Upload folder using huggingface_hub

README.md

@@ -1,3 +1,388 @@
----
-license: apache-2.0
----
+---
+tags:
+- sentence-transformers
+- cross-encoder
+- reranker
+- generated_from_trainer
+- dataset_size:35474
+- loss:BinaryCrossEntropyLoss
+base_model: ncbi/MedCPT-Cross-Encoder
+pipeline_tag: text-ranking
+library_name: sentence-transformers
+metrics:
+- accuracy
+- accuracy_threshold
+- f1
+- f1_threshold
+- precision
+- recall
+- average_precision
+model-index:
+- name: CrossEncoder based on ncbi/MedCPT-Cross-Encoder
+  results:
+  - task:
+      type: cross-encoder-classification
+      name: Cross Encoder Classification
+    dataset:
+      name: anno test
+      type: anno_test
+    metrics:
+    - type: accuracy
+      value: 0.824009900990099
+      name: Accuracy
+    - type: accuracy_threshold
+      value: 0.9996383786201477
+      name: Accuracy Threshold
+    - type: f1
+      value: 0.3841536614645858
+      name: F1
+    - type: f1_threshold
+      value: 0.9992461800575256
+      name: F1 Threshold
+    - type: precision
+      value: 0.26981450252951095
+      name: Precision
+    - type: recall
+      value: 0.6666666666666666
+      name: Recall
+    - type: average_precision
+      value: 0.3289533283996273
+      name: Average Precision
+---
+
+# CrossEncoder based on ncbi/MedCPT-Cross-Encoder
+
+This is a [Cross Encoder](https://www.sbert.net/docs/cross_encoder/usage/usage.html) model finetuned from [ncbi/MedCPT-Cross-Encoder](https://huggingface.co/ncbi/MedCPT-Cross-Encoder) using the [sentence-transformers](https://www.SBERT.net) library. It computes scores for pairs of texts, which can be used for text reranking and semantic search.
+
+## Model Details
+
+### Model Description
+- **Model Type:** Cross Encoder
+- **Base model:** [ncbi/MedCPT-Cross-Encoder](https://huggingface.co/ncbi/MedCPT-Cross-Encoder) <!-- at revision 71caf65d4927987813984f54c284405a13fcca49 -->
+- **Maximum Sequence Length:** 512 tokens
+- **Number of Output Labels:** 1 label
+<!-- - **Training Dataset:** Unknown -->
+<!-- - **Language:** Unknown -->
+<!-- - **License:** Unknown -->
+
+### Model Sources
+
+- **Documentation:** [Sentence Transformers Documentation](https://sbert.net)
+- **Documentation:** [Cross Encoder Documentation](https://www.sbert.net/docs/cross_encoder/usage/usage.html)
+- **Repository:** [Sentence Transformers on GitHub](https://github.com/UKPLab/sentence-transformers)
+- **Hugging Face:** [Cross Encoders on Hugging Face](https://huggingface.co/models?library=sentence-transformers&other=cross-encoder)
+
+## Usage
+
+### Direct Usage (Sentence Transformers)
+
+First install the Sentence Transformers library:
+
+```bash
+pip install -U sentence-transformers
+```
+
+Then you can load this model and run inference.
