Upload folder using huggingface_hub
Browse files- LICENSE +25 -0
- README.md +125 -3
- amplify_te.py +307 -0
- config.json +38 -0
- model.safetensors +3 -0
- special_tokens_map.json +37 -0
- tokenizer.json +154 -0
- tokenizer_config.json +59 -0
LICENSE
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# SPDX-FileCopyrightText: Copyright (c) 2024 chandar-lab
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# SPDX-FileCopyrightText: Copyright (c) 2025 NVIDIA CORPORATION & AFFILIATES. All rights reserved.
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# SPDX-License-Identifier: MIT
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MIT License
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Copyright (c) 2024 chandar-lab
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Permission is hereby granted, free of charge, to any person obtaining a copy
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of this software and associated documentation files (the "Software"), to deal
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in the Software without restriction, including without limitation the rights
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to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
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copies of the Software, and to permit persons to whom the Software is
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furnished to do so, subject to the following conditions:
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The above copyright notice and this permission notice shall be included in all
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copies or substantial portions of the Software.
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THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
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IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
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FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
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AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
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LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
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OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
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SOFTWARE.
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README.md
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-
---
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license: mit
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---
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license: mit
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datasets:
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- chandar-lab/UR100P
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language:
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- en
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tags:
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- biology
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---
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> [!NOTE]
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> This model has been optimized using NVIDIA's [TransformerEngine](https://github.com/NVIDIA/TransformerEngine)
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> library. Slight numerical differences may be observed between the original model and the optimized
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> model. For instructions on how to install TransformerEngine, please refer to the
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> [official documentation](https://github.com/NVIDIA/TransformerEngine?tab=readme-ov-file#installation).
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>
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> The original xformers-based models are available at [chandar-lab/AMPLIFY](https://huggingface.co/chandar-lab/AMPLIFY_350M).
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## AMPLIFY
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AMPLIFY is an efficient, state-of-the-art protein language model pre-trained using masked language modeling on UniRef100, OAS, and SCOP ([UR100P](https://huggingface.co/datasets/chandar-lab/UR100P)). AMPLIFY can generate residue and protein embeddings, suggest mutations, differentiate disordered proteins from non-protein sequences, and much more. AMPLIFY is available in two sizes, 120M and 350M parameters, with the `_base` models not extended beyond 512 residues (Stage 1). The model architecture and pre-training procedure are detailed below. For more details, please refer to the [accompanying paper](https://www.biorxiv.org/content/10.1101/2024.09.23.614603v1).
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- [`AMPLIFY_350M`](https://huggingface.co/nvidia/AMPLIFY_350M)
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- [`AMPLIFY_350M_base`](https://huggingface.co/chandar-lab/AMPLIFY_350M_base)
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- [`AMPLIFY_120M`](https://huggingface.co/nvidia/AMPLIFY_120M)
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- [`AMPLIFY_120M_base`](https://huggingface.co/chandar-lab/AMPLIFY_120M_base)
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### Model Description
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| | AMPLIFY 120M | AMPLIFY 350M |
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| :----------------------------- | -----------: | -----------: |
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| `hidden-size` | 640 | 960 |
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| `num-hidden-layers` | 24 | 32 |
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| `num-attention-heads` | 10 | 15 |
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| `intermediate-size` | 2560 | 3840 |
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| `max-position-embeddings` | 2048 | 2048 |
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| `vocab-size` | 27 | 27 |
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| `rope-theta` | 10000 | 10000 |
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| `dropout-prob` | 0 | 0 |
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| `embedding-init-range` | 0.02 | 0.02 |
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| `norm-eps` | 1.0e-05 | 1.0e-05 |
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| `hidden-act` | swiglu | swiglu |
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| `pre-activation-layer-norm` | true | true |
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| `layer-norm-after-embedding` | false | false |
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| `layer-norm-before-last-layer` | true | true |
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| `rms-norm` | true | true |
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| `ffn-bias` | false | false |
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| `attn-bias` | false | false |
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### Training Description
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| | Stage 1 | Stage 2 |
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| :------------------ | ----------: | ---------------------------: |
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| `dataset` | UR100P | UR100P |
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| `max-steps` | 1000000 | 25000 (120M) or 50000 (350M) |
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| `max-length` | 512 | 2048 |
