andycowie

This seems to be a resolved permissions problem - closing for now, feel free to reopen if this is still a problem.

It seems the execution may have failed during the model prediction - the log you specify says that the process was killed. I cannot see more information on what caused...

Thanks @liuqs1990 for the comprehensive traces. Am I right in thinking you are running under WSL (Windows?). We would recommend that you try running in native Linux if possible, as...

We found no significant difference in results when updating the databases for the open sourcing - but it might have a large impact on some individual sequences as their related...

If you wish to include an `a3m` from another tool you could read it and parse it in the same way as the bfd `a3m` here: https://github.com/deepmind/alphafold/blob/0007c352272415f70c921d8533a1b9e2d824f21f/alphafold/data/pipeline.py#L221 and featurise it...

The multimer model does model the interaction between the two proteins - it attempts to predict how they will form a complex. In this case you should follow the instructions...

Hi @chersiakingdom, you are correct, AlphaFold Multimer predicts complexes from individual chains. If you wish to look at interaction between complexes, the fasta file format you outline is the correct...