Rodrigo1771
commited on
Commit
•
65314ff
1
Parent(s):
934202e
Training in progress, epoch 0
Browse files- README.md +102 -0
- all_results.json +26 -0
- config.json +39 -0
- eval_results.json +12 -0
- merges.txt +0 -0
- model.safetensors +3 -0
- predict_results.json +10 -0
- predictions.txt +0 -0
- special_tokens_map.json +51 -0
- tb/events.out.tfevents.1725045346.6b97e535edda.2908.0 +3 -0
- tb/events.out.tfevents.1725046129.6b97e535edda.6370.0 +3 -0
- tb/events.out.tfevents.1725047358.6b97e535edda.6370.1 +3 -0
- tb/events.out.tfevents.1725047806.6b97e535edda.13440.0 +3 -0
- tb/events.out.tfevents.1725049039.6b97e535edda.13440.1 +3 -0
- tb/events.out.tfevents.1725049548.6b97e535edda.20735.0 +3 -0
- tokenizer.json +0 -0
- tokenizer_config.json +58 -0
- train.log +417 -0
- train_results.json +9 -0
- trainer_state.json +218 -0
- training_args.bin +3 -0
- vocab.json +0 -0
README.md
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---
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license: apache-2.0
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base_model: PlanTL-GOB-ES/bsc-bio-ehr-es
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tags:
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- token-classification
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- generated_from_trainer
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datasets:
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- Rodrigo1771/combined-train-drugtemist-dev-ner
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metrics:
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- precision
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- recall
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- f1
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- accuracy
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model-index:
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- name: output
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results:
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- task:
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name: Token Classification
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type: token-classification
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dataset:
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name: Rodrigo1771/combined-train-drugtemist-dev-ner
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type: Rodrigo1771/combined-train-drugtemist-dev-ner
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config: CombinedTrainDrugTEMISTDevNER
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split: validation
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args: CombinedTrainDrugTEMISTDevNER
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metrics:
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- name: Precision
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type: precision
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value: 0.09532555790247038
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- name: Recall
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type: recall
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value: 0.9540441176470589
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- name: F1
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type: f1
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value: 0.17333222008850296
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- name: Accuracy
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type: accuracy
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value: 0.7932840841995413
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---
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<!-- This model card has been generated automatically according to the information the Trainer had access to. You
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should probably proofread and complete it, then remove this comment. -->
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# output
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This model is a fine-tuned version of [PlanTL-GOB-ES/bsc-bio-ehr-es](https://huggingface.co/PlanTL-GOB-ES/bsc-bio-ehr-es) on the Rodrigo1771/combined-train-drugtemist-dev-ner dataset.
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It achieves the following results on the evaluation set:
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- Loss: 1.0503
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- Precision: 0.0953
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- Recall: 0.9540
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- F1: 0.1733
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- Accuracy: 0.7933
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## Model description
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More information needed
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## Intended uses & limitations
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More information needed
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## Training and evaluation data
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More information needed
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## Training procedure
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### Training hyperparameters
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The following hyperparameters were used during training:
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- learning_rate: 5e-05
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- train_batch_size: 32
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- eval_batch_size: 8
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- seed: 42
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- gradient_accumulation_steps: 2
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- total_train_batch_size: 64
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- optimizer: Adam with betas=(0.9,0.999) and epsilon=1e-08
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- lr_scheduler_type: linear
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- num_epochs: 10.0
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### Training results
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| Training Loss | Epoch | Step | Validation Loss | Precision | Recall | F1 | Accuracy |
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|:-------------:|:------:|:----:|:---------------:|:---------:|:------:|:------:|:--------:|
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| No log | 0.9988 | 425 | 0.6611 | 0.0883 | 0.9292 | 0.1613 | 0.7850 |
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| 0.3349 | 2.0 | 851 | 0.9204 | 0.0787 | 0.9301 | 0.1451 | 0.7551 |
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| 0.1788 | 2.9988 | 1276 | 0.9545 | 0.0844 | 0.9329 | 0.1549 | 0.7645 |
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| 0.1227 | 4.0 | 1702 | 1.0924 | 0.0885 | 0.9412 | 0.1618 | 0.7692 |
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| 0.0856 | 4.9988 | 2127 | 1.0503 | 0.0953 | 0.9540 | 0.1733 | 0.7933 |
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| 0.0597 | 6.0 | 2553 | 1.2642 | 0.0912 | 0.9449 | 0.1663 | 0.7788 |
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| 0.0597 | 6.9988 | 2978 | 1.3262 | 0.0928 | 0.9485 | 0.1690 | 0.7829 |
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| 0.0458 | 8.0 | 3404 | 1.3698 | 0.0926 | 0.9522 | 0.1688 | 0.7849 |
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| 0.0343 | 8.9988 | 3829 | 1.4433 | 0.0907 | 0.9449 | 0.1655 | 0.7822 |
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| 0.0292 | 9.9882 | 4250 | 1.4862 | 0.0914 | 0.9458 | 0.1667 | 0.7821 |
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### Framework versions
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- Transformers 4.42.4
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- Pytorch 2.4.0+cu121
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- Datasets 2.21.0
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- Tokenizers 0.19.1
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all_results.json
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{
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"epoch": 9.988249118683902,
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"eval_accuracy": 0.7932840841995413,
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"eval_f1": 0.17333222008850296,
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"eval_loss": 1.0502684116363525,
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"eval_precision": 0.09532555790247038,
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"eval_recall": 0.9540441176470589,
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"eval_runtime": 14.6851,
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"eval_samples": 6810,
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"eval_samples_per_second": 463.735,
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"eval_steps_per_second": 58.018,
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"predict_accuracy": 0.8808544760053879,
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"predict_f1": 0.24078298623886968,
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"predict_loss": 0.62894606590271,
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"predict_precision": 0.1378032345013477,
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"predict_recall": 0.9528246942341293,
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"predict_runtime": 29.8715,
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"predict_samples_per_second": 489.229,
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"predict_steps_per_second": 61.162,
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"total_flos": 1.2649810588547778e+16,
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"train_loss": 0.10639642311544979,
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"train_runtime": 1208.2019,
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"train_samples": 27229,
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"train_samples_per_second": 225.368,
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"train_steps_per_second": 3.518
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}
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config.json
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{
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"_name_or_path": "PlanTL-GOB-ES/bsc-bio-ehr-es",
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"architectures": [
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"RobertaForTokenClassification"
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],
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"attention_probs_dropout_prob": 0.1,
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"bos_token_id": 0,
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"classifier_dropout": null,
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"eos_token_id": 2,
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"finetuning_task": "ner",
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"gradient_checkpointing": false,
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"hidden_act": "gelu",
