Kyle Hippe

icon indicating an email [email protected]

icon company University of Chicago icon location Chicago, IL icon location PhD Student at The University of Chicago

Results 6 comments of Kyle Hippe

Spire DB Download?

Hi, have any of you gotten the spire_db to work locally with colabfold_search? Running into issues generating multimer alignments with the download + untar hosted on the download site

Spire DB Download?

Thanks all for the insight here, this is very helpful. @martin-steinegger or @tlitfin-unsw would it be possible to point to the tax db/mappings that you all used?

Spire DB Download?

Thank you!

Any limit on the input protein length for ESM C?

According to the blog post it looks like 2048 > Training stages. ESM C is trained in two stages: > Stage 1: For the first 1 million steps, the model...

Is there any more flexible way to set up the pretrained_model folder loading instead of downloading from huggingface or put into .cache/huggingface

The internal code bootstraps from the HF model https://github.com/evo-design/evo/blob/924231208c9da2ae20a0bc33ca7c929423cdd831/evo/models.py#L71 So you can set your `HF_HOME` environment variable and it will download it once to that location, and every other time...

Recreate MSA Server Outputs Locally

Hi, sorry for the multiple messages but I have gotten the MSA server (in `MsaServer/`) up and running and even after letting this set up as specified by the `setup-and-start-local.sh`...