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| `optimizer` | adamw | adamw |
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| `lr` | 0.001 | 0.0001 |
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| `betas` | (0.9, 0.95) | (0.9, 0.95) |
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| `eps` | 1.0e-08 | 1.0e-08 |
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| `weight-decay` | 0.01 | 0.01 |
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| `scheduler` | cosinedecay | none |
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| `warmup-steps` | 1,000 | none |
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| `final-step` | 900,000 | none |
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| `warmup-steps` | 1,000 | none |
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| `gradient-clipping` | 1.0 | 1.0 |
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| `tf32` | true | true |
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| `mixed-precision` | bf16 | bf16 |
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| `padding` | max-length | max-length |
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| `random-truncate` | true | true |
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| `mask-probability` | 0.15 | 0.15 |
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| `total-batch-size` | 4096 | 4096 |
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| `deepspeed` | true | true |
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| `zero-stage` | 3 | 3 |
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## Get Started
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```python
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from transformers import AutoModel
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from transformers import AutoTokenizer
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from datasets import load_dataset
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# Load AMPLIFY and tokenizer
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model = AutoModel.from_pretrained("nvidia/AMPLIFY_350M", trust_remote_code=True)
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tokenizer = AutoTokenizer.from_pretrained("nvidia/AMPLIFY_350M", trust_remote_code=True)
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# Move the model to GPU (required due to Flash Attention)
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model = model.to("cuda")
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# Load the UniProt validation set
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dataset = load_dataset("chandar-lab/UR100P", data_dir="UniProt", split="test")
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for sample in dataset:
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# Protein
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print("Sample: ", sample["name"], sample["sequence"])
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# Tokenize the protein
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input = tokenizer.encode(sample["sequence"], return_tensors="pt")
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print("Input: ", input)
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# Move to the GPU and make a prediction
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input = input.to("cuda")
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output = model(input)
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print("Output: ", output)
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break
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```
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## Citations
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| 110 |
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If you find the models useful in your research, we ask that you cite the paper:
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| 112 |
+
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| 113 |
+
```bibtex
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| 114 |
+
@article{Fournier2024.09.23.614603,
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title = {Protein Language Models: Is Scaling Necessary?},
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author = {Fournier, Quentin and Vernon, Robert M. and van der Sloot, Almer and Schulz, Benjamin and Chandar, Sarath and Langmead, Christopher James},
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year = {2024},
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| 118 |
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journal = {bioRxiv},
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publisher = {Cold Spring Harbor Laboratory},
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| 120 |
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doi = {10.1101/2024.09.23.614603},
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| 121 |
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url = {https://www.biorxiv.org/content/early/2024/09/23/2024.09.23.614603},
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| 122 |
+
elocation-id = {2024.09.23.614603},
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| 123 |
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eprint = {https://www.biorxiv.org/content/early/2024/09/23/2024.09.23.614603.full.pdf}
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}
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```
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| 1 |
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# SPDX-FileCopyrightText: Copyright (c) 2024 chandar-lab
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| 2 |
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# SPDX-FileCopyrightText: Copyright (c) 2025 NVIDIA CORPORATION & AFFILIATES. All rights reserved.
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| 3 |
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# SPDX-License-Identifier: MIT
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| 4 |
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#
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| 5 |
+
# Adapted from https://huggingface.co/chandar-lab/AMPLIFY_120M/blob/main/amplify.py
|
| 6 |
+
|
| 7 |
+
import torch
|
| 8 |
+
import transformer_engine.pytorch
|
| 9 |
+
from torch import nn
|
| 10 |
+
from transformer_engine.pytorch.attention.rope import RotaryPositionEmbedding
|
| 11 |
+
from transformers.configuration_utils import PretrainedConfig
|
| 12 |
+
from transformers.modeling_outputs import BaseModelOutput, MaskedLMOutput
|
| 13 |
+
from transformers.modeling_utils import PreTrainedModel
|
| 14 |
+
|
| 15 |
+
|
| 16 |
+
class AMPLIFYConfig(PretrainedConfig):
|
| 17 |
+
"""AMPLIFY model configuration."""
|
| 18 |
+
|
| 19 |
+
model_type = "AMPLIFY"
|
| 20 |
+
|
| 21 |
+
# All config parameters must have a default value.
|
| 22 |
+
def __init__(
|
| 23 |
+
self,
|
| 24 |
+
hidden_size: int = 960,
|
| 25 |
+
num_hidden_layers: int = 32,
|
| 26 |
+
num_attention_heads: int = 15,
|
| 27 |
+
intermediate_size: int = 3840,
|
| 28 |
+
dropout_prob: float = 0,
|
| 29 |
+
embedding_init_range: float = 0.02,
|
| 30 |
+
decoder_init_range: float = 0.02,
|
| 31 |
+
rms_norm: bool = True,
|
| 32 |
+
norm_eps: float = 1e-05,
|
| 33 |
+
hidden_act: str = "SwiGLU",
|
| 34 |
+
layer_norm_after_embedding: bool = False,
|
| 35 |
+
layer_norm_before_last_layer: bool = True,
|
| 36 |
+
vocab_size: int = 27,
|
| 37 |
+
ffn_bias: bool = False,
|
| 38 |
+
att_bias: bool = False,
|
| 39 |
+
pad_token_id: int = 0,
|
| 40 |
+
max_length: int = 2048,
|
| 41 |
+
**kwargs,
|
| 42 |
+
):
|
| 43 |
+
"""Initialize a AMPLIFYConfig.
