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#81 Venomx integration#96

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Merged

caufieldjh merged 25 commits intomonarch-initiative:mainmonarch-initiative/curategpt:mainfrom iQuxLE:venomxiQuxLE/curate-gpt:venomxCopy head branch name to clipboardNov 4, 2024

+782-259

Commits

Commits on Oct 11, 2024

• venomx migration in db_adapter.py + chromadb_adapter.py

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• update index_ontology_command

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• update CollectionMetdata -> Metadata for venomx

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• start updating chroma tests

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• tests for debugging

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• linting

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Commits on Oct 14, 2024

• making old CollectionMetadata available

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• linting

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• adjust cli to select correct field from venomx

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Commits on Oct 21, 2024

• finish chromadb_adapter.py venomx update + tests

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• fix object type - test_store_cli.py acts not expected

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Commits on Oct 22, 2024

• duckdb_adapter update

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• change to composition to have cleaner model output and not get Index double

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Commits on Oct 23, 2024

• bugfixes and test completion: finished adapters

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• update in memory adapter

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• update metadata.py to only use venomx

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• bugfix search in chroma to take default model if no model given

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• bugfix

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• bugfix

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• bugfix

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Commits on Oct 24, 2024

• potentially handle WAL related errors

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• lint

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• Read _venomx only if it exists

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Commits on Oct 25, 2024

• bugfix

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• Merge remote-tracking branch 'origin/venomx' into venomx

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