RFD3 output cif contains duplicates in id coulmn

[TristynAlxander]

I apologize that I don't know the setting to make rfd3 fully deterministic; however, I believe this should be fairly reproducible.

Run Command:

rfd3 design out_dir=/path/to/output inputs=/path/to/glob.json dump_trajectories=False prevalidate_inputs=True diffusion_batch_size=1 seed=42

with glob.json:

{
  "glob": {
    "length": "100-100",
    "is_non_loopy":true
    }
}

My output json:

{
    "diffused_index_map": {},
    "metrics": {
        "max_ca_deviation": 0.08025217056274414,
        "n_chainbreaks": 0,
        "n_clashing.interresidue_clashes_w_sidechain": 0,
        "n_clashing.interresidue_clashes_w_backbone": 0,
        "non_loop_fraction": 0.87,
        "loop_fraction": 0.13,
        "helix_fraction": 0.87,
        "sheet_fraction": 0.0,
        "num_ss_elements": 4,
        "radius_of_gyration": 13.636231638805786,
        "alanine_content": 0.14,
        "glycine_content": 0.01,
        "num_residues": 100,
        "diffused_com": [
            1.206663727760315,
            0.28238099813461304,
            -2.9324238300323486
        ]
    },
    "specification": {
        "length": "100-100",
        "extra": {
            "example": "glob",
            "task_name": "glob_glob",
            "sampled_contig": "100",
            "num_tokens_in": 100,
            "num_residues_in": 100,
            "num_chains": 1,
            "num_atoms": 500,
            "num_residues": 101,
            "example_id": "glob_glob_0"
        },
        "is_non_loopy": true
    },
    "ckpt_path": "/home/tristin/downloads/large_language_models/foundry/rfd3_latest.ckpt",
    "seed": 42
}

Now the output structure (after gunzip) seems to vary very slightly, but I'm pretty consistently duplicates in id 19:

...
ATOM C CB  . ASP A 0 4   . 4   ASP A CB  19  3.6175138405647456e-12 1.0 ? False -10.776768   -2.932267    4.327731     1
ATOM C CG  . ASP A 0 4   . 4   ASP A CG  19  3.6175138405647456e-12 1.0 ? False -11.970276   -2.7417085   5.2360744    1
ATOM O OD1 . ASP A 0 4   . 4   ASP A OD1 19  3.6175138405647456e-12 1.0 ? False -12.903551   -2.0365722   4.8578053    1
ATOM O OD2 . ASP A 0 4   . 4   ASP A OD2 19  3.6175138405647456e-12 1.0 ? False -11.906276   -3.3094902   6.332546     1
...

While pymol isn't bothered by this cif2pdb doesn't seem to like it -- I guess it's not proper cif format. I can renumber easily enough, but I figured I should note the issue in case you think it's something rfd3 should be doing.