medtagger / MedTagger

A collaborative framework for annotating medical datasets using crowdsourcing.
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[Backend Dependencies Update] Update sqlalchemy to 1.3.22 #941

Closed pyup-bot closed 3 years ago

pyup-bot commented 3 years ago

This PR updates SQLAlchemy from 1.3.10 to 1.3.22.

Changelog ### 1.3.22 ``` :released: December 18, 2020 .. change:: :tags: bug, oracle :tickets: 5784 :versions: 1.4.0b2 Fixed regression which occured due to :ticket:`5755` which implemented isolation level support for Oracle. It has been reported that many Oracle accounts don't actually have permission to query the ``v$transaction`` view so this feature has been altered to gracefully fallback when it fails upon database connect, where the dialect will assume "READ COMMITTED" is the default isolation level as was the case prior to SQLAlchemy 1.3.21. However, explicit use of the :meth:`_engine.Connection.get_isolation_level` method must now necessarily raise an exception, as Oracle databases with this restriction explicitly disallow the user from reading the current isolation level. .. changelog:: ``` ### 1.3.21 ``` :released: December 17, 2020 .. change:: :tags: bug, orm :tickets: 5774 :versions: 1.4.0b2 Added a comprehensive check and an informative error message for the case where a mapped class, or a string mapped class name, is passed to :paramref:`_orm.relationship.secondary`. This is an extremely common error which warrants a clear message. Additionally, added a new rule to the class registry resolution such that with regards to the :paramref:`_orm.relationship.secondary` parameter, if a mapped class and its table are of the identical string name, the :class:`.Table` will be favored when resolving this parameter. In all other cases, the class continues to be favored if a class and table share the identical name. .. change:: :tags: sqlite, usecase :tickets: 5685 Added ``sqlite_with_rowid=False`` dialect keyword to enable creating tables as ``CREATE TABLE … WITHOUT ROWID``. Patch courtesy Sean Anderson. .. change:: :tags: bug, sql :tickets: 5691 A warning is emmitted if a returning() method such as :meth:`_sql.Insert.returning` is called multiple times, as this does not yet support additive operation. Version 1.4 will support additive operation for this. Additionally, any combination of the :meth:`_sql.Insert.returning` and :meth:`_sql.ValuesBase.return_defaults` methods now raises an error as these methods are mutually exclusive; previously the operation would fail silently. .. change:: :tags: bug, mssql :tickets: 5751 Fixed bug where a CREATE INDEX statement was rendered incorrectly when both ``mssql-include`` and ``mssql_where`` were specified. Pull request courtesy Adiorz. .. change:: :tags: bug, postgresql, mysql :tickets: 5729 :versions: 1.4.0b2 Fixed regression introduced in 1.3.2 for the PostgreSQL dialect, also copied out to the MySQL dialect's feature in 1.3.18, where usage of a non :class:`_schema.Table` construct such as :func:`_sql.text` as the argument to :paramref:`_sql.Select.with_for_update.of` would fail to be accommodated correctly within the PostgreSQL or MySQL compilers. .. change:: :tags: bug, mssql :tickets: 5646 Added SQL Server code "01000" to the list of disconnect codes. .. change:: :tags: usecase, postgresql :tickets: 5604 :versions: 1.4.0b2 Added new parameter :paramref:`_postgresql.ExcludeConstraint.ops` to the :class:`_postgresql.ExcludeConstraint` object, to support operator class specification with this constraint. Pull request courtesy Alon Menczer. .. change:: :tags: bug, mysql, reflection :tickets: 5744 :versions: 1.4.0b2 Fixed issue where reflecting a server default on MariaDB only that contained a decimal point in the value would fail to be reflected correctly, leading towards a reflected table that lacked any server default. .. change:: :tags: bug, orm :tickets: 5664 Fixed bug in :meth:`_query.Query.update` where objects in the :class:`_ormsession.Session` that were already expired would be unnecessarily SELECTed individually when they were refreshed by the "evaluate"synchronize strategy. .. change:: :tags: usecase, oracle :tickets: 5755 Implemented support for the SERIALIZABLE isolation level for Oracle databases, as well as a real implementation for :meth:`_engine.Connection.get_isolation_level`. .. seealso:: :ref:`oracle_isolation_level` .. change:: :tags: mysql, sql :tickets: 5696 Added missing keywords to the ``RESERVED_WORDS`` list for the MySQL dialect: ``action``, ``level``, ``mode``, ``status``, ``text``, ``time``. Pull request courtesy Oscar Batori. .. change:: :tags: bug, orm :tickets: 5737 :versions: 1.4.0b2 Fixed bug involving the ``restore_load_context`` option of ORM events such as :meth:`_ormevent.InstanceEvents.load` such that the flag would not be carried along to subclasses which were mapped after the event handler were first established. .. change:: :tags: bug, sql :tickets: 5656 Fixed structural compiler issue where some constructs such as MySQL / PostgreSQL "on conflict / on duplicate key" would rely upon the state of the :class:`_sql.Compiler` object being fixed against their statement as the top level statement, which would fail in cases where those statements are branched from a different context, such as a DDL construct linked to a SQL statement. .. change:: :tags: mssql, sqlite, reflection :tickets: 5661 Fixed issue with composite primary key columns not being reported in the correct order. Patch courtesy fulpm. .. changelog:: ``` ### 1.3.20 ``` :released: October 12, 2020 .. change:: :tags: bug, orm :tickets: 4428 An :class:`.ArgumentError` with more detail is now raised if the target parameter for :meth:`_query.Query.join` is set to an unmapped object. Prior to this change a less detailed ``AttributeError`` was raised. Pull request courtesy Ramon Williams. .. change:: :tags: bug, mysql :tickets: 5568 The "skip_locked" keyword used with ``with_for_update()`` will emit a warning when used on MariaDB backends, and will then be ignored. This is a deprecated behavior that will raise in SQLAlchemy 1.4, as an application that requests "skip locked" is looking for a non-blocking operation which is not available on those backends. .. change:: :tags: bug, engine :tickets: 5599 Fixed issue where a non-string object sent to :class:`_exc.SQLAlchemyError` or a subclass, as occurs with some third party dialects, would fail to stringify correctly. Pull request courtesy Andrzej Bartosiński. .. change:: :tags: bug, sql :tickets: 5644 Fixed issue where the ``pickle.dumps()`` operation against :class:`_expression.Over` construct would produce a recursion overflow. .. change:: :tags: postgresql, usecase :tickets: 4392 The psycopg2 dialect now support PostgreSQL multiple host connections, by passing host/port combinations to the query string. Pull request courtesy Ramon Williams. .. seealso:: :ref:`psycopg2_multi_host` .. change:: :tags: