curategpt - v0.2.4

What's Changed

• fix batch error described in #126 by @iQuxLE in https://github.com/monarch-initiative/curategpt/pull/127
• Make error about missing collection a warning by @caufieldjh in https://github.com/monarch-initiative/curategpt/pull/132
• add "aliases" to OntologyClass for indexing by @iQuxLE in https://github.com/monarch-initiative/curategpt/pull/133
• Update poetry config to use newest dev group name by @caufieldjh in https://github.com/monarch-initiative/curategpt/pull/134
• Add new target to allow customized apps by @justaddcoffee in https://github.com/monarch-initiative/curategpt/pull/135
• Add support for paperqa (and update app_alz.py to use it) by @justaddcoffee in https://github.com/monarch-initiative/curategpt/pull/136
• Fix issue with duplicate references in Alzheimers app by @justaddcoffee in https://github.com/monarch-initiative/curategpt/pull/142
• Fix for handling empty idlist by @caufieldjh in https://github.com/monarch-initiative/curategpt/pull/144
• Prep for 0.2.4 release by @caufieldjh in https://github.com/monarch-initiative/curategpt/pull/147

Full Changelog: https://github.com/monarch-initiative/curategpt/compare/v0.2.3...v0.2.4

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Published by caufieldjh 8 months ago

curategpt - v0.2.3

What's Changed

• huggingface download/upload by @iQuxLE in https://github.com/monarch-initiative/curategpt/pull/115
• hf upload/download - duckdb impl by @iQuxLE in https://github.com/monarch-initiative/curategpt/pull/117
• Make gpt4all optional by @caufieldjh in https://github.com/monarch-initiative/curategpt/pull/120
• Make llm-gpt4all optional too by @caufieldjh in https://github.com/monarch-initiative/curategpt/pull/121
• Create packages.txt to keep sqlite3 updated by @caufieldjh in https://github.com/monarch-initiative/curategpt/pull/122
• [Fix] Key Error accessing ID from df after hf_download by @iQuxLE in https://github.com/monarch-initiative/curategpt/pull/123
• Prep for v0.2.3 release by @caufieldjh in https://github.com/monarch-initiative/curategpt/pull/125

Full Changelog: https://github.com/monarch-initiative/curategpt/compare/v0.2.2...v0.2.3

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Published by caufieldjh about 1 year ago

curategpt - v0.2.2

What's Changed

• Add Bootstrap function to app; fix some parsing bugs by @caufieldjh in https://github.com/monarch-initiative/curategpt/pull/94
• Update build workflow for Pypi; fixes for pubmed tests by @caufieldjh in https://github.com/monarch-initiative/curategpt/pull/97
• Fix #99 by @caufieldjh in https://github.com/monarch-initiative/curategpt/pull/101
• #81 Venomx integration by @iQuxLE in https://github.com/monarch-initiative/curategpt/pull/96
• Catch errors from missing metadata by @caufieldjh in https://github.com/monarch-initiative/curategpt/pull/105
• Add workaround for updating default model metadata by @caufieldjh in https://github.com/monarch-initiative/curategpt/pull/107
• Add ESS-DIVE to interface by @caufieldjh in https://github.com/monarch-initiative/curategpt/pull/103
• Remove protobuf pin by @caufieldjh in https://github.com/monarch-initiative/curategpt/pull/109

Full Changelog: https://github.com/monarch-initiative/curategpt/compare/v0.2.1...v0.2.2

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Published by caufieldjh over 1 year ago

curategpt - v0.2.1

What's Changed

• Change name from curate-gpt to curategpt by @caufieldjh in https://github.com/monarch-initiative/curategpt/pull/92
• Rename main module from curate_gpt to curategpt by @caufieldjh in https://github.com/monarch-initiative/curategpt/pull/93

Full Changelog: https://github.com/monarch-initiative/curategpt/compare/v0.2.0...v0.2.1

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Published by caufieldjh over 1 year ago