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"hidden_dropout_prob": 0.1,
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"hidden_size": 768,
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"id2label": {
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"0": "O",
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"1": "B-ENFERMEDAD",
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"2": "I-ENFERMEDAD"
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},
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"initializer_range": 0.02,
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"intermediate_size": 3072,
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"label2id": {
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"B-ENFERMEDAD": 1,
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"I-ENFERMEDAD": 2,
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"O": 0
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},
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"layer_norm_eps": 1e-05,
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"max_position_embeddings": 514,
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"model_type": "roberta",
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"num_attention_heads": 12,
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"num_hidden_layers": 12,
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"pad_token_id": 1,
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"position_embedding_type": "absolute",
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"torch_dtype": "float32",
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"transformers_version": "4.42.4",
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"type_vocab_size": 1,
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"use_cache": true,
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"vocab_size": 50262
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}
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eval_results.json
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{
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"epoch": 9.988249118683902,
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"eval_accuracy": 0.7932840841995413,
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"eval_f1": 0.17333222008850296,
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"eval_loss": 1.0502684116363525,
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"eval_precision": 0.09532555790247038,
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"eval_recall": 0.9540441176470589,
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"eval_runtime": 14.6851,
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"eval_samples": 6810,
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"eval_samples_per_second": 463.735,
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"eval_steps_per_second": 58.018
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}
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merges.txt
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See raw diff
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model.safetensors
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version https://git-lfs.github.com/spec/v1
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oid sha256:e30fd99ceae984d59d9b64cfef736066e9f374b1057df626cb9a78d048370605
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size 496244100
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predict_results.json
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{
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"predict_accuracy": 0.8808544760053879,
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"predict_f1": 0.24078298623886968,
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"predict_loss": 0.62894606590271,
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"predict_precision": 0.1378032345013477,
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"predict_recall": 0.9528246942341293,
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"predict_runtime": 29.8715,
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"predict_samples_per_second": 489.229,
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"predict_steps_per_second": 61.162
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}
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predictions.txt
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special_tokens_map.json
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{
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"bos_token": {
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"content": "<s>",
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"lstrip": false,
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"normalized": true,
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"rstrip": false,
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"single_word": false
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},
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},
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},
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},
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"sep_token": {
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"content": "</s>",
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"lstrip": false,
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"single_word": false
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},
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"unk_token": {
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"content": "<unk>",
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"lstrip": false,
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"normalized": true,
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}
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}
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size 560
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tb/events.out.tfevents.1725049548.6b97e535edda.20735.0
ADDED
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version https://git-lfs.github.com/spec/v1
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oid sha256:9c28dc020c475618b75acd5fee27c7c0952210b4e69cf433112b32cd4a3372a1
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size 5587
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tokenizer.json
ADDED
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tokenizer_config.json
ADDED
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{
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"add_prefix_space": true,
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"added_tokens_decoder": {
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"0": {
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"content": "<s>",
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"lstrip": false,
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"normalized": true,
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"rstrip": false,
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"single_word": false,
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"special": true
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},
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"1": {
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"content": "<pad>",
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"lstrip": false,
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"normalized": true,
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"rstrip": false,
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"single_word": false,
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"special": true
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},
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"2": {
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"content": "</s>",
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"lstrip": false,
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"normalized": true,
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"rstrip": false,
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"single_word": false,
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"special": true
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},
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"3": {
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"content": "<unk>",
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"lstrip": false,
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"normalized": true,
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32 |
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"rstrip": false,
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33 |
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"single_word": false,
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"special": true
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},
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"50261": {
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"content": "<mask>",
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"lstrip": true,
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"normalized": true,
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"rstrip": false,
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"single_word": false,
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"special": true
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}
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},
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"bos_token": "<s>",
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"clean_up_tokenization_spaces": true,
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"cls_token": "<s>",
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"eos_token": "</s>",
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"errors": "replace",
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"mask_token": "<mask>",
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"max_len": 512,
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"model_max_length": 512,
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53 |
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"pad_token": "<pad>",
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54 |
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"sep_token": "</s>",
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55 |
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"tokenizer_class": "RobertaTokenizer",
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"trim_offsets": true,
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"unk_token": "<unk>"
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}
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train.log
ADDED
@@ -0,0 +1,417 @@
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10%|█ | 425/4250 [01:42<14:28, 4.40it/s][INFO|trainer.py:805] 2024-08-30 20:27:31,190 >> The following columns in the evaluation set don't have a corresponding argument in `RobertaForTokenClassification.forward` and have been ignored: tokens, ner_tags, id. If tokens, ner_tags, id are not expected by `RobertaForTokenClassification.forward`, you can safely ignore this message.
