Closes #919 (Flambe)

[raissinging]

closes #919

• Name: flambe
• Description: a dataset aimed at procedural knowledge extraction from biomedical texts, particularly focusing on single cell research methodologies described in academic papers.
• Paper: https://proceedings.neurips.cc/paper_files/paper/2023/file/23e3d86c9a19d0caf2ec997e73dfcfbd-Paper-Datasets_and_Benchmarks.pdf
• Data: https://github.com/ylaboratory/flambe

Checkbox

• [x] Confirm that this PR is linked to the dataset issue.
• [x] Create the dataloader script hub/hub_repos/my_dataset/my_dataset.py (please use only lowercase and underscore for dataset naming).
• [x] Provide values for the _CITATION, _DATASETNAME, _DESCRIPTION, _HOMEPAGE, _LICENSE, _URLs, _SUPPORTED_TASKS, _SOURCE_VERSION, and _BIGBIO_VERSION variables.
• [x] Implement _info(), _split_generators() and _generate_examples() in dataloader script.
• [x] 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.
• [x] Confirm dataloader script works with datasets.load_dataset function.
• [x] Confirm that your dataloader script passes the test suite run with python -m tests.test_bigbio_hub <dataset_name> [--data_dir /path/to/local/data] --test_local.
• [x] 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.

[raissinging]

Hi, thanks for contributing this to BigBio!

It seems like the number of documents reported by the unit tests do not match those reported in the source paper. Is this expected?

train
==========
id: 38
document_id: 38
text: 38
labels: 289394

test
==========
id: 11
document_id: 11
text: 11
labels: 79946

validation
==========
id: 6
document_id: 6
text: 6
labels: 50609

Hi! Thank you for letting me know. I originally only had the 55 full text papers using a bigbio schema, but I just added the 1,195 paper abstracts we have as well! Sorry about that!