Update README.md
Browse files
README.md
CHANGED
@@ -8,23 +8,6 @@ FastESM is a Huggingface compatible plug in version of ESM2 rewritten with a new
|
|
8 |
|
9 |
Load any ESM2 models into a FastEsm model to dramatically speed up training and inference without **ANY** cost in performance.
|
10 |
|
11 |
-
## Use with 🤗 transformers
|
12 |
-
```python
|
13 |
-
from transformers import AutoModel, AutoModelForMaskedLM, AutoModelForSequenceClassification, AutoModelForTokenClassification # any of these work
|
14 |
-
|
15 |
-
model_dict = {
|
16 |
-
'ESM2-8': 'facebook/esm2_t6_8M_UR50D',
|
17 |
-
'ESM2-35': 'facebook/esm2_t12_35M_UR50D',
|
18 |
-
'ESM2-150': 'facebook/esm2_t30_150M_UR50D',
|
19 |
-
'ESM2-650': 'facebook/esm2_t33_650M_UR50D',
|
20 |
-
'ESM2-3B': 'facebook/esm2_t36_3B_UR50D',
|
21 |
-
'ESM2-15B': 'facebook/esm2_t48_15B_UR50D',
|
22 |
-
}
|
23 |
-
|
24 |
-
model = AutoModelForMaskedLM.from_pretrained(model_dict['ESM2-8'], trust_remote_code=True)
|
25 |
-
tokenizer = model.tokenizer
|
26 |
-
```
|
27 |
-
|
28 |
Outputting attention maps (or the contact prediction head) is not natively possible with SDPA. You can still pass ```output_attentions``` to have attention calculated manually and returned.
|
29 |
Various other optimizations also make the base implementation slightly different than the one in transformers.
|
30 |
|
|
|
8 |
|
9 |
Load any ESM2 models into a FastEsm model to dramatically speed up training and inference without **ANY** cost in performance.
|
10 |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
11 |
Outputting attention maps (or the contact prediction head) is not natively possible with SDPA. You can still pass ```output_attentions``` to have attention calculated manually and returned.
|
12 |
Various other optimizations also make the base implementation slightly different than the one in transformers.
|
13 |
|