PEER_Benchmark

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In [ProtTrans](https://doi.org/10.1109/TPAMI.2021.3095381), the author says that: > No auxiliary tasks like BERT's next-sentence prediction were used for any model described here. But in the PEER, the `[CLS]` token is used...

ww-rm

get datasets?

1

Sorry to bother, how can I obtain the processed dataset? Some datasets have been updated.

tyang816

EnzymeCommissions always NaN using ESM fixed

8

Hi, I used your EnzymeCommissions to benchmark ESM and it looks like the loss is still NaN at epoch 20. Shall I change the yaml (copied from GearNet)?

jasperhyp

Is there any way to run the scripts on colab both compatible with torchdrug and PEER_benchmark? I couldn't downgrade versions of python and cuda, also colab not allowed to download...

beyzoskaya