curategpt - v0.2.0

What's Changed

• Added docs dependencies and cruft update by @hrshdhgd in https://github.com/monarch-initiative/curate-gpt/pull/29
• Adding --jsonpath option to index command. by @cmungall in https://github.com/monarch-initiative/curate-gpt/pull/31
• Adding venomx dependency by @cmungall in https://github.com/monarch-initiative/curate-gpt/pull/22
• Allow gpt-4o by @cmungall in https://github.com/monarch-initiative/curate-gpt/pull/38
• BYOE bring your own embeddings by @justaddcoffee in https://github.com/monarch-initiative/curate-gpt/pull/35
• Auto-KB: Adding more automation functions by @cmungall in https://github.com/monarch-initiative/curate-gpt/pull/41
• duckdb_adapter implementation by @iQuxLE in https://github.com/monarch-initiative/curate-gpt/pull/44
• uniprot loader by @cmungall in https://github.com/monarch-initiative/curate-gpt/pull/43
• dragon-ai workflows by @cmungall in https://github.com/monarch-initiative/curate-gpt/pull/47
• fixes #48 by @cmungall in https://github.com/monarch-initiative/curate-gpt/pull/49
• Fix #50 by @caufieldjh in https://github.com/monarch-initiative/curate-gpt/pull/51
• fixes #45, full downstream compatability duckdb and chromadb by @iQuxLE in https://github.com/monarch-initiative/curate-gpt/pull/53
• Fix issue with parsing errors in Mapping agent by @caufieldjh in https://github.com/monarch-initiative/curate-gpt/pull/54
• Duckdbadapter implementation by @iQuxLE in https://github.com/monarch-initiative/curate-gpt/pull/55
• Getting correct vector dimensions for search by @cmungall in https://github.com/monarch-initiative/curate-gpt/pull/56
• Fixes for retrieving GitHub issues by @caufieldjh in https://github.com/monarch-initiative/curate-gpt/pull/61
• Add config to each pydantic BaseModel; fix #59 by @caufieldjh in https://github.com/monarch-initiative/curate-gpt/pull/60
• DuckDBAdapter: Batch OpenAI calls by @iQuxLE in https://github.com/monarch-initiative/curate-gpt/pull/62
• test suite fixes by @cmungall in https://github.com/monarch-initiative/curate-gpt/pull/63
• improved --path handling in CLI #64 fix ef and dim selection #65 by @iQuxLE in https://github.com/monarch-initiative/curate-gpt/pull/66
• linting and consolidate poetry by @iQuxLE in https://github.com/monarch-initiative/curate-gpt/pull/72
• Prevent dimension errors in search via duckdb by @iQuxLE in https://github.com/monarch-initiative/curate-gpt/pull/75
• improve batching and minimise API requests when embedding docs in duckdb_adapter by @iQuxLE in https://github.com/monarch-initiative/curate-gpt/pull/70
• Openai api key decorator - fix whole test suite by @iQuxLE in https://github.com/monarch-initiative/curate-gpt/pull/76
• Optimize linting setup - utilize solely Ruff by @iQuxLE in https://github.com/monarch-initiative/curate-gpt/pull/78
• Add support for pushing embeddings/metadata to huggingface by @justaddcoffee in https://github.com/monarch-initiative/curate-gpt/pull/79
• Workaround for segfaults with duckdb 1.1.0 by @caufieldjh in https://github.com/monarch-initiative/curate-gpt/pull/83
• Improve handling of Markdown parsing errors by @caufieldjh in https://github.com/monarch-initiative/curate-gpt/pull/82
• new PullRequest class in src/curate_gpt/wrappers/general/github_wrapper.py by @turbomam in https://github.com/monarch-initiative/curate-gpt/pull/86
• Fixing tests with provided OPENAIAPIKEY by @iQuxLE in https://github.com/monarch-initiative/curate-gpt/pull/85
• Updates for v0.2.0 by @caufieldjh in https://github.com/monarch-initiative/curate-gpt/pull/88

New Contributors

• @iQuxLE made their first contribution in https://github.com/monarch-initiative/curate-gpt/pull/44
• @caufieldjh made their first contribution in https://github.com/monarch-initiative/curate-gpt/pull/51
• @turbomam made their first contribution in https://github.com/monarch-initiative/curate-gpt/pull/86

Full Changelog: https://github.com/monarch-initiative/curate-gpt/compare/v0.1.4...v0.2.0

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Published by caufieldjh over 1 year ago

curategpt - v0.1.4

What's Changed

• removing replicate by @realmarcin in https://github.com/monarch-initiative/curate-gpt/pull/7
• Format code using tox by @hrshdhgd in https://github.com/monarch-initiative/curate-gpt/pull/12
• Activate Bugbear rules by @hrshdhgd in https://github.com/monarch-initiative/curate-gpt/pull/14
• Change GH actions python version by @justaddcoffee in https://github.com/monarch-initiative/curate-gpt/pull/17
• Added documentation on using other models via litellm. by @cmungall in https://github.com/monarch-initiative/curate-gpt/pull/16

New Contributors

• @realmarcin made their first contribution in https://github.com/monarch-initiative/curate-gpt/pull/7
• @hrshdhgd made their first contribution in https://github.com/monarch-initiative/curate-gpt/pull/12
• @justaddcoffee made their first contribution in https://github.com/monarch-initiative/curate-gpt/pull/17

Full Changelog: https://github.com/monarch-initiative/curate-gpt/compare/v0.1.3...v0.1.4

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Published by cmungall about 2 years ago

curategpt - v0.1.3

Full Changelog: https://github.com/monarch-initiative/curate-gpt/compare/v0.1.2...v0.1.3

- Jupyter Notebook
Published by cmungall over 2 years ago

curategpt - v0.1.2

What's Changed

• Adding a reusabledata.org wrapper by @cmungall in https://github.com/monarch-initiative/curate-gpt/pull/3
• Adding a wrapper for mediadive and bacdive by @cmungall in https://github.com/monarch-initiative/curate-gpt/pull/5
• Update docs by @oneilsh in https://github.com/monarch-initiative/curate-gpt/pull/6

New Contributors

• @oneilsh made their first contribution in https://github.com/monarch-initiative/curate-gpt/pull/6

Full Changelog: https://github.com/monarch-initiative/curate-gpt/compare/v0.1.1...v0.1.2

- Jupyter Notebook
Published by cmungall over 2 years ago

curategpt - v0.1.1

Full Changelog: https://github.com/monarch-initiative/curate-gpt/compare/v0.1.0...v0.1.1

- Jupyter Notebook
Published by cmungall over 2 years ago

curategpt - v0.1.0

What's Changed

• initial commit by @cmungall in https://github.com/monarch-initiative/curate-gpt/pull/1

New Contributors

• @cmungall made their first contribution in https://github.com/monarch-initiative/curate-gpt/pull/1

Full Changelog: https://github.com/monarch-initiative/curate-gpt/commits/v0.1.0

- Jupyter Notebook
Published by cmungall over 2 years ago