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[A[INFO|trainer.py:3478] 2024-08-30 20:27:45,881 >> Saving model checkpoint to /content/dissertation/scripts/ner/output/checkpoint-425
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1 |
+
2024-08-30 20:25:26.549777: I tensorflow/core/util/port.cc:153] oneDNN custom operations are on. You may see slightly different numerical results due to floating-point round-off errors from different computation orders. To turn them off, set the environment variable `TF_ENABLE_ONEDNN_OPTS=0`.
|
2 |
+
2024-08-30 20:25:26.568217: E external/local_xla/xla/stream_executor/cuda/cuda_fft.cc:485] Unable to register cuFFT factory: Attempting to register factory for plugin cuFFT when one has already been registered
|
3 |
+
2024-08-30 20:25:26.590253: E external/local_xla/xla/stream_executor/cuda/cuda_dnn.cc:8454] Unable to register cuDNN factory: Attempting to register factory for plugin cuDNN when one has already been registered
|
4 |
+
2024-08-30 20:25:26.597224: E external/local_xla/xla/stream_executor/cuda/cuda_blas.cc:1452] Unable to register cuBLAS factory: Attempting to register factory for plugin cuBLAS when one has already been registered
|
5 |
+
2024-08-30 20:25:26.612962: I tensorflow/core/platform/cpu_feature_guard.cc:210] This TensorFlow binary is optimized to use available CPU instructions in performance-critical operations.
|
6 |
+
To enable the following instructions: AVX2 AVX512F AVX512_VNNI FMA, in other operations, rebuild TensorFlow with the appropriate compiler flags.
|
7 |
+
2024-08-30 20:25:27.916342: W tensorflow/compiler/tf2tensorrt/utils/py_utils.cc:38] TF-TRT Warning: Could not find TensorRT
|
8 |
+
/usr/local/lib/python3.10/dist-packages/transformers/training_args.py:1494: FutureWarning: `evaluation_strategy` is deprecated and will be removed in version 4.46 of 🤗 Transformers. Use `eval_strategy` instead
|
9 |
+
warnings.warn(
|
10 |
+
08/30/2024 20:25:29 - WARNING - __main__ - Process rank: 0, device: cuda:0, n_gpu: 1distributed training: True, 16-bits training: False
|
11 |
+
08/30/2024 20:25:29 - INFO - __main__ - Training/evaluation parameters TrainingArguments(
|
12 |
+
_n_gpu=1,
|
13 |
+
accelerator_config={'split_batches': False, 'dispatch_batches': None, 'even_batches': True, 'use_seedable_sampler': True, 'non_blocking': False, 'gradient_accumulation_kwargs': None, 'use_configured_state': False},
|
14 |
+
adafactor=False,
|
15 |
+
adam_beta1=0.9,
|
16 |
+
adam_beta2=0.999,
|
17 |
+
adam_epsilon=1e-08,
|
18 |
+
auto_find_batch_size=False,
|
19 |
+
batch_eval_metrics=False,
|
20 |
+
bf16=False,
|
21 |
+
bf16_full_eval=False,
|
22 |
+
data_seed=None,
|
23 |
+
dataloader_drop_last=False,
|
24 |
+
dataloader_num_workers=0,
|
25 |
+
dataloader_persistent_workers=False,
|
26 |
+
dataloader_pin_memory=True,
|
27 |
+
dataloader_prefetch_factor=None,
|
28 |
+
ddp_backend=None,
|
29 |
+
ddp_broadcast_buffers=None,
|
30 |
+
ddp_bucket_cap_mb=None,
|
31 |
+
ddp_find_unused_parameters=None,
|
32 |
+
ddp_timeout=1800,
|
33 |
+
debug=[],
|
34 |
+
deepspeed=None,
|
35 |
+
disable_tqdm=False,
|
36 |
+
dispatch_batches=None,
|
37 |
+
do_eval=True,
|
38 |
+
do_predict=True,
|
39 |
+
do_train=True,
|
40 |
+
eval_accumulation_steps=None,
|
41 |
+
eval_delay=0,
|
42 |
+
eval_do_concat_batches=True,
|
43 |
+
eval_on_start=False,
|
44 |
+
eval_steps=None,
|
45 |
+
eval_strategy=epoch,
|
46 |
+
evaluation_strategy=epoch,
|
47 |
+
fp16=False,
|
48 |
+
fp16_backend=auto,
|
49 |
+
fp16_full_eval=False,
|
50 |
+
fp16_opt_level=O1,
|
51 |
+
fsdp=[],
|
52 |
+
fsdp_config={'min_num_params': 0, 'xla': False, 'xla_fsdp_v2': False, 'xla_fsdp_grad_ckpt': False},
|
53 |
+
fsdp_min_num_params=0,
|
54 |
+
fsdp_transformer_layer_cls_to_wrap=None,
|
55 |
+
full_determinism=False,
|
56 |
+
gradient_accumulation_steps=2,
|
57 |
+
gradient_checkpointing=False,
|
58 |
+
gradient_checkpointing_kwargs=None,
|
59 |
