From ccb1d35ae984ba6c2824c6c92d6e9cb723c14c34 Mon Sep 17 00:00:00 2001 From: ModelHub XC Date: Thu, 30 Jul 2026 06:02:19 +0800 Subject: [PATCH] =?UTF-8?q?=E5=88=9D=E5=A7=8B=E5=8C=96=E9=A1=B9=E7=9B=AE?= =?UTF-8?q?=EF=BC=8C=E7=94=B1ModelHub=20XC=E7=A4=BE=E5=8C=BA=E6=8F=90?= =?UTF-8?q?=E4=BE=9B=E6=A8=A1=E5=9E=8B?= MIME-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit Model: TimKond/S-BioLinkBert-MedQuAD Source: Original Platform --- .gitattributes | 29 + 1_Pooling/config.json | 7 + README.md | 125 + config.json | 26 + config_sentence_transformers.json | 7 + model.safetensors | 3 + modules.json | 14 + pytorch_model.bin | 3 + sentence_bert_config.json | 4 + special_tokens_map.json | 1 + tokenizer.json | 1 + tokenizer_config.json | 1 + vocab.txt | 28895 ++++++++++++++++++++++++++++ 13 files changed, 29116 insertions(+) create mode 100644 .gitattributes create mode 100644 1_Pooling/config.json create mode 100644 README.md create mode 100644 config.json create mode 100644 config_sentence_transformers.json create mode 100644 model.safetensors create mode 100644 modules.json create mode 100644 pytorch_model.bin create mode 100644 sentence_bert_config.json create mode 100644 special_tokens_map.json create mode 100644 tokenizer.json create mode 100644 tokenizer_config.json create mode 100644 vocab.txt diff --git a/.gitattributes b/.gitattributes new file mode 100644 index 0000000..6a1f263 --- /dev/null +++ b/.gitattributes @@ -0,0 +1,29 @@ +*.7z filter=lfs diff=lfs merge=lfs -text +*.arrow filter=lfs diff=lfs merge=lfs -text +*.bin filter=lfs diff=lfs merge=lfs -text +*.bz2 filter=lfs diff=lfs merge=lfs -text +*.ftz filter=lfs diff=lfs merge=lfs -text +*.gz filter=lfs diff=lfs merge=lfs -text +*.h5 filter=lfs diff=lfs merge=lfs -text +*.joblib filter=lfs diff=lfs merge=lfs -text +*.lfs.* filter=lfs diff=lfs merge=lfs -text +*.model filter=lfs diff=lfs merge=lfs -text +*.msgpack filter=lfs diff=lfs merge=lfs -text +*.onnx filter=lfs diff=lfs merge=lfs -text +*.ot filter=lfs diff=lfs merge=lfs -text +*.parquet filter=lfs diff=lfs merge=lfs -text +*.pb filter=lfs diff=lfs merge=lfs -text +*.pt filter=lfs diff=lfs merge=lfs -text +*.pth filter=lfs diff=lfs merge=lfs -text +*.rar filter=lfs diff=lfs merge=lfs -text +saved_model/**/* filter=lfs diff=lfs merge=lfs -text +*.tar.* filter=lfs diff=lfs merge=lfs -text +*.tflite filter=lfs diff=lfs merge=lfs -text +*.tgz filter=lfs diff=lfs merge=lfs -text +*.wasm filter=lfs diff=lfs merge=lfs -text +*.xz filter=lfs diff=lfs merge=lfs -text +*.zip filter=lfs diff=lfs merge=lfs -text +*.zstandard filter=lfs diff=lfs merge=lfs -text +*tfevents* filter=lfs diff=lfs merge=lfs -text +pytorch_model.bin filter=lfs diff=lfs merge=lfs -text +model.safetensors filter=lfs diff=lfs merge=lfs -text diff --git a/1_Pooling/config.json b/1_Pooling/config.json new file mode 100644 index 0000000..4e09f29 --- /dev/null +++ b/1_Pooling/config.json @@ -0,0 +1,7 @@ +{ + "word_embedding_dimension": 768, + "pooling_mode_cls_token": false, + "pooling_mode_mean_tokens": true, + "pooling_mode_max_tokens": false, + "pooling_mode_mean_sqrt_len_tokens": false +} \ No newline at end of file diff --git a/README.md b/README.md new file mode 100644 index 0000000..d678f16 --- /dev/null +++ b/README.md @@ -0,0 +1,125 @@ +--- +pipeline_tag: sentence-similarity +tags: +- sentence-transformers +- feature-extraction +- sentence-similarity +- transformers +--- + +# TimKond/S-BioLinkBert-MedQuAD + +This is a [sentence-transformers](https://www.SBERT.net) model: It maps sentences & paragraphs to a 768 dimensional dense vector space and can be used for tasks like clustering or semantic search. + + + +## Usage (Sentence-Transformers) + +Using this model becomes easy when you have [sentence-transformers](https://www.SBERT.net) installed: + +``` +pip install -U sentence-transformers +``` + +Then you can use the model like this: + +```python +from sentence_transformers import SentenceTransformer +sentences = ["This is an example sentence", "Each sentence is converted"] + +model = SentenceTransformer('TimKond/S-BioLinkBert-MedQuAD') +embeddings = model.encode(sentences) +print(embeddings) +``` + + + +## Usage (HuggingFace Transformers) +Without [sentence-transformers](https://www.SBERT.net), you can use the model like this: First, you pass your input through the transformer model, then you have to apply the right pooling-operation on-top of the contextualized word embeddings. + +```python +from transformers import AutoTokenizer, AutoModel +import torch + + +#Mean Pooling - Take attention mask into account for correct averaging +def mean_pooling(model_output, attention_mask): + token_embeddings = model_output[0] #First element of model_output contains all token embeddings + input_mask_expanded = attention_mask.unsqueeze(-1).expand(token_embeddings.size()).float() + return torch.sum(token_embeddings * input_mask_expanded, 1) / torch.clamp(input_mask_expanded.sum(1), min=1e-9) + + +# Sentences we want sentence embeddings for +sentences = ['This is an example sentence', 'Each sentence is converted'] + +# Load model from HuggingFace Hub +tokenizer = AutoTokenizer.from_pretrained('TimKond/S-BioLinkBert-MedQuAD') +model = AutoModel.from_pretrained('TimKond/S-BioLinkBert-MedQuAD') + +# Tokenize sentences +encoded_input = tokenizer(sentences, padding=True, truncation=True, return_tensors='pt') + +# Compute token embeddings +with torch.no_grad(): + model_output = model(**encoded_input) + +# Perform pooling. In this case, mean pooling. +sentence_embeddings = mean_pooling(model_output, encoded_input['attention_mask']) + +print("Sentence embeddings:") +print(sentence_embeddings) +``` + + + +## Evaluation Results + + + +For an automated evaluation of this model, see the *Sentence Embeddings Benchmark*: [https://seb.sbert.net](https://seb.sbert.net?model_name=TimKond/S-BioLinkBert-MedQuAD) + + +## Training +The model was trained with the parameters: + +**DataLoader**: + +`torch.utils.data.dataloader.DataLoader` of length 17595 with parameters: +``` +{'batch_size': 4, 'sampler': 'torch.utils.data.sampler.RandomSampler', 'batch_sampler': 'torch.utils.data.sampler.BatchSampler'} +``` + +**Loss**: + +`sentence_transformers.losses.SoftmaxLoss.SoftmaxLoss` + +Parameters of the fit()-Method: +``` +{ + "epochs": 1, + "evaluation_steps": 0, + "evaluator": "NoneType", + "max_grad_norm": 1, + "optimizer_class": "", + "optimizer_params": { + "lr": 2e-05 + }, + "scheduler": "WarmupLinear", + "steps_per_epoch": null, + "warmup_steps": 7037, + "weight_decay": 0.01 +} +``` + + +## Full Model Architecture +``` +SentenceTransformer( + (0): Transformer({'max_seq_length': 512, 'do_lower_case': False}) with Transformer model: BertModel + (1): Pooling({'word_embedding_dimension': 768, 'pooling_mode_cls_token': False, 'pooling_mode_mean_tokens': True, 'pooling_mode_max_tokens': False, 'pooling_mode_mean_sqrt_len_tokens': False}) +) +``` + +## Citing & Authors + + \ No newline at end of file diff --git a/config.json b/config.json new file mode 100644 index 0000000..37c07e5 --- /dev/null +++ b/config.json @@ -0,0 +1,26 @@ +{ + "_name_or_path": "S-BioLinkBERT-MedQuAD/final\\", + "architectures": [ + "BertModel" + ], + "attention_probs_dropout_prob": 0.1, + "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, + 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