+```python
+from sentence_transformers import CrossEncoder
+
+# Download from the 🤗 Hub
+model = CrossEncoder("cross_encoder_model_id")
+# Get scores for pairs of texts
+pairs = [
+    ['Its8, a fission yeast homolog of Mcd4 and Pig-n, is involved in GPI anchor synthesis and shares an essential function with calcineurin in cytokinesis. In fission yeast, calcineurin is required for cytokinesis and ion homeostasis; however, most of its physiological roles remain obscure. To identify genes that share an essential function with calcineurin, we screened for mutations that confer sensitivity to the calcineurin inhibitor FK506 and high temperature and isolated the mutant its8-1. its8(+) encodes a homolog of the budding yeast MCD4 and human Pig-n that are involved in glycosylphosphatidylinositol (GPI) anchor synthesis. Consistently, reduced inositol labeling of proteins suggested impaired GPI anchor synthesis in its8-1 mutants. The temperature upshift induced a further decrease in inositol labeling and caused dramatic increases in the frequency of septation in its8-1 mutants. BE49385A, an inhibitor of MCD4 and Pig-n, also increased the septation index of the wild-type cell. Osmotic stabilization suppressed these morphological defects, indicating that cell wall weakness caused by impaired GPI anchor synthesis resulted in abnormal cytokinesis. Furthermore, calcineurin-deleted cells exhibited hypersensitivity to BE49385A, and FK506 exacerbated the cytokinesis defects of the its8-1 mutant. Thus, calcineurin and Its8 may share an essential function in cytokinesis and cell viability through the regulation of cell wall integrity.', 'G2P01414 - PIGN - 606097.0 - HGNC:8967 - MCD4; PIG-N - PIGN-related multiple congenital anomalies-hypotonia-seizures syndrome - 614080 - nan - biallelic_autosomal - nan - definitive - absent gene product; altered gene product structure - inframe_insertion; missense_variant; inframe_deletion - undetermined - inferred'],
+    ['Its8, a fission yeast homolog of Mcd4 and Pig-n, is involved in GPI anchor synthesis and shares an essential function with calcineurin in cytokinesis. In fission yeast, calcineurin is required for cytokinesis and ion homeostasis; however, most of its physiological roles remain obscure. To identify genes that share an essential function with calcineurin, we screened for mutations that confer sensitivity to the calcineurin inhibitor FK506 and high temperature and isolated the mutant its8-1. its8(+) encodes a homolog of the budding yeast MCD4 and human Pig-n that are involved in glycosylphosphatidylinositol (GPI) anchor synthesis. Consistently, reduced inositol labeling of proteins suggested impaired GPI anchor synthesis in its8-1 mutants. The temperature upshift induced a further decrease in inositol labeling and caused dramatic increases in the frequency of septation in its8-1 mutants. BE49385A, an inhibitor of MCD4 and Pig-n, also increased the septation index of the wild-type cell. Osmotic stabilization suppressed these morphological defects, indicating that cell wall weakness caused by impaired GPI anchor synthesis resulted in abnormal cytokinesis. Furthermore, calcineurin-deleted cells exhibited hypersensitivity to BE49385A, and FK506 exacerbated the cytokinesis defects of the its8-1 mutant. Thus, calcineurin and Its8 may share an essential function in cytokinesis and cell viability through the regulation of cell wall integrity.', 'G2P02996 - MFF - 614785.0 - HGNC:24858 - C2ORF33; GL004 - MFF-related encephalopathy due to defective mitochondrial and peroxisomal fission - 617086 - nan - biallelic_autosomal - nan - definitive - absent gene product - nan - loss of function - inferred'],
