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config.json

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+{
+  "_name_or_path": "/hps/nobackup/rdf/metagenomics/research-team/santiago/softw/trapiche_text/trapiche_text/data/multi_label_training/temp/domain_adapt_benchmark/microsoft-BiomedNLP-BiomedBERT-base-uncased-abstract-fulltext-study-8_cv_fold-1/checkpoint-16200/",
+  "architectures": [
+    "BertForSequenceClassification"
+  ],
+  "attention_probs_dropout_prob": 0.1,
+  "classifier_dropout": null,
+  "hidden_act": "gelu",
+  "hidden_dropout_prob": 0.1,
+  "hidden_size": 768,
+  "id2label": {
+    "0": "root:Engineered:Biogas plant",
+    "1": "root:Engineered:Bioreactor",
+    "10": "root:Engineered:Solid waste",
+    "11": "root:Engineered:Wastewater",
+    "12": "root:Environmental:Air",
+    "13": "root:Environmental:Aquatic:Aquaculture",
+    "14": "root:Environmental:Aquatic:Estuary",
+    "15": "root:Environmental:Aquatic:Freshwater",
+    "16": "root:Environmental:Aquatic:Lentic",
+    "17": "root:Environmental:Aquatic:Marine",
+    "18": "root:Environmental:Aquatic:Meromictic lake",
+    "19": "root:Environmental:Aquatic:Non-marine Saline and Alkaline",
+    "2": "root:Engineered:Bioremediation",
+    "20": "root:Environmental:Aquatic:Sediment",
+    "21": "root:Environmental:Aquatic:Thermal springs",
+    "22": "root:Environmental:Terrestrial:Agricultural field",
+    "23": "root:Environmental:Terrestrial:Asphalt lakes",
+    "24": "root:Environmental:Terrestrial:Deep subsurface",
+    "25": "root:Environmental:Terrestrial:Geologic",
+    "26": "root:Environmental:Terrestrial:Oil reservoir",
+    "27": "root:Environmental:Terrestrial:Rock-dwelling (subaerial biofilm)",
+    "28": "root:Environmental:Terrestrial:Soil",
+    "29": "root:Environmental:Terrestrial:Volcanic",
+    "3": "root:Engineered:Biotransformation",
+    "30": "root:Host-associated:Algae",
+    "31": "root:Host-associated:Amphibia",
+    "32": "root:Host-associated:Animal",
+    "33": "root:Host-associated:Annelida",
+    "34": "root:Host-associated:Arthropoda",
+    "35": "root:Host-associated:Birds",
+    "36": "root:Host-associated:Cnidaria",
+    "37": "root:Host-associated:Echinodermata",
+    "38": "root:Host-associated:Endosymbionts",
+    "39": "root:Host-associated:Fish",
+    "4": "root:Engineered:Built environment",
+    "40": "root:Host-associated:Fungi",
+    "41": "root:Host-associated:Human",
+    "42": "root:Host-associated:Insecta",
+    "43": "root:Host-associated:Mammals",
+    "44": "root:Host-associated:Microbial",
+    "45": "root:Host-associated:Mollusca",
+    "46": "root:Host-associated:Plants",
+    "47": "root:Host-associated:Porifera",
+    "48": "root:Host-associated:Protists",
+    "49": "root:Host-associated:Protozoa",
+    "5": "root:Engineered:Food production",
+    "50": "root:Host-associated:Reptile",
+    "51": "root:Host-associated:Spiralia",
+    "52": "root:Host-associated:Tunicates",
+    "6": "root:Engineered:Industrial production",
+    "7": "root:Engineered:Lab Synthesis",
+    "8": "root:Engineered:Lab enrichment",
+    "9": "root:Engineered:Modeled"
+  },
+  "initializer_range": 0.02,
+  "intermediate_size": 3072,
+  "label2id": {
+    "root:Engineered:Biogas plant": "0",
+    "root:Engineered:Bioreactor": "1",
+    "root:Engineered:Bioremediation": "2",
+    "root:Engineered:Biotransformation": "3",
+    "root:Engineered:Built environment": "4",
+    "root:Engineered:Food production": "5",
+    "root:Engineered:Industrial production": "6",
+    "root:Engineered:Lab Synthesis": "7",
+    "root:Engineered:Lab enrichment": "8",
+    "root:Engineered:Modeled": "9",
+    "root:Engineered:Solid waste": "10",
+    "root:Engineered:Wastewater": "11",
+    "root:Environmental:Air": "12",
+    "root:Environmental:Aquatic:Aquaculture": "13",
+    "root:Environmental:Aquatic:Estuary": "14",
+    "root:Environmental:Aquatic:Freshwater": "15",
+    "root:Environmental:Aquatic:Lentic": "16",
+    "root:Environmental:Aquatic:Marine": "17",
+    "root:Environmental:Aquatic:Meromictic lake": "18",
+    "root:Environmental:Aquatic:Non-marine Saline and Alkaline": "19",
+    "root:Environmental:Aquatic:Sediment": "20",
+    "root:Environmental:Aquatic:Thermal springs": "21",
+    "root:Environmental:Terrestrial:Agricultural field": "22",
+    "root:Environmental:Terrestrial:Asphalt lakes": "23",
+    "root:Environmental:Terrestrial:Deep subsurface": "24",
+    "root:Environmental:Terrestrial:Geologic": "25",
+    "root:Environmental:Terrestrial:Oil reservoir": "26",
+    "root:Environmental:Terrestrial:Rock-dwelling (subaerial biofilm)": "27",
+    "root:Environmental:Terrestrial:Soil": "28",
+    "root:Environmental:Terrestrial:Volcanic": "29",
+    "root:Host-associated:Algae": "30",
+    "root:Host-associated:Amphibia": "31",
+    "root:Host-associated:Animal": "32",
+    "root:Host-associated:Annelida": "33",
+    "root:Host-associated:Arthropoda": "34",
+    "root:Host-associated:Birds": "35",
+    "root:Host-associated:Cnidaria": "36",
+    "root:Host-associated:Echinodermata": "37",
+    "root:Host-associated:Endosymbionts": "38",
+    "root:Host-associated:Fish": "39",
+    "root:Host-associated:Fungi": "40",
+    "root:Host-associated:Human": "41",
+    "root:Host-associated:Insecta": "42",
+    "root:Host-associated:Mammals": "43",
+    "root:Host-associated:Microbial": "44",
+    "root:Host-associated:Mollusca": "45",
+    "root:Host-associated:Plants": "46",
+    "root:Host-associated:Porifera": "47",
+    "root:Host-associated:Protists": "48",
+    "root:Host-associated:Protozoa": "49",
+    "root:Host-associated:Reptile": "50",
+    "root:Host-associated:Spiralia": "51",
+    "root:Host-associated:Tunicates": "52"
+  },
+  "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": "multi_label_classification",
+  "torch_dtype": "float32",
+  "transformers_version": "4.48.3",
+  "type_vocab_size": 2,
+  "use_cache": true,
+  "vocab_size": 30522
+}

