + echo: bool = False, + pool_size: int = 10, + pool_recycle: int = 1800, + expire_on_commit: bool = True, + ): + """Create a new database engine + + Resets and creates a new sqlalchemy database engine. Also creates and binds + engine metadata and a new scoped session. + + """ + + self.reset_engine() + + self.engine = create_engine( + db_connection_string, + echo=echo, + pool_size=pool_size, + pool_recycle=pool_recycle, + future=True, + ) + self.metadata = MetaData() + self.Session = scoped_session( + sessionmaker( + bind=self.engine, + expire_on_commit=expire_on_commit, + future=True, + ) + ) + + def get_session(self) -> scoped_session: + """Returns a new session.""" + + if not self.Session: + raise RuntimeError("No session is available. Is the connection open?") + + return self.Session() + + def add_base(self, base, prepare: bool = True): + """Binds a base to this connection.""" + + if base not in self.bases: + self.bases.append(base) + + if prepare and self.connected: + self.prepare_bases(base=base) + + def prepare_bases(self, base=None): + """Prepare a Model Base + + Prepares a SQLalchemy Base for reflection. This binds a database + engine to a specific Base which maps to a set of ModelClasses. + If ``base`` is passed only that base will be prepared. Otherwise, + all the bases bound to this database connection will be prepared. + + """ + + if self.engine is None: + raise RuntimeError("No engine is available. Is the connection open?") + + do_bases = [base] if base else self.bases + + for base in do_bases: + if issubclass(base, DeferredReflection): + base.prepare(self.engine, views=True) + + # If the base has an attribute _relations that's the function + # to call to set up the relationships once the engine has been + # bound to the base. + if hasattr(base, "_relations"): + if isinstance(base._relations, str): + module = importlib.import_module(base.__module__) + relations_func = getattr(module, base._relations) + relations_func() + elif callable(base._relations): + base._relations() # type: ignore + else: + pass diff --git a/python/sdssdb/connection/sqlmodel.py b/python/sdssdb/connection/sqlmodel.py new file mode 100644 index 00000000..6a73c54f --- /dev/null +++ b/python/sdssdb/connection/sqlmodel.py @@ -0,0 +1,67 @@ +#!/usr/bin/env python +# -*- coding: utf-8 -*- +# +# @Author: José Sánchez-Gallego (gallegoj@uw.edu) +# @Date: 2026-08-21 +# @Filename: sqlmodel.py +# @License: BSD 3-clause (http://www.opensource.org/licenses/BSD-3-Clause) + +from __future__ import annotations + +from typing import TYPE_CHECKING, Callable + +from sqlmodel import MetaData, create_engine +from sqlmodel import Session as SQLModelSession + +from .sqlalchemy import SQLADatabaseConnection + + +if TYPE_CHECKING: + from sqlalchemy import URL + + +class SQLModelDatabaseConnection(SQLADatabaseConnection): + """SQLModel database connection implementation.""" + + _orm: str = "SQLModel" + + Session: Callable[[], SQLModelSession] | None = None + + def create_engine( + self, + db_connection_string: str | URL, + echo: bool = False, + pool_size: int = 10, + pool_recycle: int = 1800, + expire_on_commit: bool = True, + ): + """Create a new database engine + + Resets and creates a new sqlalchemy database engine. Also creates and binds + engine metadata and a new scoped session. + + """ + + self.reset_engine() + + self.engine = create_engine( + db_connection_string, + echo=echo, + pool_size=pool_size, + pool_recycle=pool_recycle, + future=True, + ) + self.metadata = MetaData() + self.Session = lambda: SQLModelSession( + self.engine, + expire_on_commit=expire_on_commit, + future=True, + ) + + def get_session(self) -> SQLModelSession: # type: ignore + """Returns a new session.""" + + if not self.engine or not self.Session: + raise RuntimeError("No engine is available. Is the connection open?") + + return self.Session() diff --git a/tests/__init__.py b/tests/__init__.py index 5a58977b..2cea1a80 100644 --- a/tests/__init__.py +++ b/tests/__init__.py @@ -7,10 +7,3 @@ # @License: BSD 3-clause (http://www.opensource.org/licenses/BSD-3-Clause) from __future__ import annotations - -import warnings - -from sqlalchemy.exc import MovedIn20Warning - - -warnings.filterwarnings("ignore", category=MovedIn20Warning) diff --git a/tests/conftest.py b/tests/conftest.py index c051f681..17213dbb 100644 --- a/tests/conftest.py +++ b/tests/conftest.py @@ -5,115 +5,105 @@ from __future__ import absolute_import, division, print_function, unicode_literals -import importlib -import inspect -import re - -import pytest -from pytest_postgresql.janitor import DatabaseJanitor - -from .pwdbs import prepare_testdb as pw_prepdb -from .sqladbs import prepare_testdb as sqla_prepdb - - -def pytest_addoption(parser): - """Add new options to the pytest command-line""" - # only run peewee tests - parser.addoption( - "--peewee", - action="store_true", - default=False, - help="Only run tests for peewee dbs", - ) - - # only run sqla tests - parser.addoption( - "--sqla", - action="store_true", - default=False, - help="Only run tests for sqlalchemy dbs", - ) - - # persist the sqla session and peewee transaction - parser.addoption( - "--persist-sessions", - action="store_true", - default=False, - help="Switch session and transaction fixtures to module scope", - ) - - -def pytest_ignore_collect(path, config): - """pytest hook to identify tests to be ignored during collection - - Looks through all test_xxx.py files in pwdbs and sqladbs and determines - which ones have databases that fail to connect and ignores them. - - """ - only_peewee = config.getoption("--peewee", None) - only_sqla = config.getoption("--sqla", None) - assert not all([only_peewee, only_sqla]), "both --peewee and --sqla options cannot be set" - if only_peewee: - if "sqladbs" in str(path): - return True - if only_sqla: - if "pwdbs" in str(path): - return True - - # identify and ignore test modules that explicitly require - # a connected real database - if re.search(r"test_.*\.py$", str(path)): - # get module name - modname = inspect.getmodulename(path) - # find and load the underlying module - spec = importlib.util.spec_from_file_location(modname, path) - foo = importlib.util.module_from_spec(spec) - # execute load - spec.loader.exec_module(foo) - - # only skip modules that explicitly require a live db - requires_connected_database = getattr(foo, "requires_connected_database", False) - if not requires_connected_database: - return False - - # get the database from the module - db = getattr(foo, "database", None) - # check if db is connected - if db and db.connected is False and db.dbname != "test": - return True - - -@pytest.fixture(scope="module", autouse=True) -def skipdb(database): - """fixture to skip database tests if the db does not exist""" - if database.connected is False: - pytest.skip(f"no {database.dbname} found") - database = None - - -@pytest.fixture(scope="module") -def database(request): - """Module fixture to initialize a real database or a test postgresql database""" - if hasattr(request, "param"): - # yield a real database - yield request.param - else: - # check if request is coming from a sqla db or peewee db - issqla = "sqladbs" in request.module.__name__ or "sqlalchemy" in request.module.__name__ - # initialize the test database - # uses https://github.com/ClearcodeHQ/pytest-postgresql - janitor = DatabaseJanitor( - user="postgres", - host="localhost", - port=5432, - dbname="test", - version="11.4", - ) - janitor.init() - db = sqla_prepdb() if issqla else pw_prepdb() - yield db - db = None - janitor.drop() + +# def pytest_addoption(parser): +# """Add new options to the pytest command-line""" +# # only run peewee tests +# parser.addoption( +# "--peewee", +# action="store_true", +# default=False, +# help="Only run tests for peewee dbs", +# ) + +# # only run sqla tests +# parser.addoption( +# "--sqla", +# action="store_true", +# default=False, +# help="Only run tests for sqlalchemy dbs", +# ) + +# # persist the sqla session and peewee transaction +# parser.addoption( +# "--persist-sessions", +# action="store_true", +# default=False, +# help="Switch session and transaction fixtures to module scope", +# ) + + +# def pytest_ignore_collect(path, config): +# """pytest hook to identify tests to be ignored during collection + +# Looks through all test_xxx.py files in pwdbs and sqladbs and determines +# which ones have databases that fail to connect and ignores them. + +# """ +# only_peewee = config.getoption("--peewee", None) +# only_sqla = config.getoption("--sqla", None) +# assert not all([only_peewee, only_sqla]), "both --peewee and --sqla options cannot be set" +# if only_peewee: +# if "sqladbs" in str(path): +# return True +# if only_sqla: +# if "pwdbs" in str(path): +# return True + +# # identify and ignore test modules that explicitly require +# # a connected real database +# if re.search(r"test_.