/**
 * Copyright (c) 2018-2022 mol* contributors, licensed under MIT, See LICENSE file for more info.
 *
 * @author David Sehnal <david.sehnal@gmail.com>
 * @author Alexander Rose <alexander.rose@weirdbyte.de>
 */
import { Column } from '../../../../../mol-data/db.js';
import { Segmentation } from '../../../../../mol-data/int.js';
import { ElementIndex, ChainIndex, EntityIndex } from '../../indexing.js';
import { SortedRanges } from '../../../../../mol-data/int/sorted-ranges.js';
export interface CoarsedElementKeys {
    /** Assign a key to each element */
    chainKey: ArrayLike<ChainIndex>;
    /** Assign a key to each element, index to the Model.entities.data table */
    entityKey: ArrayLike<EntityIndex>;
    /** Find index of the residue/feature element where seq_id is included */
    findSequenceKey(entityId: string, asym_id: string, seq_id: number): ElementIndex;
    findChainKey(entityId: string, asym_id: string): ChainIndex;
    /** Returns index or -1 if not present. */
    getEntityFromChain(cI: ChainIndex): EntityIndex;
}
export interface CoarseElementData {
    count: number;
    /**
     * The entity identifier corresponding to this coarse object.
     * In mmCIF files, this points to entity_poly_seq.entity_id in the ENTITY_POLY category.
     */
    entity_id: Column<string>;
    /**
     * An asym/strand identifier corresponding to this coarse object.
     * In mmCIF files, this points to struct_asym.id in the STRUCT_ASYM category
     */
    asym_id: Column<string>;
    /**
     * The leading sequence index corresponding to this coarse object.
     * In mmCIF files, this points to entity_poly_seq.num in the ENTITY_POLY category.
     */
    seq_id_begin: Column<number>;
    /**
     * The trailing sequence index corresponding to this coarse object.
     * In mmCIF files, this points to entity_poly_seq.num in the ENTITY_POLY category.
     */
    seq_id_end: Column<number>;
    chainElementSegments: Segmentation<ElementIndex, ChainIndex>;
}
export interface CoarseRanges {
    polymerRanges: SortedRanges<ElementIndex>;
    gapRanges: SortedRanges<ElementIndex>;
}
export type CoarseElements = CoarsedElementKeys & CoarseElementData & CoarseRanges;
export interface CoarseHierarchy {
    isDefined: boolean;
    spheres: CoarseElements;
    gaussians: CoarseElements;
    index: CoarseIndex;
}
export interface CoarseIndex {
    /**
     * Find element index of a sphere
     * @param key
     * @returns index or -1 if the atom is not present.
     */
    findSphereElement(key: CoarseElementKey): ElementIndex;
    /**
     * Find element index of a gaussian
     * @param key
     * @returns index or -1 if the atom is not present.
     */
    findGaussianElement(key: CoarseElementKey): ElementIndex;
    /**
     * Finds coarse element and assigns a reference to it.
     * @param key
     */
    findElement(key: CoarseElementKey, out: CoarseElementReference): boolean;
}
export interface CoarseElementReference {
    kind?: 'spheres' | 'gaussians';
    index: ElementIndex;
}
export declare function CoarseElementReference(): CoarseElementReference;
export interface CoarseElementKey {
    label_entity_id: string;
    label_asym_id: string;
    label_seq_id: number;
}
export declare function CoarseElementKey(): CoarseElementKey;
export declare namespace CoarseHierarchy {
    const Empty: CoarseHierarchy;
}