5bb852f9c85cf39dfee5a92d9fc8e1f36ad38b02,src/biotite/structure/basepairs.py,,base_pairs,#Any#Any#Any#,509

Before Change

    basepairs_hbonds = []

    for base1_index, base2_index in basepair_candidates:
        base1_mask, base2_mask = get_residue_masks(
            atom_array, (base1_index, base2_index)
        )
        base1 = atom_array[base1_mask]
        base2 = atom_array[base2_mask]
        hbonds =  _check_dssr_criteria(
            (base1, base2), min_atoms_per_base, unique

After Change

    basepairs_hbonds = []

    // Get the residue masks for each residue
    base_masks = get_residue_masks(atom_array, basepair_candidates.flatten())

    // Group every two masks together for easy iteration (each "row" is
    // respective to a row in basepair_candidates)
    base_masks = base_masks.reshape(
        (basepair_candidates.shape[0], 2, atom_array.shape[0])
    )

    for (base1_index, base2_index), (base1_mask, base2_mask) in zip(
        basepair_candidates, base_masks
    ):

Instances