|
| 44 |
+
|
| 45 |
+
Args:
|
| 46 |
+
hidden_size (int): The hidden size of the model.
|
| 47 |
+
num_hidden_layers (int): The number of hidden layers in the model.
|
| 48 |
+
num_attention_heads (int): The number of attention heads in the model.
|
| 49 |
+
intermediate_size (int): The intermediate size of the model.
|
| 50 |
+
dropout_prob (float): The dropout probability of the model.
|
| 51 |
+
embedding_init_range (float): The range of the embedding initialization.
|
| 52 |
+
decoder_init_range (float): The range of the decoder initialization.
|
| 53 |
+
rms_norm (bool): Whether to use RMSNorm.
|
| 54 |
+
norm_eps (float): The epsilon for the normalization.
|
| 55 |
+
hidden_act (str): The activation function of the model.
|
| 56 |
+
layer_norm_after_embedding (bool): Whether to use layer normalization after the embedding.
|
| 57 |
+
layer_norm_before_last_layer (bool): Whether to use layer normalization before the last layer.
|
| 58 |
+
vocab_size (int): The vocabulary size of the model.
|
| 59 |
+
ffn_bias (bool): Whether to use bias in the feedforward network.
|
| 60 |
+
att_bias (bool): Whether to use bias in the attention.
|
| 61 |
+
pad_token_id (int): The padding token id.
|
| 62 |
+
max_length (int): The maximum length of the sequence.
|
| 63 |
+
**kwargs: Additional arguments.
|
| 64 |
+
"""
|
| 65 |
+
super().__init__(**kwargs)
|
| 66 |
+
|
| 67 |
+
self.hidden_size = hidden_size
|
| 68 |
+
self.num_hidden_layers = num_hidden_layers
|
| 69 |
+
self.num_attention_heads = num_attention_heads
|
| 70 |
+
self.intermediate_size = intermediate_size
|
| 71 |
+
self.dropout_prob = dropout_prob
|
| 72 |
+
self.embedding_init_range = embedding_init_range
|
| 73 |
+
self.decoder_init_range = decoder_init_range
|
| 74 |
+
self.rms_norm = rms_norm
|
| 75 |
+
self.norm_eps = norm_eps
|
| 76 |
+
self.hidden_act = hidden_act
|
| 77 |
+
self.layer_norm_after_embedding = layer_norm_after_embedding
|
| 78 |
+
self.layer_norm_before_last_layer = layer_norm_before_last_layer
|
| 79 |
+
self.vocab_size = vocab_size
|
| 80 |
+
self.ffn_bias = ffn_bias
|
| 81 |
+
self.att_bias = att_bias
|
| 82 |
+
self.pad_token_id = pad_token_id
|
| 83 |
+
self.max_length = max_length
|
| 84 |
+
|
| 85 |
+
|
| 86 |
+
class AMPLIFYPreTrainedModel(PreTrainedModel):
|
| 87 |
+
"""AMPLIFY pre-trained model."""
|
| 88 |
+
|
| 89 |
+
config_class = AMPLIFYConfig
|
| 90 |
+
|
| 91 |
+
def _init_weights(self, module):
|
| 92 |
+
if isinstance(
|
| 93 |
+
module, (nn.Linear, transformer_engine.pytorch.Linear, transformer_engine.pytorch.LayerNormLinear)
|
| 94 |
+
):
|
| 95 |
+
module.weight.data.uniform_(-self.config.decoder_init_range, self.config.decoder_init_range)
|
| 96 |
+
if module.bias is not None:
|
| 97 |
+
module.bias.data.zero_()
|
| 98 |
+
if isinstance(module, nn.Embedding):
|
| 99 |
+
module.weight.data.uniform_(-self.config.embedding_init_range, self.config.embedding_init_range)
|
| 100 |
+
|
| 101 |
+
|
| 102 |
+
class AMPLIFY(AMPLIFYPreTrainedModel):
|
| 103 |
+
"""The main model class."""
|
| 104 |
+
|
| 105 |
+
def __init__(self, config: AMPLIFYConfig, **kwargs):
|
| 106 |
+
"""Initialize a AMPLIFY model.
|
| 107 |
+
|
| 108 |
+
Args:
|
| 109 |
+
config (AMPLIFYConfig): The configuration of the model.
