Rocco Moretti

I don't see anything in the quoted warnings errors which immediately be suspect. I would suggest dumping the PDB after loading and checking if everything looks like you expect it...

The AntibodyDesignMover tag below can be loaded with the `XmlObjects` functionality, as done in Tut A1. Sequence Design. -- Alternatively, what that does is effectively instantiate the `rosettta.protocols.antibody.AntibodyDesignMover` and then...

It's hard to say without knowing which residue is unable to be mutated, but often the issue is related to the patch state of the residue in question, particularly patches...

* The PyRosetta download username/password is different from the (command line) Rosetta username/password. Check that you're using the correct one. (You will have to obtain a separate PyRosetta license to...

I've seen this most often when for some reason the CPU version of PyTorch gets installed. You may need to re-install pytorch with conda, being sure to use the PyTorch...

The 'NO GPU DETECTED!' message can indeed happen when you've installed the CPU versions of pytorch, despite having a GPU available. -- You can confirm this with the command `conda...

This is entirely dependent on your problem statement. You often have a pre-existing notion of where the binder is supposed to go. For example, if you want to make a...

The slashes which separate the contig specifications are forward slashes (`/`) not backslashes (`\`).

I don't know if it will work in your case, but using mamba (or `--solver libmamba`) does help a bunch on complex installs. That said, I'd recommended installing RFDiffusion into...

The purpose of RFDiffusion is to generate novel backbones. So the key in applying RFDiffusion to your biological problem is translating your specification ("package more kb") into a set of...