+    ['Its8, a fission yeast homolog of Mcd4 and Pig-n, is involved in GPI anchor synthesis and shares an essential function with calcineurin in cytokinesis. In fission yeast, calcineurin is required for cytokinesis and ion homeostasis; however, most of its physiological roles remain obscure. To identify genes that share an essential function with calcineurin, we screened for mutations that confer sensitivity to the calcineurin inhibitor FK506 and high temperature and isolated the mutant its8-1. its8(+) encodes a homolog of the budding yeast MCD4 and human Pig-n that are involved in glycosylphosphatidylinositol (GPI) anchor synthesis. Consistently, reduced inositol labeling of proteins suggested impaired GPI anchor synthesis in its8-1 mutants. The temperature upshift induced a further decrease in inositol labeling and caused dramatic increases in the frequency of septation in its8-1 mutants. BE49385A, an inhibitor of MCD4 and Pig-n, also increased the septation index of the wild-type cell. Osmotic stabilization suppressed these morphological defects, indicating that cell wall weakness caused by impaired GPI anchor synthesis resulted in abnormal cytokinesis. Furthermore, calcineurin-deleted cells exhibited hypersensitivity to BE49385A, and FK506 exacerbated the cytokinesis defects of the its8-1 mutant. Thus, calcineurin and Its8 may share an essential function in cytokinesis and cell viability through the regulation of cell wall integrity.', 'G2P01166 - CERT1 - 604677.0 - HGNC:2205 - CERT; COL4A3BP; GPBP; STARD11 - CERT1-related intellectual disability - 616351 - nan - monoallelic_autosomal - restricted mutation set - definitive - altered gene product structure - nan - gain of function - inferred'],
+    ['Its8, a fission yeast homolog of Mcd4 and Pig-n, is involved in GPI anchor synthesis and shares an essential function with calcineurin in cytokinesis. In fission yeast, calcineurin is required for cytokinesis and ion homeostasis; however, most of its physiological roles remain obscure. To identify genes that share an essential function with calcineurin, we screened for mutations that confer sensitivity to the calcineurin inhibitor FK506 and high temperature and isolated the mutant its8-1. its8(+) encodes a homolog of the budding yeast MCD4 and human Pig-n that are involved in glycosylphosphatidylinositol (GPI) anchor synthesis. Consistently, reduced inositol labeling of proteins suggested impaired GPI anchor synthesis in its8-1 mutants. The temperature upshift induced a further decrease in inositol labeling and caused dramatic increases in the frequency of septation in its8-1 mutants. BE49385A, an inhibitor of MCD4 and Pig-n, also increased the septation index of the wild-type cell. Osmotic stabilization suppressed these morphological defects, indicating that cell wall weakness caused by impaired GPI anchor synthesis resulted in abnormal cytokinesis. Furthermore, calcineurin-deleted cells exhibited hypersensitivity to BE49385A, and FK506 exacerbated the cytokinesis defects of the its8-1 mutant. Thus, calcineurin and Its8 may share an essential function in cytokinesis and cell viability through the regulation of cell wall integrity.', 'G2P01646 - STAT2 - 600556.0 - HGNC:11363 - STAT113 - STAT2-related viral induced severe multiorgan dysfunction related with impaired mitochondrial fission - nan - nan - biallelic_autosomal - nan - limited - absent gene product - nan - loss of function - inferred'],
+    ['Its8, a fission yeast homolog of Mcd4 and Pig-n, is involved in GPI anchor synthesis and shares an essential function with calcineurin in cytokinesis. In fission yeast, calcineurin is required for cytokinesis and ion homeostasis; however, most of its physiological roles remain obscure. To identify genes that share an essential function with calcineurin, we screened for mutations that confer sensitivity to the calcineurin inhibitor FK506 and high temperature and isolated the mutant its8-1. its8(+) encodes a homolog of the budding yeast MCD4 and human Pig-n that are involved in glycosylphosphatidylinositol (GPI) anchor synthesis. Consistently, reduced inositol labeling of proteins suggested impaired GPI anchor synthesis in its8-1 mutants. The temperature upshift induced a further decrease in inositol labeling and caused dramatic increases in the frequency of septation in its8-1 mutants. BE49385A, an inhibitor of MCD4 and