211aa0338832919b41cedf4ffb8ca26369048a18,src/biopython/structure/integrity.py,,check_bond_continuity,#Any#Any#Any#,41

Before Change

    sq_distance = np.sum(diff**2, axis=1)
    sq_min_len = min_len**2
    sq_max_len = max_len**2
    discontinuity = np.where( ((sq_distance < sq_min_len) |
                               (sq_distance > sq_max_len)) )
    return discontinuity[0] + 1

After Change

    discon_mask = np.concatenate(([False], discon_mask))
    // discon_mask is true for discontinuity in backbone
    // map it back to get discontinuity for original atom array
    discon_mask_full = np.zeros(array.array_length(), dtype=bool)
    discon_mask_full[backbone_mask] = discon_mask
    discontinuity = np.where(discon_mask_full)
    return discontinuity[0]

Instances