Gustaf Ahdritz

Sorry guys --- I just want to acknowledge that I've seen this and have it on my to-do list. I'm a little swamped with CASP stuff at the moment. The...

This isn't currently supported, but I should be able to add it fairly easily. I think it would just be a matter of adding a single flag inside `colabfold_search.sh`. I'll...

Try increasing the length of the training epoch.

Yes. As for the format of the AWS data, you'll need to reformat it slightly. For each chain, you'll want to flatten the hhr and a3m directories, such that the...

Could you share your training command? Also, have you modified your config at all?

Is this being run on a single SLURM node, or multiple?

Hm not able to reproduce. Could you share a sample of the directory structure of /pscratch/sd/b/bz186/openfold/data/alignment_openfold? Also, try placing a print statement in the `if` block starting on line 333...

How about the filter thing (I edited my previous message)?

Could you count how many of your proteins are getting filtered out by that function? I see for example that the resolution of this protein is very high---this one gets...

How about the probabilities that come out of the stochastic filter? Are those really small?