bug, mysql :tickets: 5617 Fixed bug where an UPDATE statement against a JOIN using MySQL multi-table format would fail to include the table prefix for the target table if the statement had no WHERE clause, as only the WHERE clause were scanned to detect a "multi table update" at that particular point. The target is now also scanned if it's a JOIN to get the leftmost table as the primary table and the additional entries as additional FROM entries. .. change:: :tags: bug, postgresql :tickets: 5518 Adjusted the :meth:`_types.ARRAY.Comparator.any` and :meth:`_types.ARRAY.Comparator.all` methods to implement a straight "NOT" operation for negation, rather than negating the comparison operator. .. change:: :tags: bug, pool :tickets: 5582 Fixed issue where the following pool parameters were not being propagated to the new pool created when :meth:`_engine.Engine.dispose` were called: ``pre_ping``, ``use_lifo``. Additionally the ``recycle`` and ``reset_on_return`` parameter is now propagated for the :class:`_engine.AssertionPool` class. .. change:: :tags: bug, ext, associationproxy :tickets: 5541, 5542 An informative error is now raised when attempting to use an association proxy element as a plain column expression to be SELECTed from or used in a SQL function; this use case is not currently supported. .. change:: :tags: bug, sql :tickets: 5618 Fixed bug where an error was not raised in the case where a :func:`_sql.column` were added to more than one :func:`_sql.table` at a time. This raised correctly for the :class:`_schema.Column` and :class:`_schema.Table` objects. An :class:`_exc.ArgumentError` is now raised when this occurs. .. change:: :tags: bug, orm :tickets: 4589 Fixed issue where using a loader option against a string attribute name that is not actually a mapped attribute, such as a plain Python descriptor, would raise an uninformative AttributeError; a descriptive error is now raised. .. change:: :tags: mysql, usecase :tickets: 5462 Adjusted the MySQL dialect to correctly parenthesize functional index expressions as accepted by MySQL 8. Pull request courtesy Ramon Williams. .. change:: :tags: bug, engine :tickets: 5632 Repaired a function-level import that was not using SQLAlchemy's standard late-import system within the sqlalchemy.exc module. .. change:: :tags: change, mysql :tickets: 5539 Add new MySQL reserved words: ``cube``, ``lateral`` added in MySQL 8.0.1 and 8.0.14, respectively; this indicates that these terms will be quoted if used as table or column identifier names. .. change:: :tags: bug, mssql :tickets: 5592 Fixed issue where a SQLAlchemy connection URI for Azure DW with ``authentication=ActiveDirectoryIntegrated`` (and no username+password) was not constructing the ODBC connection string in a way that was acceptable to the Azure DW instance. .. change:: :tags: bug, postgresql :tickets: 5520 Fixed issue where the :class:`_postgresql.ENUM` type would not consult the schema translate map when emitting a CREATE TYPE or DROP TYPE during the test to see if the type exists or not. Additionally, repaired an issue where if the same enum were encountered multiple times in a single DDL sequence, the "check" query would run repeatedly rather than relying upon a cached value. .. change:: :tags: bug, tests :tickets: 5635 Fixed incompatibilities in the test suite when running against Pytest 6.x. .. changelog:: ``` ### 1.3.19 ``` :released: August 17, 2020 .. change:: :tags: usecase, py3k :tickets: 5357 Added a ``**kw`` argument to the :meth:`.DeclarativeMeta.__init__` method. This allows a class to support the :pep:`487` metaclass hook ``__init_subclass__``. Pull request courtesy Ewen Gillies. .. change:: :tags: bug, sql :tickets: 5470 Repaired an issue where the "ORDER BY" clause rendering a label name rather than a complete expression, which is particularly important for SQL Server, would fail to occur if the expression were enclosed in a parenthesized grouping in some cases. This case has been added to test support. The change additionally adjusts the "automatically add ORDER BY columns when DISTINCT is present" behavior of ORM query, deprecated in 1.4, to more accurately detect column expressions that are already present. .. change:: :tags: usecase, mysql :tickets: 5481 The MySQL dialect will render FROM DUAL for a SELECT statement that has no FROM clause but has a WHERE clause. This allows things like "SELECT 1 WHERE EXISTS (subquery)" kinds of queries to be used as well as other use cases. .. change:: :tags: bug, mssql, sql :tickets: 5467 Fixed bug where the mssql dialect incorrectly escaped object names that contained ']' character(s). .. change:: :tags: bug, reflection, sqlite, mssql :tickets: 5456 Applied a sweep through all included dialects to ensure names that contain single or double quotes are properly escaped when querying system tables, for all :class:`.Inspector` methods that accept object names as an argument (e.g. table names, view names, etc). SQLite and MSSQL contained two quoting issues that were repaired. .. change:: :tags: bug, mysql :tickets: 5411 Fixed an issue where CREATE TABLE statements were not specifying the COLLATE keyword correctly. .. change:: :tags: bug, datatypes, sql :tickets: 4733 The ``LookupError`` message will now provide the user with up to four possible values that a column is constrained to via the :class:`.Enum`. Values longer than 11 characters will be truncated and replaced with ellipses. Pull request courtesy Ramon Williams. .. change:: :tags: bug, postgresql :tickets: 5476 Fixed issue where the return type for the various RANGE comparison operators would itself be the same RANGE type rather than BOOLEAN, which would cause an undesirable result in the case that a :class:`.TypeDecorator` that defined result-processing behavior were in use. Pull request courtesy Jim Bosch. .. change:: :tags: bug, mysql :tickets: 5493 Added MariaDB code 1927 to the list of "disconnect" codes, as recent MariaDB versions apparently use this code when the database server was stopped. .. change:: :tags: usecase, declarative, orm :tickets: 5513 The name of the virtual column used when using the :class:`_declarative.AbstractConcreteBase` and :class:`_declarative.ConcreteBase` classes can now be customized, to allow for models that have a column that is actually named ``type``. Pull request courtesy Jesse-Bakker. .. change:: :tags: usecase, orm :tickets: 5494 Adjusted the workings of the :meth:`_orm.Mapper.all_orm_descriptors` accessor to represent the attributes in the order that they are located in a deterministic way, assuming the use of Python 3.6 or higher which maintains the sorting order of class attributes based on how they were declared. This sorting is not guaranteed to match the declared order of attributes in all cases however; see the method documentation for the exact scheme. .. change:: :tags: bug, sql :tickets: 5500 Fixed