Fine-tuned BioGPT on ncbi-disease for BIO NER

README.md

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+---
+library_name: transformers
+license: mit
+base_model: microsoft/biogpt
+tags:
+- generated_from_trainer
+datasets:
+- ncbi_disease
+metrics:
+- precision
+- recall
+- f1
+- accuracy
+model-index:
+- name: mlma_lab7
+  results:
+  - task:
+      name: Token Classification
+      type: token-classification
+    dataset:
+      name: ncbi_disease
+      type: ncbi_disease
+      config: ncbi_disease
+      split: validation
+      args: ncbi_disease
+    metrics:
+    - name: Precision
+      type: precision
+      value: 0.474835886214442
+    - name: Recall
+      type: recall
+      value: 0.5514612452350699
+    - name: F1
+      type: f1
+      value: 0.5102880658436214
+    - name: Accuracy
+      type: accuracy
+      value: 0.9598648253994744
+---
+
+<!-- This model card has been generated automatically according to the information the Trainer had access to. You
+should probably proofread and complete it, then remove this comment. -->
+
+# mlma_lab7
+
+This model is a fine-tuned version of [microsoft/biogpt](https://huggingface.co/microsoft/biogpt) on the ncbi_disease dataset.
+It achieves the following results on the evaluation set:
+- Loss: 0.1390
+- Precision: 0.4748
+- Recall: 0.5515
+- F1: 0.5103
+- Accuracy: 0.9599
+
+## Model description
+
+More information needed
+
+## Intended uses & limitations
+
+More information needed
+
+## Training and evaluation data
+
+More information needed
+
+## Training procedure
+
+### Training hyperparameters
+
+The following hyperparameters were used during training:
+- learning_rate: 2e-05
+- train_batch_size: 8
+- eval_batch_size: 8
+- seed: 42
+- optimizer: Use OptimizerNames.ADAMW_TORCH with betas=(0.9,0.999) and epsilon=1e-08 and optimizer_args=No additional optimizer arguments
+- lr_scheduler_type: linear
+- num_epochs: 3
+
+### Training results
+
+
+
+### Framework versions
+
+- Transformers 4.51.2
+- Pytorch 2.6.0+cu124
+- Datasets 3.5.0
+- Tokenizers 0.21.1

config.json

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+{
+  "activation_dropout": 0.0,
+  "activation_function": "gelu_new",
+  "architectures": [
+    "GPT2ForTokenClassification"
+  ],
+  "attention_probs_dropout_prob": 0.1,
+  "attn_pdrop": 0.1,
+  "bos_token_id": 0,
+  "embd_pdrop": 0.1,
+  "eos_token_id": 2,
+  "hidden_act": "gelu",
+  "hidden_dropout_prob": 0.1,
+  "id2label": {
+    "0": "LABEL_0",
+    "1": "LABEL_1",
+    "2": "LABEL_2"
+  },
+  "initializer_range": 0.02,
+  "intermediate_size": 4096,
+  "label2id": {
+    "LABEL_0": 0,
+    "LABEL_1": 1,
+    "LABEL_2": 2
+  },
+  "layer_norm_eps": 1e-12,
+  "layer_norm_epsilon": 1e-05,
+  "layerdrop": 0.0,
+  "model_type": "gpt2",
+  "n_embd": 1024,
+  "n_head": 16,
+  "n_inner": null,
+  "n_layer": 24,
+  "n_positions": 1024,
+  "pad_token_id": 1,
+  "reorder_and_upcast_attn": false,
+  "resid_pdrop": 0.1,
+  "scale_attn_by_inverse_layer_idx": false,
+  "scale_attn_weights": true,
+  "scale_embedding": true,
+  "summary_activation": null,
+  "summary_first_dropout": 0.1,
+  "summary_proj_to_labels": true,
+  "summary_type": "cls_index",
+  "summary_use_proj": true,
+  "torch_dtype": "float32",
+  "transformers_version": "4.51.2",
+  "use_cache": true,
+  "vocab_size": 42384
+}

model.safetensors

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+size 1387087524

runs/Apr12_23-02-53_28c35ca65051/events.out.tfevents.1744498976.28c35ca65051.2402.0

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runs/Apr12_23-02-53_28c35ca65051/events.out.tfevents.1744499777.28c35ca65051.2402.1

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special_tokens_map.json

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+{
+  "bos_token": "<s>",
+  "eos_token": "</s>",
+  "pad_token": "<pad>",
+  "sep_token": "</s>",
+  "unk_token": "<unk>"
+}

tokenizer_config.json

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+{
+  "added_tokens_decoder": {
+    "0": {
+      "content": "<s>",
+      "lstrip": false,
+      "normalized": false,
+      "rstrip": false,
+      "single_word": false,
+      "special": true
+    },
+    "1": {
+      "content": "<pad>",
+      "lstrip": false,
+      "normalized": false,
+      "rstrip": false,
+      "single_word": false,
+      "special": true
+    },
+    "2": {
+      "content": "</s>",
+      "lstrip": false,
+      "normalized": false,
+      "rstrip": false,
+      "single_word": false,
+      "special": true
+    },
+    "3": {
+      "content": "<unk>",
+      "lstrip": false,
+      "normalized": false,
+      "rstrip": false,
+      "single_word": false,
+      "special": true
+    }
+  },
+  "bos_token": "<s>",
+  "clean_up_tokenization_spaces": false,
+  "eos_token": "</s>",
+  "extra_special_tokens": {},
+  "model_max_length": 1000000000000000019884624838656,
+  "pad_token": "<pad>",
+  "sep_token": "</s>",
+  "tokenizer_class": "BioGptTokenizer",
+  "unk_token": "<unk>"
+}

training_args.bin

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