The final version of foldseek

[zqgao22]

Hi the Foldseek Team:

May I ask whether ./training/data/foldseek_v1/encoder.pt is the final checkpoint? We find that the 3Di result from ./training/encode_pdbs.py does not match that from the official Foldseek cpp software. For example, for the 'd1a0aa_' pdb file, the python script outputs RBRBRBBRRBRBJNBRJRRJRRMACMRRBRRCCCMCMCPRRBRRRPBRORRMRMMMMMX, but the server outputs MKRESHKHAEQARRNRLAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQQNGST. Could you please help find the reason?

Best.