Upload folder using huggingface_hub
Browse files- README.md +206 -0
- adapter_config.json +48 -0
- adapter_model.safetensors +3 -0
- special_tokens_map.json +10 -0
- tokenizer.json +192 -0
- tokenizer_config.json +65 -0
- training_args.bin +3 -0
README.md
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| 1 |
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---
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| 2 |
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base_model: Synthyra/ESMplusplus_small
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library_name: peft
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tags:
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- base_model:adapter:Synthyra/ESMplusplus_small
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- lora
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- transformers
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| 8 |
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---
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| 9 |
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# Model Card for Model ID
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+
<!-- Provide a quick summary of what the model is/does. -->
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+
## Model Details
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### Model Description
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+
<!-- Provide a longer summary of what this model is. -->
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| 21 |
+
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| 22 |
+
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| 23 |
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+
- **Developed by:** [More Information Needed]
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| 25 |
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- **Funded by [optional]:** [More Information Needed]
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| 26 |
+
- **Shared by [optional]:** [More Information Needed]
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| 27 |
+
- **Model type:** [More Information Needed]
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| 28 |
+
- **Language(s) (NLP):** [More Information Needed]
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| 29 |
+
- **License:** [More Information Needed]
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| 30 |
+
- **Finetuned from model [optional]:** [More Information Needed]
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| 31 |
+
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| 32 |
+
### Model Sources [optional]
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| 33 |
+
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| 34 |
+
<!-- Provide the basic links for the model. -->
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| 35 |
+
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| 36 |
+
- **Repository:** [More Information Needed]
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| 37 |
+
- **Paper [optional]:** [More Information Needed]
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| 38 |
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- **Demo [optional]:** [More Information Needed]
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| 39 |
+
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| 40 |
+
## Uses
|
| 41 |
+
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| 42 |
+
<!-- Address questions around how the model is intended to be used, including the foreseeable users of the model and those affected by the model. -->
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| 43 |
+
|
| 44 |
+
### Direct Use
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| 45 |
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| 46 |
+
<!-- This section is for the model use without fine-tuning or plugging into a larger ecosystem/app. -->
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| 47 |
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| 48 |
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[More Information Needed]
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| 49 |
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|
| 50 |
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### Downstream Use [optional]
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| 51 |
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| 52 |
+
<!-- This section is for the model use when fine-tuned for a task, or when plugged into a larger ecosystem/app -->
|
| 53 |
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|
| 54 |
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[More Information Needed]
|
| 55 |
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|
| 56 |
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### Out-of-Scope Use
|
| 57 |
+
|
| 58 |
+
<!-- This section addresses misuse, malicious use, and uses that the model will not work well for. -->
|
| 59 |
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|
| 60 |
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[More Information Needed]
|
| 61 |
+
|
| 62 |
+
## Bias, Risks, and Limitations
|
| 63 |
+
|
| 64 |
+
<!-- This section is meant to convey both technical and sociotechnical limitations. -->
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| 65 |
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| 66 |
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[More Information Needed]
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| 67 |
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| 68 |
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### Recommendations
|
| 69 |
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| 70 |
+
<!-- This section is meant to convey recommendations with respect to the bias, risk, and technical limitations. -->
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| 71 |
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|
| 72 |
+
Users (both direct and downstream) should be made aware of the risks, biases and limitations of the model. More information needed for further recommendations.
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| 73 |
+
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| 74 |
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## How to Get Started with the Model
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| 75 |
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| 76 |
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Use the code below to get started with the model.
