Rachel Clune

Hello, Unfortunately Sergey's Colab notebook is not yet set up to run the new RFpeptide capabilities, which is why you are having trouble finding where to change the `inference.cyclic` and...

Since RFdiffusion only generates backbone structures, not sequences, there is no way to tell it to include 2 Cys residues in the generated portions of the structure. There may be...

Based on your error message this appears to be a CUDA issue. Does this only happen with the `design_macrocylic_binder.sh` and `design_macrocyclic_monomer.sh` examples or with every attempt at running RFdiffusion's inference...

I believe that even if you switch the order of the contigs (`contigmap.contigs=[A3-117/0 12-14]`) the binder will still be generated at the beginning of the target. This situation appears `design_ppi.sh`...

What errors are you running into? If you have a google account you can run the notebook from your web browser via Google CoLab, which should avoid any issues with...

I would recommend using the [Docker image for RFdiffusion](https://hub.docker.com/r/rosettacommons/rfdiffusion) or installing it on your system (see this [installation guide](https://sites.google.com/omsf.io/rfdiffusion/getting-started/installation)) rather than using the notebook. The linked installation guide has instructions...

There is currently not a Rosetta Commons Docker image that supports this architecture nor are we aware of installation instructions that will work with linux-aarch64 systems. We are looking into...

Is does your 'target site' for the binder involve the small molecule? Also keep in mind that while what you quoted is their definition for a hotspot residue, but only...

Hello, datapipes is no longer part of torchdata as of around June 2024. Please follow the installation steps here: [RFdiffusion Installation Guide](https://sites.google.com/omsf.io/rfdiffusion/getting-started/installation), the SE3nv.yml should set up the correct environment...

There is currently not a Rosetta Commons Docker image that supports this architecture nor are we aware of installation instructions that will work with linux-aarch64 systems. We are looking into...