issue where the :paramref:`_engine.Connection.execution_options.schema_translate_map` feature would not take effect when the :meth:`_schema.Sequence.next_value` function function for a :class:`_schema.Sequence` were used in the :paramref:`_schema.Column.server_default` parameter and the create table DDL were emitted. .. changelog:: ``` ### 1.3.18 ``` :released: June 25, 2020 .. change:: :tags: bug, sqlite :tickets: 5395 Added "exists" to the list of reserved words for SQLite so that this word will be quoted when used as a label or column name. Pull request courtesy Thodoris Sotiropoulos. .. change:: :tags: bug, mssql :tickets: 5366, 5364 Refined the logic used by the SQL Server dialect to interpret multi-part schema names that contain many dots, to not actually lose any dots if the name does not have bracking or quoting used, and additionally to support a "dbname" token that has many parts including that it may have multiple, independently-bracketed sections. .. change:: :tags: bug, mssql, pyodbc :tickets: 5346 Fixed an issue in the pyodbc connector such that a warning about pyodbc "drivername" would be emitted when using a totally empty URL. Empty URLs are normal when producing a non-connected dialect object or when using the "creator" argument to create_engine(). The warning now only emits if the driver name is missing but other parameters are still present. .. change:: :tags: bug, mssql :tickets: 5373 Fixed issue with assembling the ODBC connection string for the pyodbc DBAPI. Tokens containing semicolons and/or braces "{}" were not being correctly escaped, causing the ODBC driver to misinterpret the connection string attributes. .. change:: :tags: usecase, orm :tickets: 5326 Improve error message when using :meth:`_query.Query.filter_by` in a query where the first entity is not a mapped class. .. change:: :tags: sql, schema :tickets: 5324 Introduce :class:`.IdentityOptions` to store common parameters for sequences and identity columns. .. change:: :tags: usecase, sql :tickets: 5309 Added a ".schema" parameter to the :func:`_expression.table` construct, allowing ad-hoc table expressions to also include a schema name. Pull request courtesy Dylan Modesitt. .. change:: :tags: bug, mssql :tickets: 5339 Fixed issue where ``datetime.time`` parameters were being converted to ``datetime.datetime``, making them incompatible with comparisons like ``>=`` against an actual :class:`_mssql.TIME` column. .. change:: :tags: bug, mssql :tickets: 5359 Fixed an issue where the ``is_disconnect`` function in the SQL Server pyodbc dialect was incorrectly reporting the disconnect state when the exception messsage had a substring that matched a SQL Server ODBC error code. .. change:: :tags: bug, engine :tickets: 5326 Further refinements to the fixes to the "reset" agent fixed in :ticket:`5326`, which now emits a warning when it is not being correctly invoked and corrects for the behavior. Additional scenarios have been identified and fixed where this warning was being emitted. .. change:: :tags: usecase, sqlite :tickets: 5297 SQLite 3.31 added support for computed column. This change enables their support in SQLAlchemy when targeting SQLite. .. change:: :tags: bug, schema :tickets: 5276 Fixed issue where ``dialect_options`` were omitted when a database object (e.g., :class:`.Table`) was copied using :func:`.tometadata`. .. change:: :tags: bug, sql :tickets: 5344 Correctly apply self_group in type_coerce element. The type coerce element did not correctly apply grouping rules when using in an expression .. change:: :tags: bug, oracle, reflection :tickets: 5421 Fixed bug in Oracle dialect where indexes that contain the full set of primary key columns would be mistaken as the primary key index itself, which is omitted, even if there were multiples. The check has been refined to compare the name of the primary key constraint against the index name itself, rather than trying to guess based on the columns present in the index. .. change:: :tags: change, sql, sybase :tickets: 5294 Added ``.offset`` support to sybase dialect. Pull request courtesy Alan D. Snow. .. change:: :tags: bug, engine :tickets: 5341 Fixed issue in :class:`.URL` object where stringifying the object would not URL encode special characters, preventing the URL from being re-consumable as a real URL. Pull request courtesy Miguel Grinberg. .. change:: :tags: usecase, mysql :tickets: 4860 Implemented row-level locking support for mysql. Pull request courtesy Quentin Somerville. .. change:: :tags: change, mssql :tickets: 5321 Moved the ``supports_sane_rowcount_returning = False`` requirement from the ``PyODBCConnector`` level to the ``MSDialect_pyodbc`` since pyodbc does work properly in some circumstances. .. change:: :tags: change, examples Added new option ``--raw`` to the examples.performance suite which will dump the raw profile test for consumption by any number of profiling visualizer tools. Removed the "runsnake" option as runsnake is very hard to build at this point; .. change:: :tags: bug, sql :tickets: 5353 Added :meth:`.Select.with_hint` output to the generic SQL string that is produced when calling ``str()`` on a statement. Previously, this clause would be omitted under the assumption that it was dialect specific. The hint text is presented within brackets to indicate the rendering of such hints varies among backends. .. change:: :tags: usecase, orm :tickets: 5198 Added a new parameter :paramref:`_orm.query_expression.default_expr` to the :func:`_orm.query_expression` construct, which will be appled to queries automatically if the :func:`_orm.with_expression` option is not used. Pull request courtesy Haoyu Sun. .. changelog:: ``` ### 1.3.17 ``` :released: May 13, 2020 .. change:: :tags: bug, oracle :tickets: 5246 Some modifications to how the cx_oracle dialect sets up per-column outputtype handlers for LOB and numeric datatypes to adjust for potential changes coming in cx_Oracle 8. .. change:: :tags: bug, orm :tickets: 5288 Fixed bug where using :func:`.with_polymorphic` as the target of a join via :meth:`.RelationshipComparator.of_type` on a mapper that already has a subquery-based with_polymorphic setting that's equivalent to the one requested would not correctly alias the ON clause in the join. .. change:: :tags: bug, oracle, performance :tickets: 5314 Changed the implementation of fetching CLOB and BLOB objects to use cx_Oracle's native implementation which fetches CLOB/BLOB objects inline with other result columns, rather than performing a separate fetch. As always, this can be disabled by setting auto_convert_lobs to False. As part of this change, the behavior of a CLOB that was given a blank string on INSERT now returns None on SELECT, which is now consistent with that of VARCHAR on Oracle. .. change:: :tags: usecase, postgresql :tickets: 5265 Added support for columns or type :class:`.ARRAY` of :class:`.Enum`, :class:`.JSON` or :class:`_postgresql.JSONB` in PostgreSQL. Previously a workaround was required in these use cases. .. change:: :tags: schema :tickets: 4138 Add ``comment`` attribute to :class:`_schema.Column` ``__repr__`` method. .. change:: :tags: bug, orm :tickets: 5303 Fixed issue in the area of where loader options such as selectinload() interact with the baked query system, such that the caching of a query is not supposed to occur if the loader options themselves have elements such as with_polymorphic() objects in them that currently are not cache-compatible. The baked loader could sometimes not fully invalidate itself in these some of these scenarios leading to missed eager loads. .. change:: :tags: bug, engine :tickets: 5326 Fixed fairly critical issue where the DBAPI connection could be returned to the connection pool while still in an un-rolled-back state. The reset agent responsible for rolling back the connection could be corrupted in the case that the transaction was "closed" without being rolled back or committed, which can occur in some scenarios when using ORM sessions and emitting .close() in a certain pattern involving savepoints. The fix ensures that the reset agent is always active. .. change:: :tags: bug, orm :tickets: 5304 Modified the internal "identity set" implementation, which is a set that hashes objects on their id() rather than their hash values, to not actually call the ``__hash__()`` method of the objects, which are typically user-mapped objects. Some methods were calling this method as a side effect of the implementation. .. change:: :tags: usecase, postgresql :tickets: 5266 Raise an explicit :class:`.exc.CompileError` when adding a table with a column of type :class:`.ARRAY` of :class:`.Enum` configured with :paramref:`.Enum.native_enum` set to ``False`` when :paramref:`.Enum.create_constraint` is not set to ``False`` .. change:: :tags: bug, schema :tickets: 5298 Fixed issue where an :class:`.Index` that is deferred in being associated with a table, such as as when it contains a :class:`.Column` that is not associated with any :class:`.Table` yet, would fail to attach correctly if it also contained a non table-oriented expression. .. change:: :tags: change, firebird :tickets: 5278 Adjusted dialect loading for ``firebird://`` URIs so the external sqlalchemy-firebird dialect will be used if it has been installed, otherwise fall back to the (now deprecated) internal Firebird dialect. .. change:: :tags: bug, mssql, reflection :tickets: 5255 Fix a regression introduced by the reflection of computed column in MSSQL when using the legacy TDS version 4.2. The dialect will try to detect the protocol version of first connect and run in compatibility mode if it cannot detect it. .. change:: :tags: bug, mssql, reflection :tickets: 5271 Fix a regression introduced by the reflection of computed column in MSSQL when using SQL server versions before 2012, which does not support the ``concat`` function. .. change:: :tags: bug, orm :tickets: 5269 An informative error message is raised when an ORM many-to-one comparison is attempted against an object that is not an actual mapped instance. Comparisons such as those to scalar subqueries aren't supported; generalized comparison with subqueries is better achieved using :meth:`~.RelationshipProperty.Comparator.has`. .. change:: :tags: usecase, orm :tickets: 5262 Added an accessor :attr:`.ColumnProperty.Comparator.expressions` which provides access to the group of columns mapped under a multi-column :class:`.ColumnProperty` attribute. .. change:: :tags: bug, schema :tickets: 5316 A warning is emitted when making use of the :attr:`.MetaData.sorted_tables` attribute as well as the :func:`_schema.sort_tables` function, and the given tables cannot be correctly sorted due to a cyclic dependency between foreign key constraints. In this case, the functions will no longer sort the involved tables by foreign key, and a warning will be emitted. Other tables that are not part of the cycle will still be returned in dependency order. Previously, the sorted_table routines would return a collection that would unconditionally omit all foreign keys when a cycle was detected, and no warning was emitted. .. change:: :tags: orm, usecase :tickets: 5237 Introduce :paramref:`_orm.relationship.sync_backref` flag in a relationship to control if the synchronization events that mutate the in-Python attributes are added. This supersedes the previous change :ticket:`5149`, which warned that ``viewonly=True`` relationship target of a back_populates or backref configuration would be disallowed. .. changelog:: ``` ### 1.3.16 ``` :released: April 7, 2020 .. change:: :tags: oracle, usecase :tickets: 5200 Implemented AUTOCOMMIT isolation level for Oracle when using cx_Oracle. Also added a fixed default isolation level of READ COMMITTED for Oracle. .. change:: :tags: bug, mysql :tickets: 5239 Fixed issue in MySQL dialect when connecting to a pseudo-MySQL database such as that provided by ProxySQL, the up front check for isolation level when it returns no row will not prevent the dialect from continuing to connect. A warning is emitted that the isolation level could not be detected. .. change:: :tags: bug, tests :tickets: 5201 Fixed an issue that prevented the test suite from running with the recently released py.test 5.4.0. .. change:: :tags: bug, oracle, reflection :tickets: 5146 Fixed regression / incorrect fix caused by fix for :ticket:`5146` where the Oracle dialect reads from the "all_tab_comments" view to get table comments but fails to accommodate for the current owner of the table being requested, causing it to read the wrong comment if multiple tables of the same name exist in multiple schemas. .. change:: :tags: types, enum :tickets: 5183 The :class:`.Enum` type now supports the parameter :paramref:`.Enum.length` to specify the length of the VARCHAR column to create when using non native enums by setting :paramref:`.Enum.native_enum` to ``False`` .. change:: :tags: bug, orm :tickets: 5228 Fixed bug in :func:`_orm.selectinload` loading option where two or more loaders that represent different relationships with the same string key name as referenced from a single :func:`_orm.with_polymorphic` construct with multiple subclass mappers would fail to invoke each subqueryload separately, instead making use of a single string-based slot that would prevent the other loaders from being invoked. .. change:: :tags: schema, reflection :tickets: 5063 Added support for reflection of "computed" columns, which are now returned as part of the structure returned by :meth:`_reflection.Inspector.get_columns`. When reflecting full :class:`_schema.Table` objects, computed columns will be represented using the :class:`.Computed` construct. .. change:: :tags: orm, performance :tickets: 5162 Modified the queries used by subqueryload and selectinload to no longer ORDER BY the primary key of the parent