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| 77 |
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| 78 |
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[More Information Needed]
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| 79 |
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| 80 |
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## Training Details
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| 81 |
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| 82 |
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### Training Data
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| 83 |
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| 84 |
+
<!-- This should link to a Dataset Card, perhaps with a short stub of information on what the training data is all about as well as documentation related to data pre-processing or additional filtering. -->
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| 85 |
+
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| 86 |
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[More Information Needed]
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| 87 |
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| 88 |
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### Training Procedure
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| 89 |
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|
| 90 |
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<!-- This relates heavily to the Technical Specifications. Content here should link to that section when it is relevant to the training procedure. -->
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| 91 |
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#### Preprocessing [optional]
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| 93 |
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| 94 |
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[More Information Needed]
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| 96 |
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#### Training Hyperparameters
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| 98 |
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| 99 |
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- **Training regime:** [More Information Needed] <!--fp32, fp16 mixed precision, bf16 mixed precision, bf16 non-mixed precision, fp16 non-mixed precision, fp8 mixed precision -->
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| 100 |
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| 101 |
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#### Speeds, Sizes, Times [optional]
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| 103 |
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<!-- This section provides information about throughput, start/end time, checkpoint size if relevant, etc. -->
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[More Information Needed]
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## Evaluation
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| 108 |
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<!-- This section describes the evaluation protocols and provides the results. -->
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### Testing Data, Factors & Metrics
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| 112 |
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#### Testing Data
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| 114 |
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| 115 |
+
<!-- This should link to a Dataset Card if possible. -->
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| 116 |
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| 117 |
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[More Information Needed]
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| 118 |
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| 119 |
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#### Factors
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| 120 |
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| 121 |
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<!-- These are the things the evaluation is disaggregating by, e.g., subpopulations or domains. -->
|
| 122 |
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| 123 |
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[More Information Needed]
|
| 124 |
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|
| 125 |
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#### Metrics
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| 126 |
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| 127 |
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<!-- These are the evaluation metrics being used, ideally with a description of why. -->
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| 128 |
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| 129 |
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[More Information Needed]
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| 130 |
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| 131 |
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### Results
|
| 132 |
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| 133 |
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[More Information Needed]
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| 134 |
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|
| 135 |
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#### Summary
|
| 136 |
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|
| 137 |
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|
| 138 |
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|
| 139 |
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## Model Examination [optional]
|
| 140 |
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| 141 |
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<!-- Relevant interpretability work for the model goes here -->
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| 142 |
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|
| 143 |
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[More Information Needed]
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| 144 |
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| 145 |
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## Environmental Impact
|
| 146 |
+
|
| 147 |
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<!-- Total emissions (in grams of CO2eq) and additional considerations, such as electricity usage, go here. Edit the suggested text below accordingly -->
|
| 148 |
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|
| 149 |
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Carbon emissions can be estimated using the [Machine Learning Impact calculator](https://mlco2.github.io/impact#compute) presented in [Lacoste et al. (2019)](https://arxiv.org/abs/1910.09700).
|
| 150 |
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| 151 |
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- **Hardware Type:** [More Information Needed]
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| 152 |
+
- **Hours used:** [More Information Needed]
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| 153 |
+
- **Cloud Provider:** [More Information Needed]
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| 154 |
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- **Compute Region:** [More Information Needed]
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| 155 |
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- **Carbon Emitted:** [More Information Needed]
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| 156 |
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| 157 |
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## Technical Specifications [optional]