|
| 110 |
+
**kwargs: Additional arguments.
|
| 111 |
+
"""
|
| 112 |
+
super().__init__(config)
|
| 113 |
+
|
| 114 |
+
self.config = config
|
| 115 |
+
|
| 116 |
+
self.encoder = nn.Embedding(
|
| 117 |
+
config.vocab_size,
|
| 118 |
+
config.hidden_size,
|
| 119 |
+
padding_idx=config.pad_token_id,
|
| 120 |
+
dtype=config.torch_dtype,
|
| 121 |
+
)
|
| 122 |
+
|
| 123 |
+
if config.layer_norm_after_embedding:
|
| 124 |
+
self.layer_norm_1 = (
|
| 125 |
+
transformer_engine.pytorch.RMSNorm(
|
| 126 |
+
config.hidden_size, config.norm_eps, params_dtype=config.torch_dtype
|
| 127 |
+
)
|
| 128 |
+
if config.rms_norm
|
| 129 |
+
else transformer_engine.pytorch.LayerNorm(
|
| 130 |
+
config.hidden_size, config.norm_eps, params_dtype=config.torch_dtype
|
| 131 |
+
)
|
| 132 |
+
)
|
| 133 |
+
|
| 134 |
+
if config.hidden_act.lower() == "swiglu":
|
| 135 |
+
# To keep the number of parameters and the amount of computation constant, we reduce the
|
| 136 |
+
# number of hidden units by a factor of 2/3 (https://arxiv.org/pdf/2002.05202.pdf) and
|
| 137 |
+
# make it a multiple of 8 to avoid RuntimeError due to misaligned operand
|
| 138 |
+
multiple_of = 8
|
| 139 |
+
intermediate_size = int(2 * config.intermediate_size / 3)
|
| 140 |
+
intermediate_size = multiple_of * ((intermediate_size + multiple_of - 1) // multiple_of)
|
| 141 |
+
|
| 142 |
+
self.transformer_encoder = nn.ModuleList()
|
| 143 |
+
for layer_num in range(config.num_hidden_layers):
|
| 144 |
+
self.transformer_encoder.append(
|
| 145 |
+
transformer_engine.pytorch.TransformerLayer(
|
| 146 |
+
hidden_size=config.hidden_size,
|
| 147 |
+
ffn_hidden_size=intermediate_size,
|
| 148 |
+
num_attention_heads=config.num_attention_heads,
|
| 149 |
+
layernorm_epsilon=config.norm_eps,
|
| 150 |
+
hidden_dropout=config.dropout_prob,
|
| 151 |
+
attention_dropout=config.dropout_prob,
|
| 152 |
+
apply_residual_connection_post_layernorm=False,
|
| 153 |
+
layer_type="encoder",
|
| 154 |
+
self_attn_mask_type="padding",
|
| 155 |
+
normalization="RMSNorm" if config.rms_norm else "LayerNorm",
|
| 156 |
+
fuse_qkv_params=True,
|
| 157 |
+
qkv_weight_interleaved=True,
|
| 158 |
+
output_layernorm=False,
|
| 159 |
+
bias=False,
|
| 160 |
+
activation=config.hidden_act.lower(),
|
| 161 |
+
attn_input_format="bshd",
|
| 162 |
+
layer_number=layer_num + 1,
|
| 163 |
+
name="encoder_block",
|
| 164 |
+
window_size=(-1, -1),
|
| 165 |
+
rotary_pos_interleaved=True,
|
| 166 |
+
seq_length=config.max_length,
|
| 167 |
+
params_dtype=config.torch_dtype,
|
| 168 |
+
)
|
| 169 |
+
)
|
| 170 |
+
|
| 171 |
+
self.freqs_cis = RotaryPositionEmbedding(config.hidden_size // config.num_attention_heads, interleaved=True)(
|
| 172 |
+
config.max_length
|
| 173 |
+
)
|
| 174 |
+
|
| 175 |
+
# Initialize weights and apply final processing
|
| 176 |
+
self.post_init()
|
| 177 |
+
|
| 178 |
+
def forward(
|
| 179 |
+
self,
|
| 180 |
+
input_ids,
|
| 181 |
+
attention_mask=None,
|
| 182 |
+
output_hidden_states=False,
|
| 183 |
+
output_attentions=False,
|
| 184 |
+
labels=None,
|
| 185 |
+
**kwargs,
|
| 186 |
+
) -> BaseModelOutput:
|
| 187 |
+
"""Forward pass of the AMPLIFY model.
|
| 188 |
+
|
| 189 |
+
Args:
|
| 190 |
+
input_ids (torch.Tensor): The input ids.
|
| 191 |
+
attention_mask (torch.Tensor): The attention mask.
|
| 192 |
+
output_hidden_states (bool): Whether to output the hidden states.
|
| 193 |
+
output_attentions (bool): Whether to output the attention weights.
|
| 194 |
+
labels (torch.Tensor): The labels.
|
| 195 |
+
**kwargs: Additional arguments.
|
| 196 |
+
|
| 197 |
+
Returns:
|
| 198 |
+
BaseModelOutput: The output of the model.
