Question: How can I obtain ~same speed as the server ?

[crisdarbellay]

Hello,

First of all thank you for sharing your work!

I tried to install and use colabfold locally, and use colabfold_search instead of the server (I have ~7000 proteins to predict). I managed to use it, and mobilised the required ressources (1tb ram, performant CPU etc), but I still can't manage to obtain the .a3m files with a correct speed. It takes ~1h per protein. I used this tutorial https://qiita.com/Ag_smith/items/bfcf94e701f1e6a2aa90 as an example for my code.

Could I see more examples of how do you run colabfold_search, especially for a folder full of fasta files?

• OS: Ubuntu 22.04