Upload model and tokenizer

added_tokens.json

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+{
+  "<|graph_token|>": 50257,
+  "<|stop_token|>": 50258
+}

config.json

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+{
+  "_name_or_path": "prot2text_base",
+  "prot2text_version": "1.0",
+  "architectures": [
+    "Prot2TextModel"
+  ],
+  "auto_map": {
+    "AutoConfig": "configuration_prot2text.Prot2TextConfig",
+    "AutoModel": "modeling_prot2text.Prot2TextModel",
+    "AutoModelForCausalLM": "modeling_prot2text.Prot2TextModel"
+  },
+  "model_type": "prot2text",
+  "bos_token_id": 50257,
+  "cross_esm_graph": true,
+  "decoder_start_token_id": 50257,
+  "early_stopping": true,
+  "eos_token_id": 50258,
+  "esm": true,
+  "esm_config": {
+    "_name_or_path": "facebook/esm2_t12_35M_UR50D",
+    "add_cross_attention": false,
+    "architectures": [
+      "EsmForMaskedLM"
+    ],
+    "attention_probs_dropout_prob": 0.0,
+    "bad_words_ids": null,
+    "begin_suppress_tokens": null,
+    "bos_token_id": null,
+    "chunk_size_feed_forward": 0,
+    "classifier_dropout": null,
+    "cross_attention_hidden_size": null,
+    "decoder_start_token_id": null,
+    "diversity_penalty": 0.0,
+    "do_sample": false,
+    "early_stopping": false,
+    "emb_layer_norm_before": false,
+    "encoder_no_repeat_ngram_size": 0,
+    "eos_token_id": null,
+    "esmfold_config": null,
+    "exponential_decay_length_penalty": null,
+    "finetuning_task": null,
+    "forced_bos_token_id": null,
+    "forced_eos_token_id": null,
+    "hidden_act": "gelu",
+    "hidden_dropout_prob": 0.0,
+    "hidden_size": 480,
+    "id2label": {
+      "0": "LABEL_0",
+      "1": "LABEL_1"
+    },
+    "initializer_range": 0.02,
+    "intermediate_size": 1920,
+    "is_decoder": false,
+    "is_encoder_decoder": false,
+    "is_folding_model": false,
+    "label2id": {
+      "LABEL_0": 0,
+      "LABEL_1": 1
+    },
+    "layer_norm_eps": 1e-05,
+    "length_penalty": 1.0,
+    "mask_token_id": 32,
+    "max_length": 20,
+    "max_position_embeddings": 1026,
+    "min_length": 0,
+    "model_type": "esm",
+    "no_repeat_ngram_size": 0,
+    "num_attention_heads": 20,
+    "num_beam_groups": 1,
+    "num_beams": 1,
+    "num_hidden_layers": 12,
+    "num_return_sequences": 1,
+    "output_attentions": false,
+    "output_hidden_states": false,
+    "output_scores": false,
+    "pad_token_id": 1,
+    "position_embedding_type": "rotary",
+    "prefix": null,
+    "problem_type": null,
+    "pruned_heads": {},
+    "remove_invalid_values": false,
+    "repetition_penalty": 1.0,
+    "return_dict": true,
+    "return_dict_in_generate": false,
+    "sep_token_id": null,
+    "suppress_tokens": null,
+    "task_specific_params": null,
+    "temperature": 1.0,
+    "tf_legacy_loss": false,
+    "tie_encoder_decoder": false,
+    "tie_word_embeddings": true,
+    "token_dropout": true,
+    "tokenizer_class": null,
+    "top_k": 50,
+    "top_p": 1.0,
+    "torch_dtype": "float32",
+    "torchscript": false,
+    "transformers_version": "4.30.1",
+    "typical_p": 1.0,
+    "use_bfloat16": false,
+    "use_cache": true,
+    "vocab_list": null,
+    "vocab_size": 33
+  },
+  "esm_model_name": "facebook/esm2_t12_35M_UR50D",
+  "gpt_config": {
+    "_name_or_path": "gpt2",
+    "prot2text_version": "1.0",
+    "activation_function": "gelu_new",
+    "add_cross_attention": true,
+    "architectures": [
+      "GPT2LMHeadModel"
+    ],
+    "attn_pdrop": 0.1,
+    "bad_words_ids": null,
+    "begin_suppress_tokens": null,
+    "bos_token_id": 50257,
+    "chunk_size_feed_forward": 0,
+    "cross_attention_hidden_size": null,
+    "decoder_start_token_id": 50257,
+    "diversity_penalty": 0.0,
+    "do_sample": false,
+    "early_stopping": false,
+    "embd_pdrop": 0.1,
+    "encoder_no_repeat_ngram_size": 0,
+    "eos_token_id": 50258,
+    "exponential_decay_length_penalty": null,
+    "finetuning_task": null,
+    "forced_bos_token_id": null,
+    "forced_eos_token_id": null,
+    "id2label": {
+      "0": "LABEL_0",
+      "1": "LABEL_1"
+    },
+    "initializer_range": 0.02,
+    "is_decoder": false,
+    "is_encoder_decoder": true,
+    "label2id": {
+      "LABEL_0": 0,
+      "LABEL_1": 1
+    },
+    "layer_norm_epsilon": 1e-05,
+    "length_penalty": 1.0,
+    "max_length": 256,
+    "max_new_tokens": 256,
+    "min_length": 0,
+    "model_type": "gpt2",
+    "n_ctx": 1024,
+    "n_embd": 768,
+    "n_head": 12,
+    "n_inner": null,
+    "n_layer": 12,
+    "n_positions": 1024,
+    "no_repeat_ngram_size": 0,
+    "num_beam_groups": 1,
+    "num_beams": 1,
+    "num_return_sequences": 1,
+    "output_attentions": false,
+    "output_hidden_states": false,
+    "output_scores": false,
+    "pad_token_id": 50256,
+    "prefix": null,
+    "problem_type": null,
+    "pruned_heads": {},
+    "remove_invalid_values": false,
+    "reorder_and_upcast_attn": false,
+    "repetition_penalty": 1.0,
+    "resid_pdrop": 0.1,
+    "return_dict": true,
+    "return_dict_in_generate": false,
+    "scale_attn_by_inverse_layer_idx": false,
+    "scale_attn_weights": true,
+    "sep_token_id": null,
+    "summary_activation": null,
+    "summary_first_dropout": 0.1,
+    "summary_proj_to_labels": true,
+    "summary_type": "cls_index",
+    "summary_use_proj": true,
+    "suppress_tokens": null,
+    "task_specific_params": {
+      "text-generation": {
+        "do_sample": true,
+        "max_length": 50
+      }
+    },
+    "temperature": 1.0,
+    "tf_legacy_loss": false,
+    "tie_encoder_decoder": false,
+    "tie_word_embeddings": true,
+    "tokenizer_class": null,
+    "top_k": 50,
+    "top_p": 1.0,
+    "torch_dtype": null,
+    "torchscript": false,
+    "transformers_version": "4.30.1",
+    "typical_p": 1.0,
+    "use_bfloat16": false,
+    "use_cache": true,
+    "vocab_size": 50259
+  },
+  "gpt_model_name": "gpt2",
+  "length_penalty": 2.0,
+  "max_new_tokens": 256,
+  "no_repeat_ngram_size": 3,
+  "num_beams": 4,
+  "pad_token_id": 50256,
+  "rgcn": true,
+  "rgcn_input_dim": 67,
+  "rgcn_n_layers": 6,
+  "torch_dtype": "float32",
+  "transformers_version": "4.30.1"
+}

