Upload folder using huggingface_hub

config.json

@@ -0,0 +1,34 @@
+{
+  "_name_or_path": "zhihan1996/DNABERT-2-117M",
+  "alibi_starting_size": 512,
+  "architectures": [
+    "BertForSequenceClassification"
+  ],
+  "attention_probs_dropout_prob": 0.0,
+  "auto_map": {
+    "AutoConfig": "zhihan1996/DNABERT-2-117M--configuration_bert.BertConfig",
+    "AutoModel": "zhihan1996/DNABERT-2-117M--bert_layers.BertModel",
+    "AutoModelForMaskedLM": "zhihan1996/DNABERT-2-117M--bert_layers.BertForMaskedLM",
+    "AutoModelForSequenceClassification": "zhihan1996/DNABERT-2-117M--bert_layers.BertForSequenceClassification"
+  },
+  "classifier_dropout": null,
+  "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",
+  "problem_type": "single_label_classification",
+  "torch_dtype": "float32",
+  "transformers_version": "4.45.2",
+  "type_vocab_size": 2,
+  "use_cache": true,
+  "vocab_size": 4096
+}

model.safetensors

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:cb03268b41e5fc83ff664a5ffd1a20abd3bef0b0345669f862a9f4ef71b1cb08
+size 468296408

optimizer_state_dict.pth

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:a81491ddc3ee6d8e9f2ac76e45211ffaf628bba6f7848c81c89049b65882b529
+size 936682546

special_tokens_map.json

@@ -0,0 +1,37 @@
+{
+  "cls_token": {
+    "content": "[CLS]",
+    "lstrip": false,
+    "normalized": false,
+    "rstrip": false,
+    "single_word": false
+  },
+  "mask_token": {
+    "content": "[MASK]",
+    "lstrip": false,
+    "normalized": false,
+    "rstrip": false,
+    "single_word": false
+  },
+  "pad_token": {
+    "content": "[PAD]",
+    "lstrip": false,
+    "normalized": false,
+    "rstrip": false,
+    "single_word": false
+  },
+  "sep_token": {
+    "content": "[SEP]",
+    "lstrip": false,
+    "normalized": false,
+    "rstrip": false,
+    "single_word": false
+  },
+  "unk_token": {
+    "content": "[UNK]",
+    "lstrip": false,
+    "normalized": false,
+    "rstrip": false,
+    "single_word": false
+  }
+}

tokenizer_config.json

@@ -0,0 +1,53 @@
+{
+  "added_tokens_decoder": {
+    "0": {
+      "content": "[UNK]",
+      "lstrip": false,
+      "normalized": false,
+      "rstrip": false,
+      "single_word": false,
+      "special": true
+    },
+    "1": {
+      "content": "[CLS]",
+      "lstrip": false,
+      "normalized": false,
+      "rstrip": false,
+      "single_word": false,
+      "special": true
+    },
+    "2": {
+      "content": "[SEP]",
+      "lstrip": false,
+      "normalized": false,
+      "rstrip": false,
+      "single_word": false,
+      "special": true
+    },
+    "3": {
+      "content": "[PAD]",
+      "lstrip": false,
+      "normalized": false,
+      "rstrip": false,
+      "single_word": false,
+      "special": true
+    },
+    "4": {
+      "content": "[MASK]",
+      "lstrip": false,
+      "normalized": false,
+      "rstrip": false,
+      "single_word": false,
+      "special": true
+    }
+  },
+  "clean_up_tokenization_spaces": false,
+  "cls_token": "[CLS]",
+  "mask_token": "[MASK]",
+  "model_max_length": 256,
+  "pad_token": "[PAD]",
+  "padding_side": "right",
+  "sep_token": "[SEP]",
+  "tokenizer_class": "PreTrainedTokenizerFast",
+  "unk_token": "[UNK]"
+}

trainer_state.json

@@ -0,0 +1,76 @@
+{
+  "best_metric": 0.4347880780696869,
+  "best_model_checkpoint": "output_pipe/prom_300_tata/origin/checkpoint-200",
+  "epoch": 4.0,
+  "eval_steps": 200,
+  "global_step": 308,
+  "is_hyper_param_search": false,
+  "is_local_process_zero": true,
+  "is_world_process_zero": true,
+  "log_history": [
+    {
+      "epoch": 1.2987012987012987,
+      "grad_norm": 4.515451431274414,
+      "learning_rate": 2.430232558139535e-05,
+      "loss": 0.6207,
+      "step": 100
+    },
+    {
+      "epoch": 2.5974025974025974,
+      "grad_norm": 4.365232944488525,
+      "learning_rate": 1.2674418604651162e-05,
+      "loss": 0.3888,
+      "step": 200
+    },
+    {
+      "epoch": 2.5974025974025974,
+      "eval_accuracy": 0.8205546492659054,
+      "eval_f1": 0.8202556884822894,
+      "eval_loss": 0.4347880780696869,
+      "eval_matthews_correlation": 0.6553752560745811,
+      "eval_precision": 0.8302537410540013,
+      "eval_recall": 0.8251414540407815,
+      "eval_runtime": 0.1466,
+      "eval_samples_per_second": 4180.453,
+      "eval_steps_per_second": 68.197,
+      "step": 200
+    },
+    {
+      "epoch": 3.896103896103896,
+      "grad_norm": 5.524959087371826,
+      "learning_rate": 1.0465116279069768e-06,
+      "loss": 0.2689,
+      "step": 300
+    },
+    {
+      "epoch": 4.0,
+      "step": 308,
+      "total_flos": 1019027759036928.0,
+      "train_loss": 0.4211000552425137,
+      "train_runtime": 21.1798,
+      "train_samples_per_second": 926.165,
+      "train_steps_per_second": 14.542
+    }
+  ],
+  "logging_steps": 100,
+  "max_steps": 308,
+  "num_input_tokens_seen": 0,
+  "num_train_epochs": 4,
+  "save_steps": 200,
+  "stateful_callbacks": {
+    "TrainerControl": {
+      "args": {
+        "should_epoch_stop": false,
+        "should_evaluate": false,
+        "should_log": false,
+        "should_save": true,
+        "should_training_stop": true
+      },
+      "attributes": {}
+    }
+  },
+  "total_flos": 1019027759036928.0,
+  "train_batch_size": 64,
+  "trial_name": null,
+  "trial_params": null
+}

training_args.bin

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:5ace837e8c9c1dfb950633e4ddb3516ec559f9a0fd500815c8b409ce48aca876
+size 5368