+
greater_is_better=True,
|
60 |
+
group_by_length=False,
|
61 |
+
half_precision_backend=auto,
|
62 |
+
hub_always_push=False,
|
63 |
+
hub_model_id=None,
|
64 |
+
hub_private_repo=False,
|
65 |
+
hub_strategy=every_save,
|
66 |
+
hub_token=<HUB_TOKEN>,
|
67 |
+
ignore_data_skip=False,
|
68 |
+
include_inputs_for_metrics=False,
|
69 |
+
include_num_input_tokens_seen=False,
|
70 |
+
include_tokens_per_second=False,
|
71 |
+
jit_mode_eval=False,
|
72 |
+
label_names=None,
|
73 |
+
label_smoothing_factor=0.0,
|
74 |
+
learning_rate=5e-05,
|
75 |
+
length_column_name=length,
|
76 |
+
load_best_model_at_end=True,
|
77 |
+
local_rank=0,
|
78 |
+
log_level=passive,
|
79 |
+
log_level_replica=warning,
|
80 |
+
log_on_each_node=True,
|
81 |
+
logging_dir=/content/dissertation/scripts/ner/output/tb,
|
82 |
+
logging_first_step=False,
|
83 |
+
logging_nan_inf_filter=True,
|
84 |
+
logging_steps=500,
|
85 |
+
logging_strategy=steps,
|
86 |
+
lr_scheduler_kwargs={},
|
87 |
+
lr_scheduler_type=linear,
|
88 |
+
max_grad_norm=1.0,
|
89 |
+
max_steps=-1,
|
90 |
+
metric_for_best_model=f1,
|
91 |
+
mp_parameters=,
|
92 |
+
neftune_noise_alpha=None,
|
93 |
+
no_cuda=False,
|
94 |
+
num_train_epochs=10.0,
|
95 |
+
optim=adamw_torch,
|
96 |
+
optim_args=None,
|
97 |
+
optim_target_modules=None,
|
98 |
+
output_dir=/content/dissertation/scripts/ner/output,
|
99 |
+
overwrite_output_dir=True,
|
100 |
+
past_index=-1,
|
101 |
+
per_device_eval_batch_size=8,
|
102 |
+
per_device_train_batch_size=32,
|
103 |
+
prediction_loss_only=False,
|
104 |
+
push_to_hub=True,
|
105 |
+
push_to_hub_model_id=None,
|
106 |
+
push_to_hub_organization=None,
|
107 |
+
push_to_hub_token=<PUSH_TO_HUB_TOKEN>,
|
108 |
+
ray_scope=last,
|
109 |
+
remove_unused_columns=True,
|
110 |
+
report_to=['tensorboard'],
|
111 |
+
restore_callback_states_from_checkpoint=False,
|
112 |
+
resume_from_checkpoint=None,
|
113 |
+
run_name=/content/dissertation/scripts/ner/output,
|
114 |
+
save_on_each_node=False,
|
115 |
+
save_only_model=False,
|
116 |
+
save_safetensors=True,
|
117 |
+
save_steps=500,
|
118 |
+
save_strategy=epoch,
|
119 |
+
save_total_limit=None,
|
120 |
+
seed=42,
|
121 |
+
skip_memory_metrics=True,
|
122 |
+
split_batches=None,
|
123 |
+
tf32=None,
|
124 |
+
torch_compile=False,
|
125 |
+
torch_compile_backend=None,
|
126 |
+
torch_compile_mode=None,
|
127 |
+
torchdynamo=None,
|
128 |
+
tpu_metrics_debug=False,
|
129 |
+
tpu_num_cores=None,
|
130 |
+
use_cpu=False,
|
131 |
+
use_ipex=False,
|
132 |
+
use_legacy_prediction_loop=False,
|
133 |
+
use_mps_device=False,
|
134 |
+
warmup_ratio=0.0,
|
135 |
+
warmup_steps=0,
|
136 |
+
weight_decay=0.0,
|
137 |
+
)
|
138 |
+
|
139 |
+
|
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+
|
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+
|
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+
|
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+
|
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|
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[INFO|configuration_utils.py:733] 2024-08-30 20:25:41,919 >> loading configuration file config.json from cache at /root/.cache/huggingface/hub/models--PlanTL-GOB-ES--bsc-bio-ehr-es/snapshots/1e543adb2d21f19d85a89305eebdbd64ab656b99/config.json
|
146 |
+
[INFO|configuration_utils.py:800] 2024-08-30 20:25:41,923 >> Model config RobertaConfig {
|
147 |
+
"_name_or_path": "PlanTL-GOB-ES/bsc-bio-ehr-es",
|
148 |
+
"architectures": [
|
149 |
+
"RobertaForMaskedLM"
|
150 |
+
],
|
151 |
+
"attention_probs_dropout_prob": 0.1,
|
152 |
+
"bos_token_id": 0,
|
153 |
+
"classifier_dropout": null,
|
154 |
+
"eos_token_id": 2,
|
155 |
+
"finetuning_task": "ner",
|
156 |
+
"gradient_checkpointing": false,
|
157 |
+
"hidden_act": "gelu",
|
158 |
+
"hidden_dropout_prob": 0.1,
|
159 |
+
"hidden_size": 768,
|
160 |
+
"id2label": {
|
161 |
+
"0": "O",
|
162 |
+
"1": "B-ENFERMEDAD",
|
163 |
