Gustaf Ahdritz

AF2 generates the different PDB files using different sets of model parameters (of which it runs 5 by default). This functionality can be replicated (barring the `config_preset` issue) by just...

That "Exactly" message is outdated. I'll change it now. We don't have pLDDT ranking built in ATM, but I can add it reasonably soon.

Yes, this is a bug. I'll fix this later today.

Sorry for the delay here. I just pushed e56b597, which fixes the template masking bug. I was unable to reproduce the second issue. Perhaps a product of your own changes?...

Try 2986436.

I noticed the same thing earlier and fixed it in 349fdbd.

The cluster file isn't downloaded by default by the installation script, as the cluster file you'll want to use depends on your choice of training databases. For the default AlphaFold...

Just move 400 mmCIF files to a new directory and run the script on those.

`mmcif_dir` contains training data in the form of .cif mmCIF files or PDB files with all of the columns output by OpenFold (the latter format is intended to be used...

It's a positional parameter on the second line ("2021-10-10")