entity; this ordering was there to allow the rows as they come in to be copied into lists directly with a minimal level of Python-side collation. However, these ORDER BY clauses can negatively impact the performance of the query as in many scenarios these columns are derived from a subquery or are otherwise not actual primary key columns such that SQL planners cannot make use of indexes. The Python-side collation uses the native itertools.group_by() to collate the incoming rows, and has been modified to allow multiple row-groups-per-parent to be assembled together using list.extend(), which should still allow for relatively fast Python-side performance. There will still be an ORDER BY present for a relationship that includes an explicit order_by parameter, however this is the only ORDER BY that will be added to the query for both kinds of loading. .. change:: :tags: mssql, mysql, oracle, usecase :tickets: 5137 Added support for :meth:`.ColumnOperators.is_distinct_from` and :meth:`.ColumnOperators.isnot_distinct_from` to SQL Server, MySQL, and Oracle. .. change:: :tags: sqlite, usecase :tickets: 5164 Implemented AUTOCOMMIT isolation level for SQLite when using pysqlite. .. change:: :tags: bug, postgresql :tickets: 5205 Fixed issue where a "covering" index, e.g. those which have an INCLUDE clause, would be reflected including all the columns in INCLUDE clause as regular columns. A warning is now emitted if these additional columns are detected indicating that they are currently ignored. Note that full support for "covering" indexes is part of :ticket:`4458`. Pull request courtesy Marat Sharafutdinov. .. change:: :tags: sql, types :tickets: 5052 Add ability to literal compile a :class:`DateTime`, :class:`Date` or :class:`Time` when using the string dialect for debugging purposes. This change does not impact real dialect implementation that retain their current behavior. .. change:: :tags: installer :tickets: 5207 Ensured that the "pyproject.toml" file is not included in builds, as the presence of this file indicates to pip that a pep-517 installation process should be used. As this mode of operation appears to be not well supported by current tools / distros, these problems are avoided within the scope of SQLAlchemy installation by omitting the file. .. change:: :tags: bug, orm :tickets: 5210 Fixed issue where a lazyload that uses session-local "get" against a target many-to-one relationship where an object with the correct primary key is present, however it's an instance of a sibling class, does not correctly return None as is the case when the lazy loader actually emits a load for that row. .. change:: :tags: bug, orm, declarative :tickets: 5238 The string argument accepted as the first positional argument by the :func:`_orm.relationship` function when using the Declarative API is no longer interpreted using the Python ``eval()`` function; instead, the name is dot separated and the names are looked up directly in the name resolution dictionary without treating the value as a Python expression. However, passing a string argument to the other :func:`_orm.relationship` parameters that necessarily must accept Python expressions will still use ``eval()``; the documentation has been clarified to ensure that there is no ambiguity that this is in use. .. seealso:: :ref:`declarative_relationship_eval` - details on string evaluation .. changelog:: ``` ### 1.3.15 ``` :released: March 11, 2020 .. change:: :tags: bug, orm :tickets: 5194 Adjusted the error message emitted by :meth:`_query.Query.join` when a left hand side can't be located that the :meth:`_query.Query.select_from` method is the best way to resolve the issue. Also, within the 1.3 series, used a deterministic ordering when determining the FROM clause from a given column entity passed to :class:`_query.Query` so that the same expression is determined each time. .. change:: :tags: orm, bug :tickets: 5196 Fixed regression in 1.3.14 due to :ticket:`4849` where a sys.exc_info() call failed to be invoked correctly when a flush error would occur. Test coverage has been added for this exception case. .. changelog:: ``` ### 1.3.14 ``` :released: March 10, 2020 .. change:: :tags: bug, sql, postgresql :tickets: 5181 Fixed bug where a CTE of an INSERT/UPDATE/DELETE that also uses RETURNING could then not be SELECTed from directly, as the internal state of the compiler would try to treat the outer SELECT as a DELETE statement itself and access nonexistent state. .. change:: :tags: bug, orm :tickets: 5110 Fixed regression caused in 1.3.13 by :ticket:`5056` where a refactor of the ORM path registry system made it such that a path could no longer be compared to an empty tuple, which can occur in a particular kind of joined eager loading path. The "empty tuple" use case has been resolved so that the path registry is compared to a path registry in all cases; the :class:`.PathRegistry` object itself now implements ``__eq__()`` and ``__ne__()`` methods which will take place for all equality comparisons and continue to succeed in the not anticipated case that a non- :class:`.PathRegistry` object is compared, while emitting a warning that this object should not be the subject of the comparison. .. change:: :tags: bug, orm :tickets: 5149 Setting a relationship to viewonly=True which is also the target of a back_populates or backref configuration will now emit a warning and eventually be disallowed. back_populates refers specifically to mutation of an attribute or collection, which is disallowed when the attribute is subject to viewonly=True. The viewonly attribute is not subject to persistence behaviors which means it will not reflect correct results when it is locally mutated. .. change:: :tags: bug, oracle :tickets: 5146 Fixed a reflection bug where table comments could only be retrieved for tables actually owned by the user but not for tables visible to the user but owned by someone else. Pull request courtesy Dave Hirschfeld. .. change:: :tags: bug, performance :tickets: 5180 Revised an internal change to the test system added as a result of :ticket:`5085` where a testing-related module per dialect would be loaded unconditionally upon making use of that dialect, pulling in SQLAlchemy's testing framework as well as the ORM into the module import space. This would only impact initial startup time and memory to a modest extent, however it's best that these additional modules aren't reverse-dependent on straight Core usage. .. change:: :tags: bug, installation :tickets: 5138 Vendored the ``inspect.formatannotation`` function inside of ``sqlalchemy.util.compat``, which is needed for the vendored version of ``inspect.formatargspec``. The function is not documented in cPython and is not guaranteed to be available in future Python versions. .. change:: :tags: bug, mssql :tickets: 5132 Fixed issue where the :class:`_mssql.DATETIMEOFFSET` type would not accommodate for