model.safetensors

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:77f8b5269a8a3dbc74c01b5572e4182e027c635b0a6d4f0de63a68692fe12249
+size 438115524

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 +1,62 @@
+{
+  "added_tokens_decoder": {
+    "0": {
+      "content": "[PAD]",
+      "lstrip": false,
+      "normalized": false,
+      "rstrip": false,
+      "single_word": false,
+      "special": true
+    },
+    "1": {
+      "content": "[UNK]",
+      "lstrip": false,
+      "normalized": false,
+      "rstrip": false,
+      "single_word": false,
+      "special": true
+    },
+    "2": {
+      "content": "[CLS]",
+      "lstrip": false,
+      "normalized": false,
+      "rstrip": false,
+      "single_word": false,
+      "special": true
+    },
+    "3": {
+      "content": "[SEP]",
+      "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": true,
+  "cls_token": "[CLS]",
+  "do_basic_tokenize": true,
+  "do_lower_case": true,
+  "extra_special_tokens": {},
+  "mask_token": "[MASK]",
+  "max_length": 256,
+  "model_max_length": 1000000000000000019884624838656,
+  "never_split": null,
+  "pad_token": "[PAD]",
+  "sep_token": "[SEP]",
+  "stride": 0,
+  "strip_accents": null,
+  "tokenize_chinese_chars": true,
+  "tokenizer_class": "BertTokenizer",
+  "truncation_side": "right",
+  "truncation_strategy": "longest_first",
+  "unk_token": "[UNK]"
+}