Pig-n, also increased the septation index of the wild-type cell. Osmotic stabilization suppressed these morphological defects, indicating that cell wall weakness caused by impaired GPI anchor synthesis resulted in abnormal cytokinesis. Furthermore, calcineurin-deleted cells exhibited hypersensitivity to BE49385A, and FK506 exacerbated the cytokinesis defects of the its8-1 mutant. Thus, calcineurin and Its8 may share an essential function in cytokinesis and cell viability through the regulation of cell wall integrity.', 'G2P03036 - NDUFA8 - 603359.0 - HGNC:7692 - MGC793; PGIV - NDUFA8-related developmental disorder - nan - nan - biallelic_autosomal - nan - strong - absent gene product - nan - loss of function - inferred'],
+]
+scores = model.predict(pairs)
+print(scores.shape)
+# (5,)
+
+# Or rank different texts based on similarity to a single text
+ranks = model.rank(
+    'Its8, a fission yeast homolog of Mcd4 and Pig-n, is involved in GPI anchor synthesis and shares an essential function with calcineurin in cytokinesis. In fission yeast, calcineurin is required for cytokinesis and ion homeostasis; however, most of its physiological roles remain obscure. To identify genes that share an essential function with calcineurin, we screened for mutations that confer sensitivity to the calcineurin inhibitor FK506 and high temperature and isolated the mutant its8-1. its8(+) encodes a homolog of the budding yeast MCD4 and human Pig-n that are involved in glycosylphosphatidylinositol (GPI) anchor synthesis. Consistently, reduced inositol labeling of proteins suggested impaired GPI anchor synthesis in its8-1 mutants. The temperature upshift induced a further decrease in inositol labeling and caused dramatic increases in the frequency of septation in its8-1 mutants. BE49385A, an inhibitor of MCD4 and Pig-n, also increased the septation index of the wild-type cell. Osmotic stabilization suppressed these morphological defects, indicating that cell wall weakness caused by impaired GPI anchor synthesis resulted in abnormal cytokinesis. Furthermore, calcineurin-deleted cells exhibited hypersensitivity to BE49385A, and FK506 exacerbated the cytokinesis defects of the its8-1 mutant. Thus, calcineurin and Its8 may share an essential function in cytokinesis and cell viability through the regulation of cell wall integrity.',
+    [
+        'G2P01414 - PIGN - 606097.0 - HGNC:8967 - MCD4; PIG-N - PIGN-related multiple congenital anomalies-hypotonia-seizures syndrome - 614080 - nan - biallelic_autosomal - nan - definitive - absent gene product; altered gene product structure - inframe_insertion; missense_variant; inframe_deletion - undetermined - inferred',
+        'G2P02996 - MFF - 614785.0 - HGNC:24858 - C2ORF33; GL004 - MFF-related encephalopathy due to defective mitochondrial and peroxisomal fission - 617086 - nan - biallelic_autosomal - nan - definitive - absent gene product - nan - loss of function - inferred',
+        'G2P01166 - CERT1 - 604677.0 - HGNC:2205 - CERT; COL4A3BP; GPBP; STARD11 - CERT1-related intellectual disability - 616351 - nan - monoallelic_autosomal - restricted mutation set - definitive - altered gene product structure - nan - gain of function - inferred',
+        'G2P01646 - STAT2 - 600556.0 - HGNC:11363 - STAT113 - STAT2-related viral induced severe multiorgan dysfunction related with impaired mitochondrial fission - nan - nan - biallelic_autosomal - nan - limited - absent gene product - nan - loss of function - inferred',
+        'G2P03036 - NDUFA8 - 603359.0 - HGNC:7692 - MGC793; PGIV - NDUFA8-related developmental disorder - nan - nan - biallelic_autosomal - nan - strong - absent gene product - nan - loss of function - inferred',
+    ]
+)
+# [{'corpus_id': ..., 'score': ...}, {'corpus_id': ..., 'score': ...}, ...]
+```
+
+<!--
+### Direct Usage (Transformers)
+
+<details><summary>Click to see the direct usage in Transformers</summary>
+
+</details>
+-->
+
+<!--
+### Downstream Usage (Sentence Transformers)
+
+You can finetune this model on your own dataset.