the ``None`` value, introduced as part of the series of fixes for this type first introduced in :ticket:`4983`, :ticket:`5045`. Additionally, added support for passing a backend-specific date formatted string through this type, as is typically allowed for date/time types on most other DBAPIs. .. change:: :tags: bug, engine :tickets: 5182 Expanded the scope of cursor/connection cleanup when a statement is executed to include when the result object fails to be constructed, or an after_cursor_execute() event raises an error, or autocommit / autoclose fails. This allows the DBAPI cursor to be cleaned up on failure and for connectionless execution allows the connection to be closed out and returned to the connection pool, where previously it waiting until garbage collection would trigger a pool return. .. change:: :tags: bug, postgresql :tickets: 5158 Fixed issue where the "schema_translate_map" feature would not work with a PostgreSQL native enumeration type (i.e. :class:`.Enum`, :class:`_postgresql.ENUM`) in that while the "CREATE TYPE" statement would be emitted with the correct schema, the schema would not be rendered in the CREATE TABLE statement at the point at which the enumeration was referenced. .. change:: :tags: usecase, ext :tickets: 5114 Added keyword arguments to the :meth:`.MutableList.sort` function so that a key function as well as the "reverse" keyword argument can be provided. .. change:: :tags: bug, general, py3k :tickets: 4849 Applied an explicit "cause" to most if not all internally raised exceptions that are raised from within an internal exception catch, to avoid misleading stacktraces that suggest an error within the handling of an exception. While it would be preferable to suppress the internally caught exception in the way that the ``__suppress_context__`` attribute would, there does not as yet seem to be a way to do this without suppressing an enclosing user constructed context, so for now it exposes the internally caught exception as the cause so that full information about the context of the error is maintained. .. change:: :tags: orm, bug :tickets: 5121 Fixed an additional regression in the same area as that of :ticket:`5080` introduced in 1.3.0b3 via :ticket:`4468` where the ability to create a joined option across a :func:`.with_polymorphic` into a relationship against the base class of that with_polymorphic, and then further into regular mapped relationships would fail as the base class component would not add itself to the load path in a way that could be located by the loader strategy. The changes applied in :ticket:`5080` have been further refined to also accommodate this scenario. .. change:: :tags: bug, postgresql, reflection :tickets: 5170 Fixed bug where PostgreSQL reflection of CHECK constraints would fail to parse the constraint if the SQL text contained newline characters. The regular expression has been adjusted to accommodate for this case. Pull request courtesy Eric Borczuk. .. change:: :tags: usecase, orm :tickets: 5129 Added a new flag :paramref:`.InstanceEvents.restore_load_context` and :paramref:`.SessionEvents.restore_load_context` which apply to the :meth:`.InstanceEvents.load`, :meth:`.InstanceEvents.refresh`, and :meth:`.SessionEvents.loaded_as_persistent` events, which when set will restore the "load context" of the object after the event hook has been called. This ensures that the object remains within the "loader context" of the load operation that is already ongoing, rather than the object being transferred to a new load context due to refresh operations which may have occurred in the event. A warning is now emitted when this condition occurs, which recommends use of the flag to resolve this case. The flag is "opt-in" so that there is no risk introduced to existing applications. The change additionally adds support for the ``raw=True`` flag to session lifecycle events. .. change:: :tags: bug, mysql :tickets: 5173 Fixed issue in MySQL :meth:`.mysql.Insert.on_duplicate_key_update` construct where using a SQL function or other composed expression for a column argument would not properly render the ``VALUES`` keyword surrounding the column itself. .. changelog:: ``` ### 1.3.13 ``` :released: January 22, 2020 .. change:: :tags: bug, postgresql :tickets: 5039 Fixed issue where the PostgreSQL dialect would fail to parse a reflected CHECK constraint that was a boolean-valued function (as opposed to a boolean-valued expression). .. change:: :tags: bug, ext :tickets: 5086 Fixed bug in sqlalchemy.ext.serializer where a unique :class:`.BindParameter` object could conflict with itself if it were present in the mapping itself, as well as the filter condition of the query, as one side would be used against the non-deserialized version and the other side would use the deserialized version. Logic is added to :class:`.BindParameter` similar to its "clone" method which will uniquify the parameter name upon deserialize so that it doesn't conflict with its original. .. change:: :tags: usecase, sql :tickets: 5079 A function created using :class:`.GenericFunction` can now specify that the name of the function should be rendered with or without quotes by assigning the :class:`.quoted_name` construct to the .name element of the object. Prior to 1.3.4, quoting was never applied to function names, and some quoting was introduced in :ticket:`4467` but no means to force quoting for a mixed case name was available. Additionally, the :class:`.quoted_name` construct when used as the name will properly register its lowercase name in the function registry so that the name continues to be available via the ``func.`` registry. .. seealso:: :class:`.GenericFunction` .. change:: :tags: bug, engine :tickets: 5048 Fixed issue where the collection of value processors on a :class:`.Compiled` object would be mutated when "expanding IN" parameters were used with a datatype that has bind value processors; in particular, this would mean that when using statement caching and/or baked queries, the same compiled._bind_processors collection would be mutated concurrently. Since these processors are the same function for a given bind parameter namespace every time, there was no actual negative effect of this issue, however, the execution of a :class:`.Compiled` object should never be causing any changes in its state, especially given that they are intended to be thread-safe and reusable once fully constructed. .. change:: :tags: tests, postgresql :tickets: 5057 Improved detection of two phase transactions requirement for the PostgreSQL database by testing that max_prepared_transactions is set to a value greater than 0. Pull request courtesy Federico Caselli. .. change:: :tags: bug, orm, engine :tickets: 5056, 5050, 5071 Added test support and repaired a wide variety of unnecessary reference cycles created for short-lived objects, mostly in the area of ORM queries. Thanks much to Carson