*\.py$", str(path)): +# # get module name +# modname = inspect.getmodulename(path) +# # find and load the underlying module +# spec = importlib.util.spec_from_file_location(modname, path) +# foo = importlib.util.module_from_spec(spec) +# # execute load +# spec.loader.exec_module(foo) + +# # only skip modules that explicitly require a live db +# requires_connected_database = getattr(foo, "requires_connected_database", False) +# if not requires_connected_database: +# return False + +# # get the database from the module +# db = getattr(foo, "database", None) +# # check if db is connected +# if db and db.connected is False and db.dbname != "test": +# return True + + +# @pytest.fixture(scope="module", autouse=True) +# def skipdb(database): +# """fixture to skip database tests if the db does not exist""" +# if database.connected is False: +# pytest.skip(f"no {database.dbname} found") +# database = None + + +# @pytest.fixture(scope="module") +# def database(request): +# """Module fixture to initialize a real database or a test postgresql database""" +# if hasattr(request, "param"): +# # yield a real database +# yield request.param +# else: +# # check if request is coming from a sqla db or peewee db +# issqla = "sqladbs" in request.module.__name__ or "sqlalchemy" in request.module.__name__ +# # initialize the test database +# # uses https://github.com/ClearcodeHQ/pytest-postgresql +# janitor = DatabaseJanitor( +# user="postgres", +# host="localhost", +# port=5432, +# dbname="test", +# version="11.4", +# ) +# janitor.init() +# db = sqla_prepdb() if issqla else pw_prepdb() +# yield db +# db = None +# janitor.drop() def determine_scope(fixture_name, config): diff --git a/tests/connection/conftest.py b/tests/connection/conftest.py new file mode 100644 index 00000000..175ab358 --- /dev/null +++ b/tests/connection/conftest.py @@ -0,0 +1,57 @@ +#!/usr/bin/env python +# -*- coding: utf-8 -*- +# +# @Author: José Sánchez-Gallego (gallegoj@uw.edu) +# @Date: 2026-08-24 +# @Filename: conftest.py +# @License: BSD 3-clause (http://www.opensource.org/licenses/BSD-3-Clause) + +from __future__ import annotations + +import os +import pathlib + +from pytest import FixtureRequest, MonkeyPatch, fixture +from testcontainers.postgres import PostgresContainer + + +psql_container = PostgresContainer( + "postgres:18", + port=5432, + username="test_user", + password="test_password", + dbname="testdb", +) + + +@fixture(scope="session", autouse=True) +def setup_psql(request: FixtureRequest): + """Fixture to setup a test PostgreSQL database for the tests.""" + + psql_container.start() + + def teardown(): + psql_container.stop() + + request.addfinalizer(teardown) + + yield psql_container + + +@fixture(scope="function") +def pgport(setup_psql) -> int: + """Fixture to provide the PostgreSQL port exposed by the testcontainers container.""" + + return setup_psql.get_exposed_port(5432) + + +@fixture(scope="function", autouse=True) +def setup_pgpass(pgport: int, monkeypatch: MonkeyPatch, tmp_path: pathlib.Path): + + pgpass_file = tmp_path / ".pgpass" + pgpass_file.write_text(f"*:{pgport}:testdb:test_user:test_password\n") + os.chmod(pgpass_file, 0o600) + + monkeypatch.setenv("PGPASSFILE", str(pgpass_file)) + + yield diff --git a/tests/connection/test_peewee_connection.py b/tests/connection/test_peewee_connection.py new file mode 100644 index 00000000..6f54b69b --- /dev/null +++ b/tests/connection/test_peewee_connection.py @@ -0,0 +1,23 @@ +#!