alphapulldown-input-parser 0.4.0

Fold specification parser for AlphaPulldown

alphapulldown-input-parser

Reusable parser for AlphaPulldown-style fold specifications. Install it with:

pip install "alphapulldown-input-parser>=0.4.0"

or, for local development:

pip install -e /path/to/alphapulldown-input-parser

The package exposes two helpers:

• parse_fold(...) – mirrors the historical AlphaPulldown helper and performs feature existence checks.
• expand_fold_specification(...) – expands a single fold string without raising if features are missing.

The parser is dependency-free and works across AlphaPulldown, the Snakemake pipeline, or any other tooling that consumes the same fold syntax.

As of 0.4.0, AF3 JSON feature files support the same copy/range suffixes as classic AlphaPulldown feature pickles. For example:

parse_fold(
    ["P01258_af3_input.json:1-100:2"],
    features_directory=["/path/to/features"],
    protein_delimiter="+",
)

This expands to two folding entries for the same AF3 JSON feature file, each restricted to residues 1-100.