+
"2": "I-ENFERMEDAD"
|
164 |
+
},
|
165 |
+
"initializer_range": 0.02,
|
166 |
+
"intermediate_size": 3072,
|
167 |
+
"label2id": {
|
168 |
+
"B-ENFERMEDAD": 1,
|
169 |
+
"I-ENFERMEDAD": 2,
|
170 |
+
"O": 0
|
171 |
+
},
|
172 |
+
"layer_norm_eps": 1e-05,
|
173 |
+
"max_position_embeddings": 514,
|
174 |
+
"model_type": "roberta",
|
175 |
+
"num_attention_heads": 12,
|
176 |
+
"num_hidden_layers": 12,
|
177 |
+
"pad_token_id": 1,
|
178 |
+
"position_embedding_type": "absolute",
|
179 |
+
"transformers_version": "4.42.4",
|
180 |
+
"type_vocab_size": 1,
|
181 |
+
"use_cache": true,
|
182 |
+
"vocab_size": 50262
|
183 |
+
}
|
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+
|
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[INFO|configuration_utils.py:733] 2024-08-30 20:25:42,016 >> loading configuration file config.json from cache at /root/.cache/huggingface/hub/models--PlanTL-GOB-ES--bsc-bio-ehr-es/snapshots/1e543adb2d21f19d85a89305eebdbd64ab656b99/config.json
|
186 |
+
[INFO|configuration_utils.py:800] 2024-08-30 20:25:42,017 >> Model config RobertaConfig {
|
187 |
+
"_name_or_path": "PlanTL-GOB-ES/bsc-bio-ehr-es",
|
188 |
+
"architectures": [
|
189 |
+
"RobertaForMaskedLM"
|
190 |
+
],
|
191 |
+
"attention_probs_dropout_prob": 0.1,
|
192 |
+
"bos_token_id": 0,
|
193 |
+
"classifier_dropout": null,
|
194 |
+
"eos_token_id": 2,
|
195 |
+
"gradient_checkpointing": false,
|
196 |
+
"hidden_act": "gelu",
|
197 |
+
"hidden_dropout_prob": 0.1,
|
198 |
+
"hidden_size": 768,
|
199 |
+
"initializer_range": 0.02,
|
200 |
+
"intermediate_size": 3072,
|
201 |
+
"layer_norm_eps": 1e-05,
|
202 |
+
"max_position_embeddings": 514,
|
203 |
+
"model_type": "roberta",
|
204 |
+
"num_attention_heads": 12,
|
205 |
+
"num_hidden_layers": 12,
|
206 |
+
"pad_token_id": 1,
|
207 |
+
"position_embedding_type": "absolute",
|
208 |
+
"transformers_version": "4.42.4",
|
209 |
+
"type_vocab_size": 1,
|
210 |
+
"use_cache": true,
|
211 |
+
"vocab_size": 50262
|
212 |
+
}
|
213 |
+
|
214 |
+
[INFO|tokenization_utils_base.py:2161] 2024-08-30 20:25:42,027 >> loading file vocab.json from cache at /root/.cache/huggingface/hub/models--PlanTL-GOB-ES--bsc-bio-ehr-es/snapshots/1e543adb2d21f19d85a89305eebdbd64ab656b99/vocab.json
|
215 |
+
[INFO|tokenization_utils_base.py:2161] 2024-08-30 20:25:42,028 >> loading file merges.txt from cache at /root/.cache/huggingface/hub/models--PlanTL-GOB-ES--bsc-bio-ehr-es/snapshots/1e543adb2d21f19d85a89305eebdbd64ab656b99/merges.txt
|
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+
[INFO|tokenization_utils_base.py:2161] 2024-08-30 20:25:42,028 >> loading file tokenizer.json from cache at None
|
217 |
+
[INFO|tokenization_utils_base.py:2161] 2024-08-30 20:25:42,028 >> loading file added_tokens.json from cache at None
|
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+
[INFO|tokenization_utils_base.py:2161] 2024-08-30 20:25:42,028 >> loading file special_tokens_map.json from cache at /root/.cache/huggingface/hub/models--PlanTL-GOB-ES--bsc-bio-ehr-es/snapshots/1e543adb2d21f19d85a89305eebdbd64ab656b99/special_tokens_map.json
|
219 |
+
[INFO|tokenization_utils_base.py:2161] 2024-08-30 20:25:42,028 >> loading file tokenizer_config.json from cache at /root/.cache/huggingface/hub/models--PlanTL-GOB-ES--bsc-bio-ehr-es/snapshots/1e543adb2d21f19d85a89305eebdbd64ab656b99/tokenizer_config.json
|
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+
[INFO|configuration_utils.py:733] 2024-08-30 20:25:42,028 >> loading configuration file config.json from cache at /root/.cache/huggingface/hub/models--PlanTL-GOB-ES--bsc-bio-ehr-es/snapshots/1e543adb2d21f19d85a89305eebdbd64ab656b99/config.json
|
221 |
+
[INFO|configuration_utils.py:800] 2024-08-30 20:25:42,029 >> Model config RobertaConfig {
|
222 |
+
"_name_or_path": "PlanTL-GOB-ES/bsc-bio-ehr-es",
|
223 |
+
"architectures": [
|
224 |
+
"RobertaForMaskedLM"
|
225 |
+
],
|
226 |
+
