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Closes #637 #735

Merged
merged 14 commits into from
Oct 24, 2024
Merged

Closes #637 #735

merged 14 commits into from
Oct 24, 2024

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davidkartchner
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Add the plant-phenotype dataset. Closes #637

New location for dataset (that corrects errors of nested/missing entities): https://github.com/davidkartchner/PPRcorpus

Checkbox

  • Confirm that this PR is linked to the dataset issue.
  • Create the dataloader script biodatasets/my_dataset/my_dataset.py (please use only lowercase and underscore for dataset naming).
  • Provide values for the _CITATION, _DATASETNAME, _DESCRIPTION, _HOMEPAGE, _LICENSE, _URLs, _SUPPORTED_TASKS, _SOURCE_VERSION, and _BIGBIO_VERSION variables.
  • Implement _info(), _split_generators() and _generate_examples() in dataloader script.
  • Make sure that the BUILDER_CONFIGS class attribute is a list with at least one BigBioConfig for the source schema and one for a bigbio schema.
  • Confirm dataloader script works with datasets.load_dataset function.
  • Confirm that your dataloader script passes the test suite run with python -m tests.test_bigbio biodatasets/my_dataset/my_dataset.py.
  • If my dataset is local, I have provided an output of the unit-tests in the PR (please copy paste). This is OPTIONAL for public datasets, as we can test these without access to the data files.

davidkartchner and others added 11 commits May 26, 2022 23:54
* edit

* unchange

* stats

* added init for ptm

* added proc meta script

* add single

* add vis code

* added vis changes

* remove proc file

* add vis code

* add paper script

* edit scripts

* edit scripts

* add readme

* remove wip code

* add ngram back in

* black and isort vis code

* move

* added pdfs

* added pdfs that are not local and not broken

* added agg pdf
@davidkartchner
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@galtay @hakunanatasha Are the main blockers to merging this updating this to be consistent with the other hf-hub dataloaders? And is CONTRIBUTING.md updated so with instructions of what needs to be done to put it in the correct format? If so, I can update and resubmit.

@mariosaenger mariosaenger self-assigned this Oct 23, 2024
@mariosaenger mariosaenger requested a review from phlobo October 23, 2024 16:08
@mariosaenger
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@phlobo I refactored the implementation to the new hub style integration and fixed some minor issues. Please have a look at it.

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@phlobo phlobo left a comment

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Super interesting dataset, lgtm!

@phlobo phlobo merged commit 28d0c95 into bigscience-workshop:main Oct 24, 2024
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Create dataset loader for PPR corpus
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