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generate_positive_pairs.sh
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generate_positive_pairs.sh
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#!/bin/bash
# MeSH
python generate_pretrain_data.py --input_dict_path /efs/davidkartchner/el-robustness-comparison/data/mesh_to_alias.txt --output_filepath training_data/mesh_positive_example_pairs.txt
# MeSH + OMIM
python generate_pretrain_data.py --input_dict_path /efs/davidkartchner/el-robustness-comparison/data/mesh_and_omim_to_alias.txt --output_filepath training_data/mesh_and_omim_positive_example_pairs.txt
# ST21PV
python generate_pretrain_data.py --input_dict_path /efs/davidkartchner/el-robustness-comparison/data/st21pv_to_alias.txt --output_filepath training_data/st21pv_positive_example_pairs.txt
# NCBI Gene
python generate_pretrain_data.py --input_dict_path /efs/davidkartchner/el-robustness-comparison/data/entrez_to_alias.txt --output_filepath training_data/entrez_positive_example_pairs.txt
# MeSH + OMIM Disease Only
python generate_pretrain_data.py --input_dict_path /efs/davidkartchner/el-robustness-comparison/data/mesh_and_omim_to_alias_disease_only.txt --output_filepath training_data/mesh_and_omim_disease_only_positive_example_pairs.txt
# MeSH Chem Only
python generate_pretrain_data.py --input_dict_path /efs/davidkartchner/el-robustness-comparison/data/mesh_to_alias_chem_only.txt --output_filepath training_data/mesh_chem_only_positive_example_pairs.txt