Upload 9 files

config.json

@@ -0,0 +1,24 @@
+{
+  "_name_or_path": "mbg-biobert",
+  "architectures": [
+    "BertForMaskedLM"
+  ],
+  "attention_probs_dropout_prob": 0.1,
+  "gradient_checkpointing": false,
+  "hidden_act": "gelu",
+  "hidden_dropout_prob": 0.1,
+  "hidden_size": 768,
+  "initializer_range": 0.02,
+  "intermediate_size": 3072,
+  "layer_norm_eps": 1e-12,
+  "max_position_embeddings": 512,
+  "model_type": "bert",
+  "num_attention_heads": 12,
+  "num_hidden_layers": 12,
+  "pad_token_id": 0,
+  "position_embedding_type": "absolute",
+  "transformers_version": "4.6.1",
+  "type_vocab_size": 2,
+  "use_cache": true,
+  "vocab_size": 28996
+}

model_args.json

@@ -0,0 +1 @@
+{"adafactor_beta1": null, "adafactor_clip_threshold": 1.0, "adafactor_decay_rate": -0.8, "adafactor_eps": [1e-30, 0.001], "adafactor_relative_step": true, "adafactor_scale_parameter": true, "adafactor_warmup_init": true, "adam_epsilon": 1e-08, "best_model_dir": "models/biobert_12e_eval/", "cache_dir": "cache_dir", "config": {}, "cosine_schedule_num_cycles": 0.5, "custom_layer_parameters": [], "custom_parameter_groups": [], "dataloader_num_workers": 0, "do_lower_case": false, "dynamic_quantize": false, "early_stopping_consider_epochs": false, "early_stopping_delta": 0, "early_stopping_metric": "eval_loss", "early_stopping_metric_minimize": true, "early_stopping_patience": 3, "encoding": null, "eval_batch_size": 8, "evaluate_during_training": true, "evaluate_during_training_silent": true, "evaluate_during_training_steps": 0, "evaluate_during_training_verbose": true, "evaluate_each_epoch": true, "fp16": false, "gradient_accumulation_steps": 1, "learning_rate": 4e-05, "local_rank": -1, "logging_steps": 50, "manual_seed": null, "max_grad_norm": 1.0, "max_seq_length": 128, "model_name": "dmis-lab/biobert-base-cased-v1.1", "model_type": "bert", "multiprocessing_chunksize": -1, "n_gpu": 1, "no_cache": false, "no_save": false, "not_saved_args": [], "num_train_epochs": 12, "optimizer": "AdamW", "output_dir": "output/", "overwrite_output_dir": true, "polynomial_decay_schedule_lr_end": 1e-07, "polynomial_decay_schedule_power": 1.0, "process_count": 6, "quantized_model": false, "reprocess_input_data": true, "save_best_model": true, "save_eval_checkpoints": true, "save_model_every_epoch": true, "save_optimizer_and_scheduler": true, "save_steps": -1, "scheduler": "linear_schedule_with_warmup", "silent": false, "skip_special_tokens": true, "tensorboard_dir": null, "thread_count": null, "tokenizer_name": "dmis-lab/biobert-base-cased-v1.1", "tokenizer_type": null, "train_batch_size": 50, "train_custom_parameters_only": false, "use_cached_eval_features": false, "use_early_stopping": false, "use_hf_datasets": false, "use_multiprocessing": true, "use_multiprocessing_for_evaluation": true, "wandb_kwargs": {}, "wandb_project": null, "warmup_ratio": 0.06, "warmup_steps": 10273, "weight_decay": 0.0, "model_class": "LanguageModelingModel", "block_size": 128, "config_name": null, "dataset_class": null, "dataset_type": "simple", "discriminator_config": {}, "discriminator_loss_weight": 50.0, "generator_config": {}, "max_steps": -1, "min_frequency": 2, "mlm": true, "mlm_probability": 0.15, "sliding_window": true, "special_tokens": ["<s>", "<pad>", "</s>", "<unk>", "<mask>"], "stride": 0.8, "tie_generator_and_discriminator_embeddings": true, "vocab_size": null, "clean_text": true, "handle_chinese_chars": true, "special_tokens_list": [], "strip_accents": true}

optimizer.pt

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:70986ad41d1dda2fab0b944f410621d650a88aee462d35d9ed3083e2c4f53ba5
+size 866850306

pytorch_model.bin

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:a98468e202e22c2ad487fc1ca71054bcc8cebfd937568111b889d4202e4fc73c
+size 433451291

scheduler.pt

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:0db20f3b6ea2e685c3b5d072bb0da9218d41be18fbbf8f63838e5e664c557e7f
+size 623

special_tokens_map.json

@@ -0,0 +1 @@
+{"unk_token": "[UNK]", "sep_token": "[SEP]", "pad_token": "[PAD]", "cls_token": "[CLS]", "mask_token": "[MASK]"}

tokenizer_config.json

@@ -0,0 +1 @@
+{"do_lower_case": true, "do_basic_tokenize": true, "never_split": null, "unk_token": "[UNK]", "sep_token": "[SEP]", "pad_token": "[PAD]", "cls_token": "[CLS]", "mask_token": "[MASK]", "tokenize_chinese_chars": true, "strip_accents": null, "special_tokens_map_file": null, "tokenizer_file": null, "name_or_path": "dmis-lab/biobert-base-cased-v1.1"}

training_args.bin

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:14fb6dda9531072029d118c005b8864abd0bc09d1a1afd0061dccf64a963ab76
+size 3375