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SQLAlchemy 2.0 upgrades (part 5)#16932

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jdavcs merged 16 commits intogalaxyproject:devgalaxyproject/galaxy:devfrom jdavcs:dev_sa20_fix21jdavcs/galaxy:dev_sa20_fix21Copy head branch name to clipboardNov 29, 2023

+95-55

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Commits on Nov 27, 2023

• SA2.0: Do not bind MetaData: must use engine explicitly

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• Use exists for improved readability

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• Use add_columns instead of add_entity

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• Refactor, upgrade get_nested_collection_attributes

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• Fix dataset_action_tuples

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• Fix dataset_states_and_extensions_summary

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• Fix has_deferred_data

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• Drop unused property

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• Fix element_identifiers_extensions_paths_and_metadata_files

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• Fix dataset_instances

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• Fix dataset_elements

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• Fix replace_failed_elements

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• Rename local vars

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• Add columns from ORDER BY clause to SELECT clause

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• Add unit test; adjust tests to account for order-by columns

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Commits on Nov 28, 2023

• Use distinct only for dataset states/extensions summary

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