/usr/bin/env python +# -*- coding: utf-8 -*- +# +# @Author: José Sánchez-Gallego (gallegoj@uw.edu) +# @Date: 2026-08-23 +# @Filename: test_peewee_connection.py +# @License: BSD 3-clause (http://www.opensource.org/licenses/BSD-3-Clause) + +from __future__ import annotations + +from sdssdb.connection import PeeweeDatabaseConnection + + +def test_peewee_connection_init(pgport: int): + """Tests that the PeeweeDatabaseConnection initializes correctly.""" + + conn = PeeweeDatabaseConnection(dbname="testdb", autoconnect=True, silent_on_fail=True) + assert conn.connected is False + + conn.connect(user="test_user", port=pgport, use_socket_file=False) + + assert conn.connected is True + assert conn.dbname == "testdb" diff --git a/tests/connection/test_sqla_connection.py b/tests/connection/test_sqla_connection.py new file mode 100644 index 00000000..8e0eb943 --- /dev/null +++ b/tests/connection/test_sqla_connection.py @@ -0,0 +1,23 @@ +#!/usr/bin/env python +# -*- coding: utf-8 -*- +# +# @Author: José Sánchez-Gallego (gallegoj@uw.edu) +# @Date: 2026-08-23 +# @Filename: test_sqla_connection.py +# @License: BSD 3-clause (http://www.opensource.org/licenses/BSD-3-Clause) + +from __future__ import annotations + +from sdssdb.connection import SQLADatabaseConnection + + +def test_sqla_connection_init(pgport: int): + """Tests that the SQLADatabaseConnection initializes correctly.""" + + conn = SQLADatabaseConnection(dbname="testdb", autoconnect=True, silent_on_fail=True) + assert conn.connected is False + + conn.connect(user="test_user", port=pgport, use_socket_file=False) + + assert conn.connected is True + assert conn.dbname == "testdb" diff --git a/tests/connection/test_sqlmodel_connection.py b/tests/connection/test_sqlmodel_connection.py new file mode 100644 index 00000000..0b4d82ba --- /dev/null +++ b/tests/connection/test_sqlmodel_connection.py @@ -0,0 +1,23 @@ +#!/usr/bin/env python +# -*- coding: utf-8 -*- +# +# @Author: José Sánchez-Gallego (gallegoj@uw.edu) +# @Date: 2026-08-23 +# @Filename: test_sqla_connection.py +# @License: BSD 3-clause (http://www.opensource.org/licenses/BSD-3-Clause) + +from __future__ import annotations + +from sdssdb.connection import SQLModelDatabaseConnection + + +def test_sqla_connection_init(pgport: int): + """Tests that the SQLModelDatabaseConnection initializes correctly.""" + + conn = SQLModelDatabaseConnection(dbname="testdb", autoconnect=True, silent_on_fail=True) + assert conn.connected is False + + conn.connect(user="test_user", port=pgport, use_socket_file=False) + + assert conn.connected is True + assert conn.dbname == "testdb" diff --git a/uv.lock b/uv.lock index 88ac96ef..f2f77b1f 100644 --- a/uv.lock +++ b/uv.lock @@ -1,12 +1,12 @@ version = 1 revision = 3 -requires-python = ">=3.9, <4.0" +requires-python = ">=3.10, <4.0" resolution-markers = [ "python_full_version >= '3.15' and sys_platform == 'win32'", - "python_full_version == '3.14.*' and sys_platform == 'win32'", "python_full_version >= '3.15' and sys_platform == 'emscripten'", - "python_full_version == '3.14.*' and sys_platform == 'emscripten'", "python_full_version >= '3.15' and sys_platform != 'emscripten' and sys_platform != 'win32'", + "python_full_version == '3.14.*' and sys_platform == 'win32'", + "python_full_version == '3.14.*' and sys_platform == 'emscripten'", "python_full_version == '3.14.*' and sys_platform != 'emscripten' and sys_platform != 'win32'", "python_full_version >= '3.12' and python_full_version < '3.14' and sys_platform == 'win32'", "python_full_version >= '3.12' and python_full_version < '3.14' and sys_platform == 'emscripten'", @@ -14,8 +14,7 @@ resolution-markers = [ "python_full_version == '3.11.*' and sys_platform == 'win32'", "python_full_version == '3.11.*' and sys_platform == 'emscripten'", "python_full_version == '3.11.*' and sys_platform != 'emscripten' and sys_platform != 'win32'", - "python_full_version == '3.10.*'", - "python_full_version < '3.10'", + "python_full_version < '3.11'", ] [[package]] @@ -30,37 +29,10 @@ wheels = [ { url = "https://files.pythonhosted.org/packages/8d/3f/95338030883d8c8b91223b4e21744b04d11b161a3ef117295d8241f50ab4/accessible_pygments-0.0.5-py3-none-any.whl", hash = "sha256:88ae3211e68a1d0b011504b2ffc1691feafce124b845bd072ab6f9f66f34d4b7", size = 1395903, upload-time = "2024-05-10T11:23:08.421Z" }, ] -[[package]] -name = "alabaster" -version = "0.7.16" 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