pytorch_model.bin

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+version https://git-lfs.github.com/spec/v1
+oid sha256:bf23e4802327fb3ad0ea6ed96408d891d141877f3deabf84b20e6c474d017805
+size 1134912129

special_tokens_map.json

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+{
+  "bos_token": "<|graph_token|>",
+  "eos_token": "<|stop_token|>",
+  "pad_token": "<|endoftext|>",
+  "unk_token": {
+    "content": "<|endoftext|>",
+    "lstrip": false,
+    "normalized": true,
+    "rstrip": false,
+    "single_word": false
+  }
+}

tokenizer_config.json

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+{
+  "add_bos_token": false,
+  "add_prefix_space": false,
+  "bos_token": {
+    "__type": "AddedToken",
+    "content": "<|endoftext|>",
+    "lstrip": false,
+    "normalized": true,
+    "rstrip": false,
+    "single_word": false
+  },
+  "clean_up_tokenization_spaces": true,
+  "eos_token": {
+    "__type": "AddedToken",
+    "content": "<|endoftext|>",
+    "lstrip": false,
+    "normalized": true,
+    "rstrip": false,
+    "single_word": false
+  },
+  "errors": "replace",
+  "model_max_length": 1024,
+  "pad_token": null,
+  "tokenizer_class": "GPT2Tokenizer",
+  "unk_token": {
+    "__type": "AddedToken",
+    "content": "<|endoftext|>",
+    "lstrip": false,
+    "normalized": true,
+    "rstrip": false,
+    "single_word": false
+  }
+}