pfam_10k_seq

README.md

@@ -0,0 +1,70 @@
+---
+license: mit
+base_model: facebook/esm2_t33_650M_UR50D
+tags:
+- generated_from_trainer
+metrics:
+- accuracy
+model-index:
+- name: esm2_t33_650M_UR50D-10k-uniprot-classification
+  results: []
+---
+
+<!-- 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. -->
+
+# esm2_t33_650M_UR50D-10k-uniprot-classification
+
+This model is a fine-tuned version of [facebook/esm2_t33_650M_UR50D](https://huggingface.co/facebook/esm2_t33_650M_UR50D) on the None dataset.
+It achieves the following results on the evaluation set:
+- Loss: 0.7889
+- Accuracy: 0.8340
+
+## 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
+- gradient_accumulation_steps: 16
+- total_train_batch_size: 128
+- optimizer: Adam with betas=(0.9,0.999) and epsilon=1e-08
+- lr_scheduler_type: linear
+- num_epochs: 9
+
+### Training results
+
+| Training Loss | Epoch  | Step | Validation Loss | Accuracy |
+|:-------------:|:------:|:----:|:---------------:|:--------:|
+| No log        | 0.9948 | 60   | 2.4675          | 0.4405   |
+| No log        | 1.9896 | 120  | 1.7231          | 0.6466   |
+| No log        | 2.9845 | 180  | 1.3287          | 0.7403   |
+| No log        | 3.9959 | 241  | 1.0992          | 0.7842   |
+| No log        | 4.9907 | 301  | 0.9519          | 0.8169   |
+| No log        | 5.9855 | 361  | 0.8688          | 0.8200   |
+| No log        | 6.9969 | 422  | 0.8178          | 0.8309   |
+| No log        | 7.9917 | 482  | 0.7947          | 0.8332   |
+| 1.1149        | 8.9534 | 540  | 0.7889          | 0.8340   |
+
+
+### Framework versions
+
+- Transformers 4.40.2
+- Pytorch 2.3.0+cu121
+- Datasets 2.19.1
+- Tokenizers 0.19.1

