Please take the following steps to get the benchmark dataset.
Please login to BioASQ, then do the following:
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In
Datasets for task a, downloadallMeSH_2022.zipthrouth the entry ofTraining v.2022 (txt)in the table. Unzip it toraw_data/bioasq/allMeSH_2022.json. Note that this JSON file is of 27G large, please make sure you have enough disk space. -
In
Datasets for task b, download files throuth the links columnTest datain the table from 2014 to 2023. Unzip the files and put the JSON files into the folderraw_data/bioasq:{2~9}B{1~5}_golden.json10B{1~6}_golden.json11B{1~4}_golden.json
Download the LoTTE corpus here: https://downloads.cs.stanford.edu/nlp/data/colbert/colbertv2/lotte.tar.gz and unzip to folder raw_data.
Get access to NovelQA dataset: https://huggingface.co/datasets/NovelQA/NovelQA . Then login your huggingface account:
pip install huggingface_hub
huggingface-cli loginRun the following script, the benchmark dataset will be processed to the folder processed_data:
sh data_process.sh