|
| 199 |
+
"""
|
| 200 |
+
# Initialize
|
| 201 |
+
hidden_states = []
|
| 202 |
+
|
| 203 |
+
# Attention mask
|
| 204 |
+
if attention_mask is not None and attention_mask.dtype is torch.int64:
|
| 205 |
+
# TE expects a boolean attention mask, where "True" indicates a token to be masked.
|
| 206 |
+
attention_mask = ~attention_mask.to(bool)
|
| 207 |
+
|
| 208 |
+
# RoPE
|
| 209 |
+
self.freqs_cis = self.freqs_cis.to(input_ids.device, non_blocking=True)
|
| 210 |
+
freqs_cis = self.freqs_cis[: input_ids.shape[1]]
|
| 211 |
+
|
| 212 |
+
# Embedding
|
| 213 |
+
x = self.encoder(input_ids)
|
| 214 |
+
if self.config.layer_norm_after_embedding:
|
| 215 |
+
x = self.layer_norm_1(x)
|
| 216 |
+
|
| 217 |
+
# Transformer encoder
|
| 218 |
+
for layer in self.transformer_encoder:
|
| 219 |
+
x = layer(x, attention_mask, rotary_pos_emb=freqs_cis)
|
| 220 |
+
if output_hidden_states:
|
| 221 |
+
hidden_states.append(x)
|
| 222 |
+
if output_attentions:
|
| 223 |
+
raise ValueError("output_attentions is not supported for TE")
|
| 224 |
+
|
| 225 |
+
return BaseModelOutput(
|
| 226 |
+
last_hidden_state=x,
|
| 227 |
+
hidden_states=tuple(hidden_states) if hidden_states else None,
|
| 228 |
+
attentions=None,
|
| 229 |
+
)
|
| 230 |
+
|
| 231 |
+
|
| 232 |
+
class AMPLIFYForMaskedLM(AMPLIFYPreTrainedModel):
|
| 233 |
+
"""AMPLIFY for masked language modeling."""
|
| 234 |
+
|
| 235 |
+
def __init__(self, config: AMPLIFYConfig, **kwargs):
|
| 236 |
+
"""Initialize a AMPLIFYForMaskedLM model.
|
| 237 |
+
|
| 238 |
+
Args:
|
| 239 |
+
config (AMPLIFYConfig): The configuration of the model.
|
| 240 |
+
**kwargs: Additional arguments.
|
| 241 |
+
"""
|
| 242 |
+
super().__init__(config)
|
| 243 |
+
self.amplify = AMPLIFY(config, **kwargs)
|
| 244 |
+
|
| 245 |
+
if config.layer_norm_before_last_layer:
|
| 246 |
+
self.decoder = transformer_engine.pytorch.LayerNormLinear(
|
| 247 |
+
config.hidden_size,
|
| 248 |
+
config.vocab_size,
|
| 249 |
+
config.norm_eps,
|
| 250 |
+
params_dtype=config.torch_dtype,
|
| 251 |
+
normalization="RMSNorm" if config.rms_norm else "LayerNorm",
|
| 252 |
+
init_method=lambda x: torch.nn.init.uniform_(
|
| 253 |
+
x, -self.config.decoder_init_range, self.config.decoder_init_range
|
| 254 |
+
),
|
| 255 |
+
)
|
| 256 |
+
|
| 257 |
+
else:
|
| 258 |
+
self.decoder = transformer_engine.pytorch.Linear(
|
| 259 |
+
config.hidden_size, config.vocab_size, params_dtype=config.torch_dtype
|
| 260 |
+
)
|
| 261 |
+
|
| 262 |
+
def forward(
|
| 263 |
+
self,
|
| 264 |
+
input_ids,
|
| 265 |
+
attention_mask=None,
|
| 266 |
+
output_hidden_states=False,
|
| 267 |
+
output_attentions=False,
|
| 268 |
+
labels=None,
|
| 269 |
+
**kwargs,
|
| 270 |
+
) -> MaskedLMOutput:
|
| 271 |
+
"""Forward pass of the AMPLIFYForMaskedLM model.
|
| 272 |
+
|
| 273 |
+
Args:
|
| 274 |
+
input_ids (torch.Tensor): The input ids.
|
| 275 |
+
attention_mask (torch.Tensor): The attention mask.
|
| 276 |
+
output_hidden_states (bool): Whether to output the hidden states.
|
| 277 |
+
output_attentions (bool): Whether to output the attention weights.
|
| 278 |
+
labels (torch.Tensor): The labels.
|
| 279 |
+
**kwargs: Additional arguments.
|
| 280 |
+
|
| 281 |
+
Returns:
|
| 282 |
+
MaskedLMOutput: The output of the model.