config.json

@@ -0,0 +1,121 @@
+{
+  "_name_or_path": "facebook/esm2_t33_650M_UR50D",
+  "architectures": [
+    "EsmForSequenceClassification"
+  ],
+  "attention_probs_dropout_prob": 0.0,
+  "classifier_dropout": null,
+  "emb_layer_norm_before": false,
+  "esmfold_config": null,
+  "hidden_act": "gelu",
+  "hidden_dropout_prob": 0.0,
+  "hidden_size": 1280,
+  "id2label": {
+    "0": "LABEL_0",
+    "1": "LABEL_1",
+    "2": "LABEL_2",
+    "3": "LABEL_3",
+    "4": "LABEL_4",
+    "5": "LABEL_5",
+    "6": "LABEL_6",
+    "7": "LABEL_7",
+    "8": "LABEL_8",
+    "9": "LABEL_9",
+    "10": "LABEL_10",
+    "11": "LABEL_11",
+    "12": "LABEL_12",
+    "13": "LABEL_13",
+    "14": "LABEL_14",
+    "15": "LABEL_15",
+    "16": "LABEL_16",
+    "17": "LABEL_17",
+    "18": "LABEL_18",
+    "19": "LABEL_19",
+    "20": "LABEL_20",
+    "21": "LABEL_21",
+    "22": "LABEL_22",
+    "23": "LABEL_23",
+    "24": "LABEL_24",
+    "25": "LABEL_25",
+    "26": "LABEL_26",
+    "27": "LABEL_27",
+    "28": "LABEL_28",
+    "29": "LABEL_29",
+    "30": "LABEL_30",
+    "31": "LABEL_31",
+    "32": "LABEL_32",
+    "33": "LABEL_33",
+    "34": "LABEL_34",
+    "35": "LABEL_35",
+    "36": "LABEL_36",
+    "37": "LABEL_37",
+    "38": "LABEL_38",
+    "39": "LABEL_39",
+    "40": "LABEL_40",
+    "41": "LABEL_41",
+    "42": "LABEL_42"
+  },
+  "initializer_range": 0.02,
+  "intermediate_size": 5120,
+  "is_folding_model": false,
+  "label2id": {
+    "LABEL_0": 0,
+    "LABEL_1": 1,
+    "LABEL_10": 10,
+    "LABEL_11": 11,
+    "LABEL_12": 12,
+    "LABEL_13": 13,
+    "LABEL_14": 14,
+    "LABEL_15": 15,
+    "LABEL_16": 16,
+    "LABEL_17": 17,
+    "LABEL_18": 18,
+    "LABEL_19": 19,
+    "LABEL_2": 2,
+    "LABEL_20": 20,
+    "LABEL_21": 21,
+    "LABEL_22": 22,
+    "LABEL_23": 23,
+    "LABEL_24": 24,
+    "LABEL_25": 25,
+    "LABEL_26": 26,
+    "LABEL_27": 27,
+    "LABEL_28": 28,
+    "LABEL_29": 29,
+    "LABEL_3": 3,
+    "LABEL_30": 30,
+    "LABEL_31": 31,
+    "LABEL_32": 32,
+    "LABEL_33": 33,
+    "LABEL_34": 34,
+    "LABEL_35": 35,
+    "LABEL_36": 36,
+    "LABEL_37": 37,
+    "LABEL_38": 38,
+    "LABEL_39": 39,
+    "LABEL_4": 4,
+    "LABEL_40": 40,
+    "LABEL_41": 41,
+    "LABEL_42": 42,
+    "LABEL_5": 5,
+    "LABEL_6": 6,
+    "LABEL_7": 7,
+    "LABEL_8": 8,
+    "LABEL_9": 9
+  },
+  "layer_norm_eps": 1e-05,
+  "mask_token_id": 32,
+  "max_position_embeddings": 1026,
+  "model_type": "esm",
+  "num_attention_heads": 20,
+  "num_hidden_layers": 33,
+  "pad_token_id": 1,
+  "position_embedding_type": "rotary",
+  "problem_type": "single_label_classification",
+  "token_dropout": true,
+  "torch_dtype": "float32",
+  "transformers_version": "4.40.2",
+  "use_cache": true,
+  "vocab_list": null,
+  "vocab_size": 33
+}

model.safetensors

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:b2a85a3560e4e5bd4c749dd029d0adf8ab019b47c66652dcee4152ebee85b010
+size 2609707984

special_tokens_map.json

@@ -0,0 +1,7 @@
+{
+  "cls_token": "<cls>",
+  "eos_token": "<eos>",
+  "mask_token": "<mask>",
+  "pad_token": "<pad>",
+  "unk_token": "<unk>"
+}

tokenizer_config.json

@@ -0,0 +1,52 @@
+{
+  "added_tokens_decoder": {
+    "0": {
+      "content": "<cls>",
+      "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": "<eos>",
+      "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
+    },
+    "32": {
+      "content": "<mask>",
+      "lstrip": false,
+      "normalized": false,
+      "rstrip": false,
+      "single_word": false,
+      "special": true
+    }
+  },
+  "clean_up_tokenization_spaces": true,
+  "cls_token": "<cls>",
+  "eos_token": "<eos>",
+  "mask_token": "<mask>",
+  "model_max_length": 1000000000000000019884624838656,
+  "pad_token": "<pad>",
+  "tokenizer_class": "EsmTokenizer",
+  "unk_token": "<unk>"
+}

training_args.bin

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:a76daa5ae56f5fa95707c1d662a3ba6bb66b5b97acea4cb796ec55c52a1fc9ee
+size 5048

vocab.txt

@@ -0,0 +1,33 @@
+<cls>
+<pad>
+<eos>
+<unk>
+L
+A
+G
+V
+S
+E
+R
+T
+I
+D
+P
+K
+Q
+N
+F
+Y
+M
+H
+W
+C
+X
+B
+U
+Z
+O
+.
+-
+<null_1>
+<mask>