├── .gitignore ├── doping ├── constants.py ├── data │ ├── all_doping_results_output_summary.txt │ ├── gpt3 │ │ ├── inference_decoded_eng.json │ │ ├── inference_decoded_engextra.json │ │ ├── inference_decoded_json.json │ │ ├── inference_raw_eng.json │ │ ├── inference_raw_eng.jsonl │ │ ├── inference_raw_engextra.json │ │ ├── inference_raw_engextra.jsonl │ │ ├── inference_raw_json.json │ │ └── inference_raw_json.jsonl │ ├── learning_curve │ │ ├── GPT3_decoded_file_learning_curve_n128_at_2022.09.30_XX-XX-XX.jsonl │ │ ├── GPT3_decoded_file_learning_curve_n16_at_2022.09.30_XX-XX-XX.jsonl │ │ ├── GPT3_decoded_file_learning_curve_n256_at_2022.09.30_XX-XX-XX.jsonl │ │ ├── GPT3_decoded_file_learning_curve_n2_at_2022.09.30_XX-XX-XX.jsonl │ │ ├── GPT3_decoded_file_learning_curve_n32_at_2022.09.30_XX-XX-XX.jsonl │ │ ├── GPT3_decoded_file_learning_curve_n4_at_2022.09.30_XX-XX-XX.jsonl │ │ ├── GPT3_decoded_file_learning_curve_n64_at_2022.09.30_XX-XX-XX.jsonl │ │ └── GPT3_decoded_file_learning_curve_n8_at_2022.09.30_XX-XX-XX.jsonl │ ├── llama2 │ │ ├── inference_decoded_eng.json │ │ ├── inference_decoded_engextra.json │ │ ├── inference_decoded_json.json │ │ ├── inference_raw_eng.json │ │ ├── inference_raw_engextra.json │ │ └── inference_raw_json.json │ ├── matbert-proximity │ │ ├── matbert_predictions_correct_format.json │ │ └── matbert_predictions_proximity_linked_gpt3_validation_set.json │ ├── raw_data.json │ ├── seq2rel │ │ ├── raw_seq2rel_predictions.json │ │ ├── seq2rel_doping_evaluation_all_lowercase.json │ │ ├── training_data_formatted.tsv │ │ └── translate_to_common_graph_format.py │ ├── test.json │ ├── train.json │ ├── training_eng.jsonl │ ├── training_engextra.jsonl │ └── training_json.jsonl ├── readme.md ├── requirements.txt ├── step1_annotate.py ├── step2_train_predict.py ├── step3_score.py └── util.py ├── general_and_mofs ├── annotation_ui.ipynb ├── data │ ├── experiments_general │ │ ├── fold_0 │ │ │ ├── train.jsonl │ │ │ └── val.jsonl │ │ ├── fold_1 │ │ │ ├── train.jsonl │ │ │ └── val.jsonl │ │ ├── fold_2 │ │ │ ├── train.jsonl │ │ │ └── val.jsonl │ │ ├── fold_3 │ │ │ ├── train.jsonl │ │ │ └── val.jsonl │ │ └── fold_4 │ │ │ ├── train.jsonl │ │ │ └── val.jsonl │ ├── experiments_mof_gpt3 │ │ ├── fold_0 │ │ │ ├── train.jsonl │ │ │ └── val.jsonl │ │ ├── fold_1 │ │ │ ├── train.jsonl │ │ │ └── val.jsonl │ │ ├── fold_2 │ │ │ ├── train.jsonl │ │ │ └── val.jsonl │ │ ├── fold_3 │ │ │ ├── train.jsonl │ │ │ └── val.jsonl │ │ └── fold_4 │ │ │ ├── train.jsonl │ │ │ └── val.jsonl │ ├── experiments_mof_old │ │ ├── fold_0 │ │ │ ├── train.jsonl │ │ │ └── val.jsonl │ │ ├── fold_1 │ │ │ ├── train.jsonl │ │ │ └── val.jsonl │ │ ├── fold_2 │ │ │ ├── train.jsonl │ │ │ └── val.jsonl │ │ ├── fold_3 │ │ │ ├── train.jsonl │ │ │ └── val.jsonl │ │ └── fold_4 │ │ │ ├── train.jsonl │ │ │ └── val.jsonl │ ├── general_manual_evaluation_set.jsonl │ ├── general_materials_information_annotations.jsonl │ ├── mof_annotations.jsonl │ ├── predict.py │ ├── predictions_general_gpt3 │ │ ├── run_0.jsonl │ │ ├── run_1.jsonl │ │ ├── run_2.jsonl │ │ ├── run_3.jsonl │ │ └── run_4.jsonl │ ├── predictions_general_llama2 │ │ ├── run_0.jsonl │ │ ├── run_1.jsonl │ │ ├── run_2.jsonl │ │ ├── run_3.jsonl │ │ └── run_4.jsonl │ ├── predictions_mof_gpt3 │ │ ├── run_0.jsonl │ │ ├── run_1.jsonl │ │ ├── run_2.jsonl │ │ ├── run_3.jsonl │ │ └── run_4.jsonl │ └── predictions_mof_llama2 │ │ ├── run_0.jsonl │ │ ├── run_1.jsonl │ │ ├── run_2.jsonl │ │ ├── run_3.jsonl │ │ └── run_4.jsonl ├── eval.sh ├── prepare_test_train_data.py ├── readme.md ├── requirements.txt ├── results.py ├── utils.py └── utils_test.py ├── license └── readme.md /.gitignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/lbnlp/NERRE/HEAD/.gitignore -------------------------------------------------------------------------------- /doping/constants.py: 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