mevol's picture
adding core files for protein structure model v1.2
118b9e7
{
"_name_or_path": "microsoft/BiomedNLP-PubMedBERT-base-uncased-abstract-fulltext",
"architectures": [
"BertForTokenClassification"
],
"attention_probs_dropout_prob": 0.1,
"classifier_dropout": null,
"hidden_act": "gelu",
"hidden_dropout_prob": 0.1,
"hidden_size": 768,
"id2label": {
"0": "O",
"1": "B-chemical",
"2": "B-species",
"3": "B-gene",
"4": "I-gene",
"5": "B-taxonomy_domain",
"6": "B-experimental_method",
"7": "I-experimental_method",
"8": "B-protein_type",
"9": "I-protein_type",
"10": "I-species",
"11": "B-evidence",
"12": "I-evidence",
"13": "B-protein",
"14": "I-protein",
"15": "B-protein_state",
"16": "B-site",
"17": "I-site",
"18": "I-chemical",
"19": "B-complex_assembly",
"20": "I-complex_assembly",
"21": "I-protein_state",
"22": "B-ptm",
"23": "B-mutant",
"24": "I-mutant",
"25": "B-structure_element",
"26": "I-structure_element",
"27": "B-residue_range",
"28": "I-residue_range",
"29": "B-residue_name_number",
"30": "B-residue_name",
"31": "I-taxonomy_domain",
"32": "B-oligomeric_state",
"33": "I-oligomeric_state",
"34": "B-residue_number",
"35": "I-ptm",
"36": "I-residue_name_number",
"37": "I-residue_number"
},
"initializer_range": 0.02,
"intermediate_size": 3072,
"label2id": {
"B-chemical": 1,
"B-complex_assembly": 19,
"B-evidence": 11,
"B-experimental_method": 6,
"B-gene": 3,
"B-mutant": 23,
"B-oligomeric_state": 32,
"B-protein": 13,
"B-protein_state": 15,
"B-protein_type": 8,
"B-ptm": 22,
"B-residue_name": 30,
"B-residue_name_number": 29,
"B-residue_number": 34,
"B-residue_range": 27,
"B-site": 16,
"B-species": 2,
"B-structure_element": 25,
"B-taxonomy_domain": 5,
"I-chemical": 18,
"I-complex_assembly": 20,
"I-evidence": 12,
"I-experimental_method": 7,
"I-gene": 4,
"I-mutant": 24,
"I-oligomeric_state": 33,
"I-protein": 14,
"I-protein_state": 21,
"I-protein_type": 9,
"I-ptm": 35,
"I-residue_name_number": 36,
"I-residue_number": 37,
"I-residue_range": 28,
"I-site": 17,
"I-species": 10,
"I-structure_element": 26,
"I-taxonomy_domain": 31,
"O": 0
},
"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",
"torch_dtype": "float32",
"transformers_version": "4.28.0",
"type_vocab_size": 2,
"use_cache": true,
"vocab_size": 30522
}