+
+<details><summary>Click to expand</summary>
+
+</details>
+-->
+
+<!--
+### Out-of-Scope Use
+
+*List how the model may foreseeably be misused and address what users ought not to do with the model.*
+-->
+
+## Evaluation
+
+### Metrics
+
+#### Cross Encoder Classification
+
+* Dataset: `anno_test`
+* Evaluated with [<code>CrossEncoderClassificationEvaluator</code>](https://sbert.net/docs/package_reference/cross_encoder/evaluation.html#sentence_transformers.cross_encoder.evaluation.CrossEncoderClassificationEvaluator)
+
+| Metric                | Value     |
+|:----------------------|:----------|
+| accuracy              | 0.824     |
+| accuracy_threshold    | 0.9996    |
+| f1                    | 0.3842    |
+| f1_threshold          | 0.9992    |
+| precision             | 0.2698    |
+| recall                | 0.6667    |
+| **average_precision** | **0.329** |
+
+<!--
+## Bias, Risks and Limitations
+
+*What are the known or foreseeable issues stemming from this model? You could also flag here known failure cases or weaknesses of the model.*
+-->
+
+<!--
+### Recommendations
+
+*What are recommendations with respect to the foreseeable issues? For example, filtering explicit content.*
+-->
+
+## Training Details
+
+### Training Dataset
+
+#### Unnamed Dataset
+
+* Size: 35,474 training samples
+* Columns: <code>tiab</code>, <code>g2p_lgmde</code>, and <code>label</code>
+* Approximate statistics based on the first 1000 samples:
+  |         | tiab                                                                                               | g2p_lgmde                                                                                        | label                                           |
+  |:--------|:---------------------------------------------------------------------------------------------------|:-------------------------------------------------------------------------------------------------|:------------------------------------------------|
+  | type    | string                                                                                             | string                                                                                           | int                                             |
+  | details | <ul><li>min: 30 characters</li><li>mean: 1348.52 characters</li><li>max: 2802 characters</li></ul> | <ul><li>min: 177 characters</li><li>mean: 258.9 characters</li><li>max: 407 characters</li></ul> | <ul><li>0: ~72.90%</li><li>1: ~27.10%</li></ul> |
+* Samples:
+  | tiab                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     | g2p_lgmde                                                                                                                                                                                                                                                                                                                                  | label          |
+  |:---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------|:-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------|:---------------|
+  | <code>Its8, a fission yeast homolog of Mcd4 and Pig-n, is involved in GPI anchor synthesis and shares an essential function with calcineurin in cytokinesis. In fission yeast, calcineurin is required for cytokinesis and ion homeostasis; however, most of its physiological roles remain obscure. To identify genes that share an essential function with calcineurin, we screened for mutations that confer sensitivity to the calcineurin inhibitor FK506 and high temperature and isolated the mutant its8-1. its8(+) encodes a homolog of the budding yeast MCD4 and human Pig-n that are involved in glycosylphosphatidylinositol (GPI) anchor synthesis. Consistently, reduced inositol labeling of proteins suggested impaired GPI anchor synthesis in its8-1 mutants. The temperature upshift induced a further decrease in inositol labeling and caused dramatic increases in the frequency of septation in its8-1 mutants. BE49385A, an inhibitor of MCD4 and Pig-n, also increased the septation index of the wild-type cell. Os...