google-deepmind / google-deepmind/alphafold

Function about MAP_HHBLITS_AATYPE_TO_OUR_AATYPE

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Description

In monomer inference, there are two function, _**alphafold.model.tf.data_transforms.correct_msa_restypes**_ and **alphafold.model.tf.data_transforms.fix_template_aatype**, to correct msa restype and template_aatype to have the same order as residue_constants, respectively.
In multimer inference, before the same operation as monomer inference in multimer inference, there is **alphafold.data.feature_processing._correct_msa_restypes** to correct msa restype to have the same order as residue_constants.
In my understanding, you did twice correct_msa_retypes in multimer inference. One is in the msa pairing and another is in process_features. Is it right? Is it specific for multimer training and inference?
Actually, I have tested that difference times for correcting msa restypes produce different outputs.

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