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| 158 |
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| 159 |
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### Model Architecture and Objective
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| 160 |
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| 161 |
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[More Information Needed]
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| 162 |
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| 163 |
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### Compute Infrastructure
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| 164 |
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| 165 |
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[More Information Needed]
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| 166 |
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| 167 |
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#### Hardware
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| 168 |
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| 169 |
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[More Information Needed]
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| 170 |
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| 171 |
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#### Software
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| 172 |
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| 173 |
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[More Information Needed]
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| 174 |
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| 175 |
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## Citation [optional]
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| 176 |
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| 177 |
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<!-- If there is a paper or blog post introducing the model, the APA and Bibtex information for that should go in this section. -->
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| 178 |
+
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| 179 |
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**BibTeX:**
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| 180 |
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| 181 |
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[More Information Needed]
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| 182 |
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| 183 |
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**APA:**
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| 184 |
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| 185 |
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[More Information Needed]
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| 186 |
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| 187 |
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## Glossary [optional]
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| 188 |
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|
| 189 |
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<!-- If relevant, include terms and calculations in this section that can help readers understand the model or model card. -->
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| 190 |
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| 191 |
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[More Information Needed]
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| 192 |
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| 193 |
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## More Information [optional]
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| 194 |
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| 195 |
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[More Information Needed]
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| 196 |
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## Model Card Authors [optional]
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| 198 |
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[More Information Needed]
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| 200 |
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## Model Card Contact
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| 202 |
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| 203 |
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[More Information Needed]
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| 204 |
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### Framework versions
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| 205 |
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- PEFT 0.17.0
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adapter_config.json
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{
|
| 2 |
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"alpha_pattern": {},
|
| 3 |
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"auto_mapping": {
|
| 4 |
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"base_model_class": "ESMplusplusForTokenClassification",
|
| 5 |
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"parent_library": "transformers_modules.Synthyra.ESMplusplus_small.1e40c1b8ef46c33f93a9b817eb0bd81279ab4088.modeling_esm_plusplus"
|
| 6 |
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},
|
| 7 |
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"base_model_name_or_path": "Synthyra/ESMplusplus_small",
|
| 8 |
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"bias": "none",
|
| 9 |
+
"corda_config": null,
|
| 10 |
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"eva_config": null,
|
| 11 |
+
"exclude_modules": null,
|
| 12 |
+
"fan_in_fan_out": false,
|
| 13 |
+
"inference_mode": true,
|
| 14 |
+
"init_lora_weights": true,
|
| 15 |
+
"layer_replication": null,
|
| 16 |
+
"layers_pattern": null,
|
| 17 |
+
"layers_to_transform": null,
|
| 18 |
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"loftq_config": {},
|
| 19 |
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"lora_alpha": 16,
|
| 20 |
+
"lora_bias": false,
|
| 21 |
+
"lora_dropout": 0.01,
|
| 22 |
+
"megatron_config": null,
|
| 23 |
+
"megatron_core": "megatron.core",
|
| 24 |
+
"modules_to_save": [
|
| 25 |
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"classifier.0",
|
| 26 |
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"classifier.2",
|
| 27 |
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"classifier.3"
|
| 28 |
+
],
|
| 29 |
+
"peft_type": "LORA",
|
| 30 |
+
"qalora_group_size": 16,
|
| 31 |
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"r": 8,
|
| 32 |
+
"rank_pattern": {},
|
| 33 |
+
"revision": null,
|
| 34 |
+
"target_modules": [
|
| 35 |
+
"key",
|
| 36 |
+
"layernorm_qkv.1",
|
| 37 |
+
"value",
|
| 38 |
+
"dense",
|
| 39 |
+
"query",
|
| 40 |
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"out_proj"
|
| 41 |
+
],
|
| 42 |
+
"target_parameters": null,
|
| 43 |
+
"task_type": null,
|
| 44 |
+
"trainable_token_indices": null,
|
| 45 |
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"use_dora": false,
|
| 46 |
+
"use_qalora": false,
|
| 47 |
+
"use_rslora": false
|
| 48 |
+
}
|
adapter_model.safetensors
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version https://git-lfs.github.com/spec/v1
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oid sha256:6d38650bb7b767c8381493af21c3d327abbf6aed1f37523e30e4cbad9f4b46bf
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| 3 |
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size 20369392
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special_tokens_map.json
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{
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"additional_special_tokens": [