|
| 283 |
+
"""
|
| 284 |
+
outputs = self.amplify(
|
| 285 |
+
input_ids,
|
| 286 |
+
attention_mask,
|
| 287 |
+
output_hidden_states,
|
| 288 |
+
output_attentions,
|
| 289 |
+
labels,
|
| 290 |
+
**kwargs,
|
| 291 |
+
)
|
| 292 |
+
|
| 293 |
+
# Classification head with layer norm
|
| 294 |
+
logits = self.decoder(outputs.last_hidden_state)
|
| 295 |
+
|
| 296 |
+
if labels is not None:
|
| 297 |
+
loss = nn.functional.cross_entropy(logits.view(-1, logits.size(-1)), labels.view(-1))
|
| 298 |
+
|
| 299 |
+
else:
|
| 300 |
+
loss = None
|
| 301 |
+
|
| 302 |
+
# Return logits or the output of the last hidden layer
|
| 303 |
+
return MaskedLMOutput(
|
| 304 |
+
loss=loss,
|
| 305 |
+
logits=logits,
|
| 306 |
+
hidden_states=outputs.hidden_states,
|
| 307 |
+
)
|
config.json
ADDED
|
@@ -0,0 +1,38 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
+
"_name_": "AMPLIFY",
|
| 3 |
+
"architectures": [
|
| 4 |
+
"AMPLIFYForMaskedLM"
|
| 5 |
+
],
|
| 6 |
+
"att_bias": false,
|
| 7 |
+
"auto_map": {
|
| 8 |
+
"AutoConfig": "amplify_te.AMPLIFYConfig",
|
| 9 |
+
"AutoModel": "amplify_te.AMPLIFY",
|
| 10 |
+
"AutoModelForMaskedLM": "amplify_te.AMPLIFYForMaskedLM"
|
| 11 |
+
},
|
| 12 |
+
"bos_token_id": 3,
|
| 13 |
+
"decoder_init_range": 0.02,
|
| 14 |
+
"dropout_prob": 0,
|
| 15 |
+
"embedding_init_range": 0.02,
|
| 16 |
+
"eos_token_id": 4,
|
| 17 |
+
"ffn_bias": false,
|
| 18 |
+
"hidden_act": "SwiGLU",
|
| 19 |
+
"hidden_size": 640,
|
| 20 |
+
"intermediate_size": 2560,
|
| 21 |
+
"layer_norm_after_embedding": false,
|
| 22 |
+
"layer_norm_before_last_layer": true,
|
| 23 |
+
"mask_token_id": 2,
|
| 24 |
+
"max_length": 2048,
|
| 25 |
+
"model_type": "AMPLIFY",
|
| 26 |
+
"norm_eps": 1e-05,
|
| 27 |
+
"num_attention_heads": 10,
|
| 28 |
+
"num_hidden_layers": 24,
|
| 29 |
+
"other_special_token_ids": null,
|
| 30 |
+
"pad_token_id": 0,
|
| 31 |
+
"pre_activation_layer_norm": true,
|
| 32 |
+
"rms_norm": true,
|
| 33 |
+
"torch_dtype": "float32",
|
| 34 |
+
"transformers_version": "4.54.0.dev0",
|
| 35 |
+
"unk_token_id": 1,
|
| 36 |
+
"vocab_path": "conf/tokenizer/amplify_vocab.txt",
|
| 37 |
+
"vocab_size": 27
|
| 38 |
+
}
|
model.safetensors
ADDED
|
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
version https://git-lfs.github.com/spec/v1
|
| 2 |
+
oid sha256:4c24689ec4865382b883b0f7bfbb4b504dc3d671c71270dcd209422fa53553df
|
| 3 |
+
size 473138596
|
special_tokens_map.json
ADDED
|
@@ -0,0 +1,37 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
+
"bos_token": {
|
| 3 |
+
"content": "<bos>",
|
| 4 |
+
"lstrip": false,
|
| 5 |
+
"normalized": false,
|
| 6 |
+
"rstrip": false,
|
| 7 |
+
"single_word": false
|
| 8 |
+
},
|
| 9 |
+
"eos_token": {
|
| 10 |
+
"content": "<eos>",
|
| 11 |
+
"lstrip": false,
|
| 12 |
+
"normalized": false,
|
| 13 |
+
"rstrip": false,
|
| 14 |
+
"single_word": false
|
| 15 |
+
},
|
| 16 |
+
"mask_token": {
|
| 17 |
+
"content": "<mask>",
|
| 18 |
+
"lstrip": false,
|
| 19 |