Ip for the help on this. .. change:: :tags: orm, bug :tickets: 5107 Fixed regression in loader options introduced in 1.3.0b3 via :ticket:`4468` where the ability to create a loader option using :meth:`.PropComparator.of_type` targeting an aliased entity that is an inheriting subclass of the entity which the preceding relationship refers to would fail to produce a matching path. See also :ticket:`5082` fixed in this same release which involves a similar kind of issue. .. change:: :tags: bug, tests :tickets: 4946 Fixed a few test failures which would occur on Windows due to SQLite file locking issues, as well as some timing issues in connection pool related tests; pull request courtesy Federico Caselli. .. change:: :tags: orm, bug :tickets: 5082 Fixed regression in joined eager loading introduced in 1.3.0b3 via :ticket:`4468` where the ability to create a joined option across a :func:`.with_polymorphic` into a polymorphic subclass using :meth:`.RelationshipProperty.of_type` and then further along regular mapped relationships would fail as the polymorphic subclass would not add itself to the load path in a way that could be located by the loader strategy. A tweak has been made to resolve this scenario. .. change:: :tags: performance, orm Identified a performance issue in the system by which a join is constructed based on a mapped relationship. The clause adaption system would be used for the majority of join expressions including in the common case where no adaptation is needed. The conditions under which this adaptation occur have been refined so that average non-aliased joins along a simple relationship without a "secondary" table use about 70% less function calls. .. change:: :tags: usecase, postgresql :tickets: 5040 Added support for prefixes to the :class:`_expression.CTE` construct, to allow support for Postgresql 12 "MATERIALIZED" and "NOT MATERIALIZED" phrases. Pull request courtesy Marat Sharafutdinov. .. seealso:: :meth:`_expression.HasCTE.cte` .. change:: :tags: bug, mssql :tickets: 5045 Fixed issue where a timezone-aware ``datetime`` value being converted to string for use as a parameter value of a :class:`_mssql.DATETIMEOFFSET` column was omitting the fractional seconds. .. change:: :tags: bug, orm :tickets: 5068 Repaired a warning in the ORM flush process that was not covered by test coverage when deleting objects that use the "version_id" feature. This warning is generally unreachable unless using a dialect that sets the "supports_sane_rowcount" flag to False, which is not typically the case however is possible for some MySQL configurations as well as older Firebird drivers, and likely some third party dialects. .. change:: :tags: bug, orm :tickets: 5065 Fixed bug where usage of joined eager loading would not properly wrap the query inside of a subquery when :meth:`_query.Query.group_by` were used against the query. When any kind of result-limiting approach is used, such as DISTINCT, LIMIT, OFFSET, joined eager loading embeds the row-limited query inside of a subquery so that the collection results are not impacted. For some reason, the presence of GROUP BY was never included in this criterion, even though it has a similar effect as using DISTINCT. Additionally, the bug would prevent using GROUP BY at all for a joined eager load query for most database platforms which forbid non-aggregated, non-grouped columns from being in the query, as the additional columns for the joined eager load would not be accepted by the database. .. changelog:: ``` ### 1.3.12 ``` :released: December 16, 2019 .. change:: :tags: bug, sql :tickets: 5028 Fixed bug where "distinct" keyword passed to :func:`_expression.select` would not treat a string value as a "label reference" in the same way that the :meth:`_expression.select.distinct` does; it would instead raise unconditionally. This keyword argument and the others passed to :func:`_expression.select` will ultimately be deprecated for SQLAlchemy 2.0. .. change:: :tags: bug, orm :tickets: 4997 Fixed issue involving ``lazy="raise"`` strategy where an ORM delete of an object would raise for a simple "use-get" style many-to-one relationship that had lazy="raise" configured. This is inconsistent vs. the change introduced in 1.3 as part of :ticket:`4353`, where it was established that a history operation that does not expect emit SQL should bypass the ``lazy="raise"`` check, and instead effectively treat it as ``lazy="raise_on_sql"`` for this case. The fix adjusts the lazy loader strategy to not raise for the case where the lazy load was instructed that it should not emit SQL if the object were not present. .. change:: :tags: bug, sql Changed the text of the exception for "Can't resolve label reference" to include other kinds of label coercions, namely that "DISTINCT" is also in this category under the PostgreSQL dialect. .. change:: :tags: bug, orm :tickets: 5000 Fixed regression introduced in 1.3.0 related to the association proxy refactor in :ticket:`4351` that prevented :func:`.composite` attributes from working in terms of an association proxy that references them. .. change:: :tags: bug, mssql :tickets: 4983 Repaired support for the :class:`_mssql.DATETIMEOFFSET` datatype on PyODBC, by adding PyODBC-level result handlers as it does not include native support for this datatype. This includes usage of the Python 3 "timezone" tzinfo subclass in order to set up a timezone, which on Python 2 makes use of a minimal backport of "timezone" in sqlalchemy.util. .. change:: :tags: bug, orm :tickets: 4993 Setting persistence-related flags on :func:`_orm.relationship` while also setting viewonly=True will now emit a regular warning, as these flags do not make sense for a viewonly=True relationship. In particular, the "cascade" settings have their own warning that is generated based on the individual values, such as "delete, delete-orphan", that should not apply to a viewonly relationship. Note however that in the case of "cascade", these settings are still erroneously taking effect even though the relationship is set up as "viewonly". In 1.4, all persistence-related cascade settings will be disallowed on a viewonly=True relationship in order to resolve this issue. .. change:: :tags: bug, sqlite :tickets: 5014 Fixed issue to workaround SQLite's behavior of assigning "numeric" affinity to JSON datatypes, first described at :ref:`change_3850`, which returns scalar numeric JSON values as a number and not as a string that can be JSON deserialized. The SQLite-specific JSON deserializer now gracefully degrades for this case as an exception and bypasses deserialization for single numeric values, as from a JSON perspective they are already deserialized. .. change:: :tags: bug, orm, py3k :tickets: 4990 Fixed issue where when assigning a collection to itself as a slice, the mutation operation would fail as it would first erase the assigned collection inadvertently. As an