</code> | <code>G2P01414 - PIGN - 606097.0 - HGNC:8967 - MCD4; PIG-N - PIGN-related multiple congenital anomalies-hypotonia-seizures syndrome - 614080 - nan - biallelic_autosomal - nan - definitive - absent gene product; altered gene product structure - inframe_insertion; missense_variant; inframe_deletion - undetermined - inferred</code> | <code>1</code> |
+  | <code>Its8, a fission yeast homolog of Mcd4 and Pig-n, is involved in GPI anchor synthesis and shares an essential function with calcineurin in cytokinesis. In fission yeast, calcineurin is required for cytokinesis and ion homeostasis; however, most of its physiological roles remain obscure. To identify genes that share an essential function with calcineurin, we screened for mutations that confer sensitivity to the calcineurin inhibitor FK506 and high temperature and isolated the mutant its8-1. its8(+) encodes a homolog of the budding yeast MCD4 and human Pig-n that are involved in glycosylphosphatidylinositol (GPI) anchor synthesis. Consistently, reduced inositol labeling of proteins suggested impaired GPI anchor synthesis in its8-1 mutants. The temperature upshift induced a further decrease in inositol labeling and caused dramatic increases in the frequency of septation in its8-1 mutants. BE49385A, an inhibitor of MCD4 and Pig-n, also increased the septation index of the wild-type cell. Os...</code> | <code>G2P02996 - MFF - 614785.0 - HGNC:24858 - C2ORF33; GL004 - MFF-related encephalopathy due to defective mitochondrial and peroxisomal fission - 617086 - nan - biallelic_autosomal - nan - definitive - absent gene product - nan - loss of function - inferred</code>                                                                 | <code>0</code> |
+  | <code>Its8, a fission yeast homolog of Mcd4 and Pig-n, is involved in GPI anchor synthesis and shares an essential function with calcineurin in cytokinesis. In fission yeast, calcineurin is required for cytokinesis and ion homeostasis; however, most of its physiological roles remain obscure. To identify genes that share an essential function with calcineurin, we screened for mutations that confer sensitivity to the calcineurin inhibitor FK506 and high temperature and isolated the mutant its8-1. its8(+) encodes a homolog of the budding yeast MCD4 and human Pig-n that are involved in glycosylphosphatidylinositol (GPI) anchor synthesis. Consistently, reduced inositol labeling of proteins suggested impaired GPI anchor synthesis in its8-1 mutants. The temperature upshift induced a further decrease in inositol labeling and caused dramatic increases in the frequency of septation in its8-1 mutants. BE49385A, an inhibitor of MCD4 and Pig-n, also increased the septation index of the wild-type cell. Os...</code> | <code>G2P01166 - CERT1 - 604677.0 - HGNC:2205 - CERT; COL4A3BP; GPBP; STARD11 - CERT1-related intellectual disability - 616351 - nan - monoallelic_autosomal - restricted mutation set - definitive - altered gene product structure - nan - gain of function - inferred</code>                                                            | <code>0</code> |
+* Loss: [<code>BinaryCrossEntropyLoss</code>](https://sbert.net/docs/package_reference/cross_encoder/losses.html#binarycrossentropyloss) with these parameters:
+  ```json
+  {
+      "activation_fn": "torch.nn.modules.linear.Identity",
+      "pos_weight": null
+  }
+  ```
+
+### Training Hyperparameters
+#### Non-Default Hyperparameters