+
"normalized": false,
|
| 20 |
+
"rstrip": false,
|
| 21 |
+
"single_word": false
|
| 22 |
+
},
|
| 23 |
+
"pad_token": {
|
| 24 |
+
"content": "<pad>",
|
| 25 |
+
"lstrip": false,
|
| 26 |
+
"normalized": false,
|
| 27 |
+
"rstrip": false,
|
| 28 |
+
"single_word": false
|
| 29 |
+
},
|
| 30 |
+
"unk_token": {
|
| 31 |
+
"content": "<unk>",
|
| 32 |
+
"lstrip": false,
|
| 33 |
+
"normalized": false,
|
| 34 |
+
"rstrip": false,
|
| 35 |
+
"single_word": false
|
| 36 |
+
}
|
| 37 |
+
}
|
tokenizer.json
ADDED
|
@@ -0,0 +1,154 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
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|
|
|
|
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|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
+
"version": "1.0",
|
| 3 |
+
"truncation": null,
|
| 4 |
+
"padding": null,
|
| 5 |
+
"added_tokens": [
|
| 6 |
+
{
|
| 7 |
+
"id": 0,
|
| 8 |
+
"content": "<pad>",
|
| 9 |
+
"single_word": false,
|
| 10 |
+
"lstrip": false,
|
| 11 |
+
"rstrip": false,
|
| 12 |
+
"normalized": false,
|
| 13 |
+
"special": true
|
| 14 |
+
},
|
| 15 |
+
{
|
| 16 |
+
"id": 1,
|
| 17 |
+
"content": "<unk>",
|
| 18 |
+
"single_word": false,
|
| 19 |
+
"lstrip": false,
|
| 20 |
+
"rstrip": false,
|
| 21 |
+
"normalized": false,
|
| 22 |
+
"special": true
|
| 23 |
+
},
|
| 24 |
+
{
|
| 25 |
+
"id": 2,
|
| 26 |
+
"content": "<mask>",
|
| 27 |
+
"single_word": false,
|
| 28 |
+
"lstrip": false,
|
| 29 |
+
"rstrip": false,
|
| 30 |
+
"normalized": false,
|
| 31 |
+
"special": true
|
| 32 |
+
},
|
| 33 |
+
{
|
| 34 |
+
"id": 3,
|
| 35 |
+
"content": "<bos>",
|
| 36 |
+
"single_word": false,
|
| 37 |
+
"lstrip": false,
|
| 38 |
+
"rstrip": false,
|
| 39 |
+
"normalized": false,
|
| 40 |
+
"special": true
|
| 41 |
+
},
|
| 42 |
+
{
|
| 43 |
+
"id": 4,
|
| 44 |
+
"content": "<eos>",
|
| 45 |
+
"single_word": false,
|
| 46 |
+
"lstrip": false,
|
| 47 |
+
"rstrip": false,
|
| 48 |
+
"normalized": false,
|
| 49 |
+
"special": true
|
| 50 |
+
}
|
| 51 |
+
],
|
| 52 |
+
"normalizer": null,
|
| 53 |
+
"pre_tokenizer": {
|
| 54 |
+
"type": "Split",
|
| 55 |
+
"pattern": {
|
| 56 |
+
"String": ""
|
| 57 |
+
},
|
| 58 |
+
"behavior": "Removed",
|
| 59 |
+
"invert": false
|
| 60 |
+
},
|
| 61 |
+
"post_processor": {
|
| 62 |
+
"type": "TemplateProcessing",
|
| 63 |
+
"single": [
|
| 64 |
+
{
|
| 65 |
+
"SpecialToken": {
|
| 66 |
+
"id": "<bos>",
|
| 67 |
+
"type_id": 0
|
| 68 |
+
}
|
| 69 |
+
},
|
| 70 |
+
{
|
| 71 |
+
"Sequence": {
|
| 72 |
+
"id": "A",
|
| 73 |
+
"type_id": 0
|
| 74 |
+
}
|
| 75 |
+
},
|
| 76 |
+
{
|
| 77 |
+
"SpecialToken": {
|
| 78 |
+
"id": "<eos>",
|
| 79 |
+
"type_id": 0
|
| 80 |
+
}
|
| 81 |
+
}
|
| 82 |
+
],
|
| 83 |
+
"pair": [
|
| 84 |
+
{
|
| 85 |
+
"Sequence": {
|
| 86 |
+
"id": "A",
|
| 87 |
+
"type_id": 0
|
| 88 |
+
}
|
| 89 |
+
},
|
| 90 |
+
{
|
| 91 |
+
"Sequence": {
|
| 92 |
+
"id": "B",
|
| 93 |
+
"type_id": 1
|
| 94 |
+
}
|
| 95 |
+
}
|
| 96 |
+
],
|
| 97 |
+
"special_tokens": {