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"|"
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],
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| 5 |
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"cls_token": "<cls>",
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| 6 |
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"eos_token": "<eos>",
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| 7 |
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"mask_token": "<mask>",
|
| 8 |
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"pad_token": "<pad>",
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| 9 |
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"unk_token": "<unk>"
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| 10 |
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}
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tokenizer.json
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|
|
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|
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|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
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|
|
|
|
|
|
|
|
|
|
|
|
|
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|
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|
|
|
|
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|
|
|
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|
|
|
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|
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|
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|
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|
|
|
|
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|
|
|
|
|
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|
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|
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|
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|
|
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|
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|
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|
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|
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|
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|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
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|
|
|
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|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
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|
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|
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|
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|
|
|
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|
|
|
|
|
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|
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|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
+
"version": "1.0",
|
| 3 |
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"truncation": null,
|
| 4 |
+
"padding": {
|
| 5 |
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|
| 6 |
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|
| 7 |
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|
| 8 |
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"pad_id": 1,
|
| 9 |
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|
| 10 |
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"pad_token": "<pad>"
|
| 11 |
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},
|
| 12 |
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"added_tokens": [
|
| 13 |
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{
|
| 14 |
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"id": 0,
|
| 15 |
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"content": "<cls>",
|
| 16 |
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"single_word": false,
|
| 17 |
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"lstrip": false,
|
| 18 |
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|
| 19 |
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"normalized": false,
|
| 20 |
+
"special": true
|
| 21 |
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},
|
| 22 |
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{
|
| 23 |
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"id": 1,
|
| 24 |
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"content": "<pad>",
|
| 25 |
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|
| 26 |
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"lstrip": false,
|
| 27 |
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"rstrip": false,
|
| 28 |
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"normalized": false,
|
| 29 |
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"special": true
|
| 30 |
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},
|
| 31 |
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{
|
| 32 |
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"id": 2,
|
| 33 |
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"content": "<eos>",
|
| 34 |
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|
| 35 |
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|
| 36 |
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"rstrip": false,
|
| 37 |
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"normalized": false,
|
| 38 |
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|
| 39 |
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},
|
| 40 |
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{
|
| 41 |
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"id": 3,
|
| 42 |
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"content": "<unk>",
|
| 43 |
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"single_word": false,
|
| 44 |
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"lstrip": false,
|
| 45 |
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"rstrip": false,
|
| 46 |
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"normalized": false,
|
| 47 |
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"special": true
|
| 48 |
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},
|
| 49 |
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{
|
| 50 |
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"id": 31,
|
| 51 |
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"content": "|",
|
| 52 |
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"single_word": false,
|
| 53 |
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"lstrip": false,
|
| 54 |
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"rstrip": false,
|
| 55 |
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"normalized": false,
|
| 56 |
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|
| 57 |
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},
|
| 58 |
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{
|
| 59 |
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"id": 32,
|
| 60 |
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"content": "<mask>",
|
| 61 |
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"single_word": false,
|
| 62 |
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"lstrip": false,
|
| 63 |
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"rstrip": false,
|
| 64 |
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"normalized": false,
|
| 65 |
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"special": true
|
| 66 |
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}
|
| 67 |
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],
|
| 68 |
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|
| 69 |
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|
| 70 |
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"post_processor": {
|
| 71 |
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"type": "TemplateProcessing",
|
| 72 |
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"single": [