+
+- `per_device_train_batch_size`: 16
+- `per_device_eval_batch_size`: 16
+- `learning_rate`: 3.879271032713091e-05
+- `num_train_epochs`: 2
+- `warmup_ratio`: 0.1
+
+#### All Hyperparameters
+<details><summary>Click to expand</summary>
+
+- `overwrite_output_dir`: False
+- `do_predict`: False
+- `eval_strategy`: no
+- `prediction_loss_only`: True
+- `per_device_train_batch_size`: 16
+- `per_device_eval_batch_size`: 16
+- `per_gpu_train_batch_size`: None
+- `per_gpu_eval_batch_size`: None
+- `gradient_accumulation_steps`: 1
+- `eval_accumulation_steps`: None
+- `torch_empty_cache_steps`: None
+- `learning_rate`: 3.879271032713091e-05
+- `weight_decay`: 0.0
+- `adam_beta1`: 0.9
+- `adam_beta2`: 0.999
+- `adam_epsilon`: 1e-08
+- `max_grad_norm`: 1.0
+- `num_train_epochs`: 2
+- `max_steps`: -1
+- `lr_scheduler_type`: linear
+- `lr_scheduler_kwargs`: {}
+- `warmup_ratio`: 0.1
+- `warmup_steps`: 0
+- `log_level`: passive
+- `log_level_replica`: warning
+- `log_on_each_node`: True
+- `logging_nan_inf_filter`: True
+- `save_safetensors`: True
+- `save_on_each_node`: False
+- `save_only_model`: False
+- `restore_callback_states_from_checkpoint`: False
+- `no_cuda`: False
+- `use_cpu`: False
+- `use_mps_device`: False
+- `seed`: 42
+- `data_seed`: None
+- `jit_mode_eval`: False
+- `use_ipex`: False
+- `bf16`: False
+- `fp16`: False
+- `fp16_opt_level`: O1
+- `half_precision_backend`: auto
+- `bf16_full_eval`: False
+- `fp16_full_eval`: False
+- `tf32`: None
+- `local_rank`: 0
+- `ddp_backend`: None
+- `tpu_num_cores`: None
+- `tpu_metrics_debug`: False
+- `debug`: []
+- `dataloader_drop_last`: False
+- `dataloader_num_workers`: 0
+- `dataloader_prefetch_factor`: None
+- `past_index`: -1
+- `disable_tqdm`: False
+- `remove_unused_columns`: True
+- `label_names`: None
+- `load_best_model_at_end`: False
+- `ignore_data_skip`: False
+- `fsdp`: []
+- `fsdp_min_num_params`: 0
+- `fsdp_config`: {'min_num_params': 0, 'xla': False, 'xla_fsdp_v2': False, 'xla_fsdp_grad_ckpt': False}
+- `fsdp_transformer_layer_cls_to_wrap`: None
+- `accelerator_config`: {'split_batches': False, 'dispatch_batches': None, 'even_batches': True, 'use_seedable_sampler': True, 'non_blocking': False, 'gradient_accumulation_kwargs': None}
+- `deepspeed`: None
+- `label_smoothing_factor`: 0.0
+- `optim`: adamw_torch
+- `optim_args`: None
+- `adafactor`: False
+- `group_by_length`: False
+- `length_column_name`: length
+- `ddp_find_unused_parameters`: None
+- `ddp_bucket_cap_mb`: None
+- `ddp_broadcast_buffers`: False
+- `dataloader_pin_memory`: True
+- `dataloader_persistent_workers`: False
+- `skip_memory_metrics`: True
+- `use_legacy_prediction_loop`: False
+- `push_to_hub`: False
+- `resume_from_checkpoint`: None
+- `hub_model_id`: None
+- `hub_strategy`: every_save
+- `hub_private_repo`: None
+- `hub_always_push`: False
+- `hub_revision`: None
+- `gradient_checkpointing`: False
+- `gradient_checkpointing_kwargs`: None
+- `include_inputs_for_metrics`: False
+- `include_for_metrics`: []
+- `eval_do_concat_batches`: True
+- `fp16_backend`: auto
+- `push_to_hub_model_id`: None
+- `push_to_hub_organization`: None
+- `mp_parameters`: 
+- `auto_find_batch_size`: False
+- `full_determinism`: False
+- `torchdynamo`: None
+- `ray_scope`: last
+- `ddp_timeout`: 1800
+- `torch_compile`: False
+- `torch_compile_backend`: None
+- `torch_compile_mode`: None
+- `include_tokens_per_second`: False
+- `include_num_input_tokens_seen`: False
+- `neftune_noise_alpha`: None
+- `optim_target_modules`: None
+- `batch_eval_metrics`: False
+- `eval_on_start`: False
+- `use_liger_kernel`: False
+- `liger_kernel_config`: None
+- `eval_use_gather_object`: False
+- `average_tokens_across_devices`: False
+- `prompts`: None
+- `batch_sampler`: batch_sampler
+- `multi_dataset_batch_sampler`: proportional