|
| 98 |
+
"<bos>": {
|
| 99 |
+
"id": "<bos>",
|
| 100 |
+
"ids": [
|
| 101 |
+
3
|
| 102 |
+
],
|
| 103 |
+
"tokens": [
|
| 104 |
+
"<bos>"
|
| 105 |
+
]
|
| 106 |
+
},
|
| 107 |
+
"<eos>": {
|
| 108 |
+
"id": "<eos>",
|
| 109 |
+
"ids": [
|
| 110 |
+
4
|
| 111 |
+
],
|
| 112 |
+
"tokens": [
|
| 113 |
+
"<eos>"
|
| 114 |
+
]
|
| 115 |
+
}
|
| 116 |
+
}
|
| 117 |
+
},
|
| 118 |
+
"decoder": null,
|
| 119 |
+
"model": {
|
| 120 |
+
"type": "WordPiece",
|
| 121 |
+
"unk_token": "<unk>",
|
| 122 |
+
"continuing_subword_prefix": "##",
|
| 123 |
+
"max_input_chars_per_word": 100,
|
| 124 |
+
"vocab": {
|
| 125 |
+
"<pad>": 0,
|
| 126 |
+
"<unk>": 1,
|
| 127 |
+
"<mask>": 2,
|
| 128 |
+
"<bos>": 3,
|
| 129 |
+
"<eos>": 4,
|
| 130 |
+
"|": 5,
|
| 131 |
+
"L": 6,
|
| 132 |
+
"A": 7,
|
| 133 |
+
"G": 8,
|
| 134 |
+
"V": 9,
|
| 135 |
+
"S": 10,
|
| 136 |
+
"E": 11,
|
| 137 |
+
"R": 12,
|
| 138 |
+
"T": 13,
|
| 139 |
+
"I": 14,
|
| 140 |
+
"D": 15,
|
| 141 |
+
"P": 16,
|
| 142 |
+
"K": 17,
|
| 143 |
+
"Q": 18,
|
| 144 |
+
"N": 19,
|
| 145 |
+
"F": 20,
|
| 146 |
+
"Y": 21,
|
| 147 |
+
"M": 22,
|
| 148 |
+
"H": 23,
|
| 149 |
+
"W": 24,
|
| 150 |
+
"C": 25,
|
| 151 |
+
"B": 26
|
| 152 |
+
}
|
| 153 |
+
}
|
| 154 |
+
}
|
tokenizer_config.json
ADDED
|
@@ -0,0 +1,59 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
+
"added_tokens_decoder": {
|
| 3 |
+
"0": {
|
| 4 |
+
"content": "<pad>",
|
| 5 |
+
"lstrip": false,
|
| 6 |
+
"normalized": false,
|
| 7 |
+
"rstrip": false,
|
| 8 |
+
"single_word": false,
|
| 9 |
+
"special": true
|
| 10 |
+
},
|
| 11 |
+
"1": {
|
| 12 |
+
"content": "<unk>",
|
| 13 |
+
"lstrip": false,
|
| 14 |
+
"normalized": false,
|
| 15 |
+
"rstrip": false,
|
| 16 |
+
"single_word": false,
|
| 17 |
+
"special": true
|
| 18 |
+
},
|
| 19 |
+
"2": {
|
| 20 |
+
"content": "<mask>",
|
| 21 |
+
"lstrip": false,
|
| 22 |
+
"normalized": false,
|
| 23 |
+
"rstrip": false,
|
| 24 |
+
"single_word": false,
|
| 25 |
+
"special": true
|
| 26 |
+
},
|
| 27 |
+
"3": {
|
| 28 |
+
"content": "<bos>",
|
| 29 |
+
"lstrip": false,
|
| 30 |
+
"normalized": false,
|
| 31 |
+
"rstrip": false,
|
| 32 |
+
"single_word": false,
|
| 33 |
+
"special": true
|
| 34 |
+
},
|
| 35 |
+
"4": {
|
| 36 |
+
"content": "<eos>",
|
| 37 |
+
"lstrip": false,
|
| 38 |
+
"normalized": false,
|
| 39 |
+
"rstrip": false,
|
| 40 |
+
"single_word": false,
|
| 41 |
+
"special": true
|
| 42 |
+
}
|
| 43 |
+
},
|
| 44 |
+
"bos_token": "<bos>",
|
| 45 |
+
"clean_up_tokenization_spaces": true,
|
| 46 |
+
"eos_token": "<eos>",
|
| 47 |
+
"extra_special_tokens": {},
|
| 48 |
+
"mask_token": "<mask>",
|
| 49 |
+
"model_input_names": [
|
| 50 |
+
"input_ids",
|
| 51 |
+
"attention_mask"
|
| 52 |
+
],
|
| 53 |
+
"model_max_length": 2048,
|
| 54 |
+
"pad_token": "<pad>",
|
| 55 |
+
"padding_side": "right",
|
| 56 |
+
"tokenizer_class": "PreTrainedTokenizerFast",
|
| 57 |
+
"truncation_side": "right",
|
| 58 |
+
"unk_token": "<unk>"
|
| 59 |
+
}
|