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VocabAlphabet

ferritin_plms::registry

Enum VocabAlphabet 

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pub enum VocabAlphabet {
    SaProtPairs,
    SingleResidue,
}
Expand description

How to read a sequence against a bare vocab.txt.

Split out from TokenizerSpec::HfVocabTxt because that variant used to mean “SaProt” in practice: both the runner and the conformance suite branched on the bare variant to pick SaProt’s two-character alphabet. A second vocab.txt model over a one-character alphabet — ProtBert was the concrete case — would silently have been fed M#Q#I#…, made every residue <unk>, and still passed the shape assertions (ferritin-goh.11).

Variants§

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SaProtPairs

SaProt: two characters per residue over a 20x20 (amino acid, 3Di) product alphabet, with <cls>/<pad>/<eos>/<unk> specials.

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SingleResidue

One character per residue over the plain amino-acid alphabet — the BERT-style protein models, with [PAD]/[UNK]/[CLS]/[SEP]/ [MASK] specials.

Trait Implementations§

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impl Clone for VocabAlphabet

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fn clone(&self) -> VocabAlphabet

Returns a duplicate of the value. Read more
1.0.0 (const: unstable) · Source§

fn clone_from(&mut self, source: &Self)

Performs copy-assignment from source. Read more
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impl Copy for VocabAlphabet

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impl Debug for VocabAlphabet

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fn fmt(&self, f: &mut Formatter<'_>) -> Result

Formats the value using the given formatter. Read more
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impl Eq for VocabAlphabet

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impl PartialEq for VocabAlphabet

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fn eq(&self, other: &VocabAlphabet) -> bool

Tests for self and other values to be equal, and is used by ==.
1.0.0 (const: unstable) · Source§

fn ne(&self, other: &Rhs) -> bool

Tests for !=. The default implementation is almost always sufficient, and should not be overridden without very good reason.
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impl StructuralPartialEq for VocabAlphabet

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