+- `router_mapping`: {}
+- `learning_rate_mapping`: {}
+
+</details>
+
+### Training Logs
+| Epoch  | Step | Training Loss | anno_test_average_precision |
+|:------:|:----:|:-------------:|:---------------------------:|
+| -1     | -1   | -             | 0.6910                      |
+| 0.2254 | 500  | 0.0908        | -                           |
+| 0.4509 | 1000 | 0.0266        | -                           |
+| 0.6763 | 1500 | 0.0207        | -                           |
+| 0.9017 | 2000 | 0.0126        | -                           |
+| 1.1271 | 2500 | 0.0082        | -                           |
+| 1.3526 | 3000 | 0.0098        | -                           |
+| 1.5780 | 3500 | 0.0072        | -                           |
+| 1.8034 | 4000 | 0.0098        | -                           |
+| -1     | -1   | -             | 0.3290                      |
+
+
+### Framework Versions
+- Python: 3.10.12
+- Sentence Transformers: 5.1.0
+- Transformers: 4.55.0
+- PyTorch: 2.7.1+cu126
+- Accelerate: 1.10.0
+- Datasets: 4.0.0
+- Tokenizers: 0.21.4
+
+## Citation
+
+### BibTeX
+
+#### Sentence Transformers
+```bibtex
+@inproceedings{reimers-2019-sentence-bert,
+    title = "Sentence-BERT: Sentence Embeddings using Siamese BERT-Networks",
+    author = "Reimers, Nils and Gurevych, Iryna",
+    booktitle = "Proceedings of the 2019 Conference on Empirical Methods in Natural Language Processing",
+    month = "11",
+    year = "2019",
+    publisher = "Association for Computational Linguistics",
+    url = "https://arxiv.org/abs/1908.10084",
+}
+```
+
+<!--
+## Glossary
+
+*Clearly define terms in order to be accessible across audiences.*
+-->
+
+<!--
+## Model Card Authors
+
+*Lists the people who create the model card, providing recognition and accountability for the detailed work that goes into its construction.*
+-->
+
+<!--
+## Model Card Contact
+
+*Provides a way for people who have updates to the Model Card, suggestions, or questions, to contact the Model Card authors.*
+-->

config.json

@@ -0,0 +1,34 @@
+{
+  "architectures": [
+    "BertForSequenceClassification"
+  ],
+  "attention_probs_dropout_prob": 0.1,
+  "classifier_dropout": null,
+  "hidden_act": "gelu",
+  "hidden_dropout_prob": 0.1,
+  "hidden_size": 768,
+  "id2label": {
+    "0": "LABEL_0"
+  },
+  "initializer_range": 0.02,
+  "intermediate_size": 3072,
+  "label2id": {
+    "LABEL_0": 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",
+  "sentence_transformers": {
+    "activation_fn": "torch.nn.modules.activation.Sigmoid",
+    "version": "5.1.0"
+  },
+  "torch_dtype": "float32",
+  "transformers_version": "4.55.0",
+  "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 sha256:774e1259e9888ab867dfc7d88c4cf8bf3494b0f10835058ca675efa3baaaefd3
+size 437955572

special_tokens_map.json

@@ -0,0 +1,44 @@
+{
+  "additional_special_tokens": [
+    "[PAD]",
+    "[UNK]",
+    "[CLS]",
+    "[SEP]",
+    "[MASK]"
+  ],
+  "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 +1,72 @@
+{
+  "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
+    }
+  },
+  "additional_special_tokens": [
+    "[PAD]",
+    "[UNK]",
+    "[CLS]",
+    "[SEP]",
+    "[MASK]"
+  ],
+  "clean_up_tokenization_spaces": true,
+  "cls_token": "[CLS]",
+  "do_basic_tokenize": true,
+  "do_lower_case": true,
+  "extra_special_tokens": {},
+  "mask_token": "[MASK]",
+  "max_length": 512,
+  "model_max_length": 512,
+  "never_split": null,
+  "pad_to_multiple_of": null,
+  "pad_token": "[PAD]",
+  "pad_token_type_id": 0,
+  "padding_side": "right",
+  "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]"
+}

training_args.bin

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:d1b3fa7153debd63c6fec278b403772c028cd4845e39998141fa0697a2055777
+size 6097