"attention_probs_dropout_prob": 0.1,
|
227 |
+
"bos_token_id": 0,
|
228 |
+
"classifier_dropout": null,
|
229 |
+
"eos_token_id": 2,
|
230 |
+
"gradient_checkpointing": false,
|
231 |
+
"hidden_act": "gelu",
|
232 |
+
"hidden_dropout_prob": 0.1,
|
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+
"hidden_size": 768,
|
234 |
+
"initializer_range": 0.02,
|
235 |
+
"intermediate_size": 3072,
|
236 |
+
"layer_norm_eps": 1e-05,
|
237 |
+
"max_position_embeddings": 514,
|
238 |
+
"model_type": "roberta",
|
239 |
+
"num_attention_heads": 12,
|
240 |
+
"num_hidden_layers": 12,
|
241 |
+
"pad_token_id": 1,
|
242 |
+
"position_embedding_type": "absolute",
|
243 |
+
"transformers_version": "4.42.4",
|
244 |
+
"type_vocab_size": 1,
|
245 |
+
"use_cache": true,
|
246 |
+
"vocab_size": 50262
|
247 |
+
}
|
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+
|
249 |
+
[INFO|configuration_utils.py:733] 2024-08-30 20:25:42,112 >> loading configuration file config.json from cache at /root/.cache/huggingface/hub/models--PlanTL-GOB-ES--bsc-bio-ehr-es/snapshots/1e543adb2d21f19d85a89305eebdbd64ab656b99/config.json
|
250 |
+
[INFO|configuration_utils.py:800] 2024-08-30 20:25:42,113 >> Model config RobertaConfig {
|
251 |
+
"_name_or_path": "PlanTL-GOB-ES/bsc-bio-ehr-es",
|
252 |
+
"architectures": [
|
253 |
+
"RobertaForMaskedLM"
|
254 |
+
],
|
255 |
+
"attention_probs_dropout_prob": 0.1,
|
256 |
+
"bos_token_id": 0,
|
257 |
+
"classifier_dropout": null,
|
258 |
+
"eos_token_id": 2,
|
259 |
+
"gradient_checkpointing": false,
|
260 |
+
"hidden_act": "gelu",
|
261 |
+
"hidden_dropout_prob": 0.1,
|
262 |
+
"hidden_size": 768,
|
263 |
+
"initializer_range": 0.02,
|
264 |
+
"intermediate_size": 3072,
|
265 |
+
"layer_norm_eps": 1e-05,
|
266 |
+
"max_position_embeddings": 514,
|
267 |
+
"model_type": "roberta",
|
268 |
+
"num_attention_heads": 12,
|
269 |
+
"num_hidden_layers": 12,
|
270 |
+
"pad_token_id": 1,
|
271 |
+
"position_embedding_type": "absolute",
|
272 |
+
"transformers_version": "4.42.4",
|
273 |
+
"type_vocab_size": 1,
|
274 |
+
"use_cache": true,
|
275 |
+
"vocab_size": 50262
|
276 |
+
}
|
277 |
+
|
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+
[INFO|modeling_utils.py:3556] 2024-08-30 20:25:42,300 >> loading weights file pytorch_model.bin from cache at /root/.cache/huggingface/hub/models--PlanTL-GOB-ES--bsc-bio-ehr-es/snapshots/1e543adb2d21f19d85a89305eebdbd64ab656b99/pytorch_model.bin
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[INFO|modeling_utils.py:4354] 2024-08-30 20:25:42,438 >> Some weights of the model checkpoint at PlanTL-GOB-ES/bsc-bio-ehr-es were not used when initializing RobertaForTokenClassification: ['lm_head.bias', 'lm_head.decoder.bias', 'lm_head.decoder.weight', 'lm_head.dense.bias', 'lm_head.dense.weight', 'lm_head.layer_norm.bias', 'lm_head.layer_norm.weight']
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- This IS expected if you are initializing RobertaForTokenClassification from the checkpoint of a model trained on another task or with another architecture (e.g. initializing a BertForSequenceClassification model from a BertForPreTraining model).
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- This IS NOT expected if you are initializing RobertaForTokenClassification from the checkpoint of a model that you expect to be exactly identical (initializing a BertForSequenceClassification model from a BertForSequenceClassification model).
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[WARNING|modeling_utils.py:4366] 2024-08-30 20:25:42,438 >> Some weights of RobertaForTokenClassification were not initialized from the model checkpoint at PlanTL-GOB-ES/bsc-bio-ehr-es and are newly initialized: ['classifier.bias', 'classifier.weight']
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You should probably TRAIN this model on a down-stream task to be able to use it for predictions and inference.