|
| 73 |
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{
|
| 74 |
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"SpecialToken": {
|
| 75 |
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"id": "<cls>",
|
| 76 |
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"type_id": 0
|
| 77 |
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}
|
| 78 |
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},
|
| 79 |
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{
|
| 80 |
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"Sequence": {
|
| 81 |
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"id": "A",
|
| 82 |
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"type_id": 0
|
| 83 |
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}
|
| 84 |
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},
|
| 85 |
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{
|
| 86 |
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"SpecialToken": {
|
| 87 |
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"id": "<eos>",
|
| 88 |
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"type_id": 0
|
| 89 |
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}
|
| 90 |
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}
|
| 91 |
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],
|
| 92 |
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"pair": [
|
| 93 |
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{
|
| 94 |
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"SpecialToken": {
|
| 95 |
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"id": "<cls>",
|
| 96 |
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"type_id": 0
|
| 97 |
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}
|
| 98 |
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},
|
| 99 |
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{
|
| 100 |
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"Sequence": {
|
| 101 |
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"id": "A",
|
| 102 |
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"type_id": 0
|
| 103 |
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}
|
| 104 |
+
},
|
| 105 |
+
{
|
| 106 |
+
"SpecialToken": {
|
| 107 |
+
"id": "<eos>",
|
| 108 |
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"type_id": 0
|
| 109 |
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}
|
| 110 |
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},
|
| 111 |
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{
|
| 112 |
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"Sequence": {
|
| 113 |
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"id": "B",
|
| 114 |
+
"type_id": 1
|
| 115 |
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}
|
| 116 |
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},
|
| 117 |
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{
|
| 118 |
+
"SpecialToken": {
|
| 119 |
+
"id": "<eos>",
|
| 120 |
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"type_id": 1
|
| 121 |
+
}
|
| 122 |
+
}
|
| 123 |
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],
|
| 124 |
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|
| 125 |
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"<cls>": {
|
| 126 |
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"id": "<cls>",
|
| 127 |
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"ids": [
|
| 128 |
+
0
|
| 129 |
+
],
|
| 130 |
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"tokens": [
|
| 131 |
+
"<cls>"
|
| 132 |
+
]
|
| 133 |
+
},
|
| 134 |
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"<eos>": {
|
| 135 |
+
"id": "<eos>",
|
| 136 |
+
"ids": [
|
| 137 |
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2
|
| 138 |
+
],
|
| 139 |
+
"tokens": [
|
| 140 |
+
"<eos>"
|
| 141 |
+
]
|
| 142 |
+
}
|
| 143 |
+
}
|
| 144 |
+
},
|
| 145 |
+
"decoder": null,
|
| 146 |
+
"model": {
|
| 147 |
+
"type": "BPE",
|
| 148 |
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"dropout": null,
|
| 149 |
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"unk_token": "<unk>",
|
| 150 |
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"continuing_subword_prefix": null,
|
| 151 |
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"end_of_word_suffix": null,
|
| 152 |
+
"fuse_unk": false,
|
| 153 |
+
"byte_fallback": false,
|
| 154 |
+
"ignore_merges": false,
|
| 155 |
+
"vocab": {
|
| 156 |
+
"<cls>": 0,
|
| 157 |
+
"<pad>": 1,
|
| 158 |
+
"<eos>": 2,
|
| 159 |
+
"<unk>": 3,
|
| 160 |
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"L": 4,
|
| 161 |
+
"A": 5,
|
| 162 |
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"G": 6,
|
| 163 |
+
"V": 7,
|
| 164 |
+
"S": 8,
|
| 165 |
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"E": 9,
|
| 166 |
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"R": 10,
|
| 167 |
+
"T": 11,
|
| 168 |
+
"I": 12,
|
| 169 |
+
"D": 13,
|
| 170 |
+
"P": 14,
|
| 171 |
+
"K": 15,
|
| 172 |
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"Q": 16,
|
| 173 |
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"N": 17,
|
| 174 |
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"F": 18,
|
| 175 |
+
"Y": 19,
|
| 176 |
+
"M": 20,
|
| 177 |
+
"H": 21,
|
| 178 |
+
"W": 22,
|
| 179 |
+
"C": 23,
|
| 180 |
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"X": 24,
|
| 181 |
+
"B": 25,
|
| 182 |
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"U": 26,
|
| 183 |
+
"Z": 27,
|
| 184 |
+
"O": 28,
|
| 185 |
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".": 29,
|
| 186 |
+
"-": 30,
|
| 187 |
+
"|": 31,
|
| 188 |
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"<mask>": 32
|
| 189 |
+
},
|
| 190 |
+
"merges": []
|
| 191 |
+
}
|
| 192 |
+
}
|
tokenizer_config.json
ADDED
|
@@ -0,0 +1,65 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
+
"added_tokens_decoder": {
|
| 3 |
+
"0": {
|
| 4 |
+
"content": "<cls>",
|
| 5 |
+
"lstrip": false,
|
| 6 |
+
"normalized": false,
|
| 7 |
+
"rstrip": false,
|
| 8 |
+
"single_word": false,
|
| 9 |
+
"special": true
|
| 10 |
+
},
|
| 11 |
+
"1": {
|
| 12 |
+
"content": "<pad>",
|
| 13 |
+
"lstrip": false,
|
| 14 |
+
"normalized": false,
|
| 15 |
+
"rstrip": false,
|
| 16 |
+
"single_word": false,
|
| 17 |
+
"special": true
|
| 18 |
+
},
|
| 19 |
+
"2": {
|
| 20 |
+
"content": "<eos>",
|
| 21 |
+
"lstrip": false,
|
| 22 |
+
"normalized": false,
|
| 23 |
+
"rstrip": false,
|
| 24 |
+
"single_word": false,
|
| 25 |
+
"special": true
|
| 26 |
+
},
|
| 27 |
+
"3": {
|
| 28 |
+
"content": "<unk>",
|
| 29 |
+
"lstrip": false,
|
| 30 |
+
"normalized": false,
|
| 31 |
+
"rstrip": false,
|
| 32 |
+
"single_word": false,
|
| 33 |
+
"special": true
|
| 34 |
+
},
|
| 35 |
+
"31": {
|
| 36 |
+
"content": "|",
|
| 37 |
+
"lstrip": false,
|
| 38 |
+
"normalized": false,
|
| 39 |
+
"rstrip": false,
|
| 40 |
+
"single_word": false,
|
| 41 |
+
"special": true
|
| 42 |
+
},
|
| 43 |
+
"32": {
|
| 44 |
+
"content": "<mask>",
|
| 45 |
+
"lstrip": false,
|
| 46 |
+
"normalized": false,
|
| 47 |
+
"rstrip": false,
|
| 48 |
+
"single_word": false,
|
| 49 |
+
"special": true
|
| 50 |
+
}
|
| 51 |
+
},
|
| 52 |
+
"additional_special_tokens": [
|
| 53 |
+
"|"
|
| 54 |
+
],
|
| 55 |
+
"bos_token": "<cls>",
|
| 56 |
+
"clean_up_tokenization_spaces": false,
|
| 57 |
+
"cls_token": "<cls>",
|
| 58 |
+
"eos_token": "<eos>",
|
| 59 |
+
"extra_special_tokens": {},
|
| 60 |
+
"mask_token": "<mask>",
|
| 61 |
+
"model_max_length": 1000000000000000019884624838656,
|
| 62 |
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"pad_token": "<pad>",
|
| 63 |
+
"tokenizer_class": "EsmSequenceTokenizer",
|
| 64 |
+
"unk_token": "<unk>"
|
| 65 |
+
}
|
training_args.bin
ADDED
|
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
version https://git-lfs.github.com/spec/v1
|
| 2 |
+
oid sha256:71511bd6bada64dd41976e173d363227797ac245f820df1df40fa24665159c3d
|
| 3 |
+
size 5713
|