SQLA queries fail due to `AbstractConcreteBase and has a mapping pending until all subclasses are defined`
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- Python
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Description
When I try a query using the SQLAlchemy model they all fail with error AbstractConcreteBase and has a mapping pending until all subclasses are defined.
For example
>>> from sdssdb.sqlalchemy.sdss5db import database, catalogdb
>>> database.set_profile('tunnel_pipelines')
True
>>> session = database.Session()
>>> session.query(catalogdb.Gaia_DR3).first()
[ERROR]: Traceback (most recent call last):
File "/Users/gallegoj/.pyenv/versions/3.10.14/envs/valis/lib/python3.10/site-packages/IPython/core/interactiveshell.py", line 3577, in run_code
exec(code_obj, self.user_global_ns, self.user_ns)
File "<ipython-input-5-3e43bb8cd684>", line 1, in <module>
x = session.query(catalogdb.Gaia_DR3).first()
File "/Users/gallegoj/.pyenv/versions/3.10.14/envs/valis/lib/python3.10/site-packages/sqlalchemy/orm/session.py", line 2166, in query
return self._query_cls(entities, self, **kwargs)
File "/Users/gallegoj/.pyenv/versions/3.10.14/envs/valis/lib/python3.10/site-packages/sqlalchemy/orm/query.py", line 180, in __init__
self._set_entities(entities)
File "/Users/gallegoj/.pyenv/versions/3.10.14/envs/valis/lib/python3.10/site-packages/sqlalchemy/orm/query.py", line 187, in _set_entities
self._raw_columns = [
File "/Users/gallegoj/.pyenv/versions/3.10.14/envs/valis/lib/python3.10/site-packages/sqlalchemy/orm/query.py", line 188, in <listcomp>
coercions.expect(
File "/Users/gallegoj/.pyenv/versions/3.10.14/envs/valis/lib/python3.10/site-packages/sqlalchemy/sql/coercions.py", line 183, in expect
insp = inspection.inspect(element, raiseerr=False)
File "/Users/gallegoj/.pyenv/versions/3.10.14/envs/valis/lib/python3.10/site-packages/sqlalchemy/inspection.py", line 64, in inspect
ret = reg(subject)
File "/Users/gallegoj/.pyenv/versions/3.10.14/envs/valis/lib/python3.10/site-packages/sqlalchemy/orm/decl_api.py", line 1056, in _inspect_decl_meta
_DeferredMapperConfig.raise_unmapped_for_cls(cls)
File "/Users/gallegoj/.pyenv/versions/3.10.14/envs/valis/lib/python3.10/site-packages/sqlalchemy/orm/decl_base.py", line 1091, in raise_unmapped_for_cls
class_._sa_raise_deferred_config()
File "/Users/gallegoj/.pyenv/versions/3.10.14/envs/valis/lib/python3.10/site-packages/sqlalchemy/ext/declarative/extensions.py", line 307, in _sa_raise_deferred_config
raise orm_exc.UnmappedClassError(
sqlalchemy.orm.exc.UnmappedClassError: Class sdssdb.sqlalchemy.sdss5db.catalogdb.Gaia_DR3 is a subclass of AbstractConcreteBase and has a mapping pending until all subclasses are defined. Call the sqlalchemy.orm.configure_mappers() function after all subclasses have been defined to complete the mapping of this class.
Running configure_mappers() doesn't seem to help.
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Research direction
Reproduce the failure with the shown imports, tunnel_pipelines profile, session, and Gaia_DR3 query. Start by examining sdssdb.sqlalchemy.sdss5db.catalogdb.Gaia_DR3 and the surrounding model definitions, then investigate when mapper configuration occurs; verify the fix by confirming the query succeeds without the UnmappedClassError.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python, sqlalchemy
- Domain
- databases
- Issue type
- Bug
- Difficulty
- 3/5
- Estimated time
- 1-2 days
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 35/100