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/content/dissertation/scripts/ner/run_ner_train.py:397: FutureWarning: load_metric is deprecated and will be removed in the next major version of datasets. Use 'evaluate.load' instead, from the new library 🤗 Evaluate: https://huggingface.co/docs/evaluate
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metric = load_metric("seqeval", trust_remote_code=True)
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[INFO|trainer.py:805] 2024-08-30 20:25:48,288 >> The following columns in the training set don't have a corresponding argument in `RobertaForTokenClassification.forward` and have been ignored: tokens, ner_tags, id. If tokens, ner_tags, id are not expected by `RobertaForTokenClassification.forward`, you can safely ignore this message.
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[INFO|trainer.py:2128] 2024-08-30 20:25:48,850 >> ***** Running training *****
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[INFO|trainer.py:2129] 2024-08-30 20:25:48,850 >> Num examples = 27,229
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[INFO|trainer.py:2130] 2024-08-30 20:25:48,850 >> Num Epochs = 10
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[INFO|trainer.py:2131] 2024-08-30 20:25:48,850 >> Instantaneous batch size per device = 32
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[INFO|trainer.py:2134] 2024-08-30 20:25:48,850 >> Total train batch size (w. parallel, distributed & accumulation) = 64
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[INFO|trainer.py:2135] 2024-08-30 20:25:48,851 >> Gradient Accumulation steps = 2
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[INFO|trainer.py:2136] 2024-08-30 20:25:48,851 >> Total optimization steps = 4,250
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[INFO|trainer.py:2137] 2024-08-30 20:25:48,851 >> Number of trainable parameters = 124,055,043
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5%|▌ | 216/4250 [00:51<19:04, 3.52it/s]
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5%|▌ | 219/4250 [00:52<16:35, 4.05it/s]
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6%|▌ | 237/4250 [00:56<19:42, 3.39it/s]
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6%|▌ | 238/4250 [00:56<17:25, 3.84it/s]
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6%|▌ | 239/4250 [00:57<17:28, 3.83it/s]
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6%|▌ | 241/4250 [00:57<17:57, 3.72it/s]
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541 |
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542 |
6%|▌ | 243/4250 [00:58<15:57, 4.19it/s]
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543 |
6%|▌ | 244/4250 [00:58<15:58, 4.18it/s]
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6%|▌ | 245/4250 [00:58<15:56, 4.19it/s]
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6%|▌ | 246/4250 [00:59<24:58, 2.67it/s]
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6%|▌ | 248/4250 [00:59<19:38, 3.40it/s]
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6%|▌ | 249/4250 [01:00<23:51, 2.80it/s]
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6%|▌ | 251/4250 [01:01<22:48, 2.92it/s]
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6%|▌ | 254/4250 [01:01<17:53, 3.72it/s]
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6%|▌ | 256/4250 [01:02<17:55, 3.71it/s]
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6%|▌ | 257/4250 [01:02<16:43, 3.98it/s]
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6%|▌ | 258/4250 [01:02<15:35, 4.27it/s]
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558 |
6%|▌ | 259/4250 [01:02<14:28, 4.59it/s]
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6%|▌ | 260/4250 [01:03<15:44, 4.22it/s]
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6%|▌ | 261/4250 [01:03<15:00, 4.43it/s]
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562 |
6%|▌ | 263/4250 [01:03<12:53, 5.15it/s]
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563 |
6%|▌ | 264/4250 [01:03<14:53, 4.46it/s]
|
564 |
6%|▌ | 265/4250 [01:04<15:50, 4.19it/s]
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565 |
6%|▋ | 266/4250 [01:04<15:46, 4.21it/s]
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569 |
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6%|▋ | 275/4250 [01:06<13:31, 4.90it/s]
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6%|▋ | 276/4250 [01:06<12:58, 5.11it/s]
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7%|▋ | 277/4250 [01:06<13:41, 4.84it/s]
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7%|▋ | 278/4250 [01:06<13:31, 4.89it/s]
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7%|▋ | 279/4250 [01:07<14:09, 4.67it/s]
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579 |
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7%|▋ | 281/4250 [01:07<16:06, 4.10it/s]
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7%|▋ | 284/4250 [01:08<14:33, 4.54it/s]
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7%|▋ | 286/4250 [01:08<14:18, 4.62it/s]
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7%|▋ | 287/4250 [01:09<15:53, 4.16it/s]
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7%|▋ | 288/4250 [01:09<14:44, 4.48it/s]
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7%|▋ | 289/4250 [01:09<14:55, 4.42it/s]
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7%|▋ | 306/4250 [01:13<18:10, 3.62it/s]
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7%|▋ | 307/4250 [01:13<16:03, 4.09it/s]
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7%|▋ | 308/4250 [01:13<15:15, 4.31it/s]
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7%|▋ | 309/4250 [01:14<15:01, 4.37it/s]
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7%|▋ | 312/4250 [01:14<16:55, 3.88it/s]
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7%|▋ | 313/4250 [01:15<16:12, 4.05it/s]
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7%|▋ | 314/4250 [01:15<16:17, 4.03it/s]
