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Alphafold3 with dimer #579

@Jianghexiliu

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@Jianghexiliu

Hi,
I am running AlphaPulldown in AlphaFold3 mode, and get an error like this:
FileNotFoundError: ['P0AEZ3:2_af3_input.json'] not found in ['/data/AlphaPulldownSnakemake/output_file/features']
When I testing with monomer, there is no problem, while it gives an error when I try to run with dimer.
Does someone has the same problem?
Best,
Wei

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