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genai package #545

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genai package #545

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julianprester
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Pull request type

Please check the type of change your PR introduces:

  • Bugfix
  • Feature
  • Code style update (formatting, renaming)
  • Refactoring (no functional changes, no api changes)
  • Build related changes
  • Documentation content changes
  • Other (please describe):

What is the current behavior?

No support of generative AI

Issue Number: N/A

What is the new behavior?

  • Support for generative AI for prescreen

Does this introduce a breaking change?

  • Yes
  • No

Other information

geritwagner and others added 20 commits September 19, 2024 18:33
Signed-off-by: Gerit Wagner <[email protected]>
* Update documentation

* [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

---------

Co-authored-by: github-actions <[email protected]>
Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
* Convert all paths for docker to posix

* PRISMA: as_posix()

* [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

* OCRMyPDF: as_posix()

* fix prisma: path unlink()

---------

Co-authored-by: Julian Prester <[email protected]>
Co-authored-by: Gerit Wagner <[email protected]>
Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
Co-authored-by: Gerit Wagner <[email protected]>
* colrev project installation / make internal packages optional

* drop optional extras from colrev

* update

* update gh-workflow

Signed-off-by: Gerit Wagner <[email protected]>

* format and docs

* update upgrade

* extract colrev-internal-package discovery

* [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

* install packages after --add and init

* add note on colrev install . to docs

---------

Signed-off-by: Gerit Wagner <[email protected]>
Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
Co-authored-by: Poetry updater <[email protected]>
* move dependencies to arxiv and dedupe

* pin numpy<2.0

* add bib-dedupe

* switch to pydantic

* switch to pydantic

* update

* sources. use relative filenames

* update docs

* fix mypy
print(f"\nGenAI (model: {self.settings.model}) screening decisions:")
self._print_table(screening_decisions)
print("\n")
self.review_manager.paths.prescreen.mkdir(parents=True, exist_ok=True)
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@geritwagner can you check this? I moved the screening decision table from a CLI print into a csv output instead. Is this the right way to create the file here?

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2 participants