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7%|▋ | 317/4250 [01:15<15:41, 4.18it/s]
|
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7%|▋ | 318/4250 [01:16<15:25, 4.25it/s]
|
618 |
8%|▊ | 319/4250 [01:16<15:46, 4.15it/s]
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619 |
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620 |
8%|▊ | 321/4250 [01:16<15:03, 4.35it/s]
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621 |
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623 |
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8%|▊ | 325/4250 [01:17<13:22, 4.89it/s]
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8%|▊ | 326/4250 [01:17<12:56, 5.05it/s]
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8%|▊ | 327/4250 [01:18<12:34, 5.20it/s]
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8%|▊ | 328/4250 [01:18<16:35, 3.94it/s]
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629 |
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8%|▊ | 335/4250 [01:20<15:52, 4.11it/s]
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8%|▊ | 349/4250 [01:23<16:19, 3.98it/s]
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8%|▊ | 351/4250 [01:24<15:28, 4.20it/s]
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8%|▊ | 352/4250 [01:24<15:45, 4.12it/s]
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9%|▊ | 369/4250 [01:28<16:11, 4.00it/s]
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669 |
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9%|▉ | 373/4250 [01:29<15:47, 4.09it/s]
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9%|▉ | 377/4250 [01:30<19:34, 3.30it/s]
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9%|▉ | 378/4250 [01:30<17:28, 3.69it/s]
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9%|▉ | 379/4250 [01:31<15:52, 4.06it/s]
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9%|▉ | 381/4250 [01:31<14:26, 4.46it/s]
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9%|▉ | 382/4250 [01:31<13:57, 4.62it/s]
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9%|▉ | 383/4250 [01:32<15:16, 4.22it/s]
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9%|▉ | 402/4250 [01:36<15:53, 4.04it/s]
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9%|▉ | 403/4250 [01:36<15:28, 4.14it/s]
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10%|▉ | 405/4250 [01:37<15:17, 4.19it/s]
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10%|▉ | 406/4250 [01:37<15:58, 4.01it/s]
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10%|▉ | 407/4250 [01:38<23:04, 2.78it/s]
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10%|▉ | 408/4250 [01:38<21:23, 2.99it/s]
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10%|▉ | 409/4250 [01:38<18:34, 3.45it/s]
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10%|▉ | 410/4250 [01:38<17:37, 3.63it/s]
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10%|▉ | 411/4250 [01:38<17:21, 3.68it/s]
|
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10%|▉ | 412/4250 [01:39<18:26, 3.47it/s]
|
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10%|▉ | 413/4250 [01:39<17:12, 3.72it/s]
|
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10%|▉ | 414/4250 [01:39<16:36, 3.85it/s]
|
714 |
10%|▉ | 415/4250 [01:39<15:21, 4.16it/s]
|
715 |
10%|▉ | 416/4250 [01:40<14:56, 4.28it/s]
|
716 |
10%|▉ | 417/4250 [01:40<14:55, 4.28it/s]
|
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10%|▉ | 418/4250 [01:40<13:45, 4.64it/s]
|
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10%|▉ | 419/4250 [01:40<14:56, 4.27it/s]
|
719 |
10%|▉ | 420/4250 [01:41<15:00, 4.25it/s]
|
720 |
10%|▉ | 421/4250 [01:41<15:28, 4.12it/s]
|
721 |
10%|▉ | 422/4250 [01:41<14:59, 4.26it/s]
|
722 |
10%|▉ | 423/4250 [01:41<13:50, 4.61it/s]
|
723 |
10%|▉ | 424/4250 [01:42<14:34, 4.37it/s]
|
724 |
10%|█ | 425/4250 [01:42<14:28, 4.40it/s][INFO|trainer.py:805] 2024-08-30 20:27:31,190 >> The following columns in the evaluation set don't have a corresponding argument in `RobertaForTokenClassification.forward` and have been ignored: tokens, ner_tags, id. If tokens, ner_tags, id are not expected by `RobertaForTokenClassification.forward`, you can safely ignore this message.
|
725 |
+
[INFO|trainer.py:3788] 2024-08-30 20:27:31,192 >>
|
726 |
+
***** Running Evaluation *****
|
727 |
+
[INFO|trainer.py:3790] 2024-08-30 20:27:31,192 >> Num examples = 6810
|
728 |
+
[INFO|trainer.py:3793] 2024-08-30 20:27:31,192 >> Batch size = 8
|
729 |
+
|
730 |
+
|
731 |
0%| | 0/852 [00:00<?, ?it/s][A
|
732 |
+
|
733 |
1%| | 9/852 [00:00<00:09, 88.66it/s][A
|
734 |
+
|
735 |
2%|▏ | 18/852 [00:00<00:10, 79.48it/s][A
|
736 |
+
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[A[INFO|trainer.py:3478] 2024-08-30 20:27:45,881 >> Saving model checkpoint to /content/dissertation/scripts/ner/output/checkpoint-425
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[INFO|tokenization_utils_base.py:2583] 2024-08-30 20:27:50,017 >> Special tokens file saved in /content/dissertation/scripts/ner/output/special_tokens_map.json
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train_results.json
ADDED
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{
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"epoch": 9.988249118683902,
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"total_flos": 1.2649810588547778e+16,
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"train_loss": 0.10639642311544979,
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"train_runtime": 1208.2019,
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"train_samples": 27229,
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"train_samples_per_second": 225.368,
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"train_steps_per_second": 3.518
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vocab.json
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