assignment that does not change the contents should not generate events, the operation is now a no-op. Note that the fix only applies to Python 3; in Python 2, the ``__setitem__`` hook isn't called in this case; ``__setslice__`` is used instead which recreates the list item-by-item in all cases. .. change:: :tags: bug, orm :tickets: 5034 Fixed issue where by if the "begin" of a transaction failed at the Core engine/connection level, such as due to network error or database is locked for some transactional recipes, within the context of the :class:`.Session` procuring that connection from the connection pool and then immediately returning it, the ORM :class:`.Session` would not close the connection despite this connection not being stored within the state of that :class:`.Session`. This would lead to the connection being cleaned out by the connection pool weakref handler within garbage collection which is an unpreferred codepath that in some special configurations can emit errors in standard error. .. changelog:: ``` ### 1.3.11 ``` :released: November 11, 2019 .. change:: :tags: bug, mssql :tickets: 4973 Fixed issue in MSSQL dialect where an expression-based OFFSET value in a SELECT would be rejected, even though the dialect can render this expression inside of a ROW NUMBER-oriented LIMIT/OFFSET construct. .. change:: :tags: orm, usecase :tickets: 4934 Added accessor :meth:`_query.Query.is_single_entity` to :class:`_query.Query`, which will indicate if the results returned by this :class:`_query.Query` will be a list of ORM entities, or a tuple of entities or column expressions. SQLAlchemy hopes to improve upon the behavior of single entity / tuples in future releases such that the behavior would be explicit up front, however this attribute should be helpful with the current behavior. Pull request courtesy Patrick Hayes. .. change:: :tags: bug, mysql :tickets: 4945 Added "Connection was killed" message interpreted from the base pymysql.Error class in order to detect closed connection, based on reports that this message is arriving via a pymysql.InternalError() object which indicates pymysql is not handling it correctly. .. change:: :tags: bug, orm :tickets: 4954 The :paramref:`_orm.relationship.omit_join` flag was not intended to be manually set to True, and will now emit a warning when this occurs. The omit_join optimization is detected automatically, and the ``omit_join`` flag was only intended to disable the optimization in the hypothetical case that the optimization may have interfered with correct results, which has not been observed with the modern version of this feature. Setting the flag to True when it is not automatically detected may cause the selectin load feature to not work correctly when a non-default primary join condition is in use. .. change:: :tags: bug, orm :tickets: 4915 A warning is emitted if a primary key value is passed to :meth:`_query.Query.get` that consists of None for all primary key column positions. Previously, passing a single None outside of a tuple would raise a ``TypeError`` and passing a composite None (tuple of None values) would silently pass through. The fix now coerces the single None into a tuple where it is handled consistently with the other None conditions. Thanks to Lev Izraelit for the help with this. .. change:: :tags: bug, orm :tickets: 4947 The :class:`.BakedQuery` will not cache a query that was modified by a :meth:`.QueryEvents.before_compile` event, so that compilation hooks that may be applying ad-hoc modifications to queries will take effect on each run. In particular this is helpful for events that modify queries used in lazy loading as well as eager loading such as "select in" loading. In order to re-enable caching for a query modified by this event, a new flag ``bake_ok`` is added; see :ref:`baked_with_before_compile` for details. A longer term plan to provide a new form of SQL caching should solve this kind of issue more comprehensively. .. change:: :tags: bug, tests :tickets: 4920 Fixed test failures which would occur with newer SQLite as of version 3.30 or greater, due to their addition of nulls ordering syntax as well as new restrictions on aggregate functions. Pull request courtesy Nils Philippsen. .. change:: :tags: bug, installation, windows :tickets: 4967 Added a workaround for a setuptools-related failure that has been observed as occurring on Windows installations, where setuptools is not correctly reporting a build error when the MSVC build dependencies are not installed and therefore not allowing graceful degradation into non C extensions builds. .. change:: :tags: bug, sql, py3k :tickets: 4931 Changed the ``repr()`` of the :class:`.quoted_name` construct to use regular string repr() under Python 3, rather than running it through "backslashreplace" escaping, which can be misleading. .. change:: :tags: bug, oracle, firebird :tickets: 4931 Modified the approach of "name normalization" for the Oracle and Firebird dialects, which converts from the UPPERCASE-as-case-insensitive convention of these dialects into lowercase-as-case-insensitive for SQLAlchemy, to not automatically apply the :class:`.quoted_name` construct to a name that matches itself under upper or lower case conversion, as is the case for many non-european characters. All names used within metadata structures are converted to :class:`.quoted_name` objects in any case; the change here would only affect the output of some inspection functions. .. change:: :tags: bug, schema :tickets: 4911 Fixed bug where a table that would have a column label overlap with a plain column name, such as "foo.id AS foo_id" vs. "foo.foo_id", would prematurely generate the ``._label`` attribute for a column before this overlap could be detected due to the use of the ``index=True`` or ``unique=True`` flag on the column in conjunction with the default naming convention of ``"column_0_label"``. This would then lead to failures when ``._label`` were used later to generate a bound parameter name, in particular those used by the ORM when generating the WHERE clause for an UPDATE statement. The issue has been fixed by using an alternate ``._label`` accessor for DDL generation that does not affect the state of the :class:`_schema.Column`. The accessor also bypasses the key-deduplication step as it is not necessary for DDL, the naming is now consistently ``"<tablename>_<columnname>"`` without any subsequent numeric symbols when used in DDL. .. change:: :tags: bug, engine :tickets: 4902 Fixed bug where parameter repr as used in logging and error reporting needs additional context in order to distinguish between a list of parameters for a single statement and a list of parameter lists, as the "list of lists" structure could also indicate a single parameter list where the first parameter itself is a list, such as for an array parameter. The
pyup-bot commented 3 years ago

Closing this in favor of #975