react-beauti-graph 0.0.0-stage → 1.3.0

package/dist/graphFactory.d.cts

@@ -0,0 +1,244 @@
+import type { FC } from 'react';
+import cytoscape from 'cytoscape';
+import type { StylesheetJson } from 'cytoscape';
+export * from './default_setting.cjs';
+export declare const REPORT_NODE = "node[class = \"macromolecule\"]";
+/** Group (folder box) names mapped to the names of the reports inside them */
+export type NodeGroups = Record<string, string[]>;
+/** Arrows: [source, target] */
+export type Connections = [string, string][];
+/** Layout grid: one list of report ids per row */
+export type Layout = string[][];
+/** Data of a graph element (a group box, a report or an arrow) */
+export interface ElementData {
+    id: string;
+    class?: string;
+    label?: string;
+    rawLabel?: string;
+    displayLabel?: string;
+    group?: string | null;
+    parent?: string | undefined;
+    source?: string;
+    target?: string;
+    graphLabel?: string | undefined;
+}
+/** A Cytoscape element as built by buildGraph */
+export interface GraphElement {
+    data: ElementData;
+    classes?: string;
+}
+/** Grid placement options of the layout */
+export interface LayoutOptions {
+    startX?: number | undefined;
+    startY?: number | undefined;
+    offsetX?: number | undefined;
+    offsetY?: number | undefined;
+    base?: number | undefined;
+}
+/** A report listed in a group's details: its id, name and group */
+export interface NodeRef {
+    id: string;
+    name: string;
+    group: string | null;
+}
+/** Details of a report shown in the side panel */
+export interface NodeInfo extends NodeRef {
+    parents: NodeRef[];
+    children: NodeRef[];
+}
+/**
+ * Size of a report box: exactly the label plus a little padding.
+ * @param {string|undefined} label - The node label text
+ * @param {number} [fontSize] - Font size of the label in px
+ * @returns {{width: number, height: number}} Box size in px
+ */
+export declare function getNodeSize(label: string | undefined, fontSize?: number): {
+    width: number;
+    height: number;
+};
+/**
+ * Compares names alphabetically, case-insensitive; numeric so "n2" comes before "n10".
+ * @param {string} a
+ * @param {string} b
+ * @returns {number}
+ */
+export declare function compareNames(a: string, b: string): number;
+/**
+ * Renames duplicate node IDs in layout to make them unique.
+ * Appends "(n)" suffix when duplicates are detected.
+ * @param {string[][]} layout - 2D array of node IDs arranged in rows/columns
+ * @returns {string[][]} Layout with renamed duplicates
+ */
+export declare function uniquifyLayout(layout?: Layout): Layout;
+/**
+ * Positions nodes in the Cytoscape graph based on layout specification.
+ * Handles missing/renamed nodes gracefully with fallbacks.
+ * @param {cytoscape.Core} cy - Cytoscape instance
+ * @param {string[][]} rows - 2D layout array with node IDs
+ * @param {Object} opts - Layout options (startX, startY, offsetX, offsetY, base)
+ */
+export declare function applyLayout(cy: cytoscape.Core, rows: Layout, opts?: LayoutOptions): void;
+/**
+ * Generates a unique ID by appending a counter suffix if needed.
+ * @param {string} base - Base ID string
+ * @param {Set<string>} taken - Set of already-used IDs (the new ID is added to it)
+ * @returns {string} Unique ID
+ */
+export declare function uniqueId(base: string, taken: Set<string>): string;
+/**
+ * Builds a layout from the groups, used when no layout is given.
+ * Each group starts a new row and fills rows of at most `columns` reports
+ * (group order, then report order); reports in no group come last.
+ * Copies of a report in several groups ("id(1)", ...) sit in their own group.
+ * @param {Object[]} elements - Cytoscape elements from buildGraph
+ * @param {number} [columns] - Maximum reports per row
+ * @returns {string[][]} Layout rows of node IDs
+ */
+export declare function layoutFromFolders(elements: GraphElement[], columns?: number): Layout;
+/**
+ * Builds the Cytoscape elements from groups, edges and extra node IDs.
+ * Folders become compound nodes (FOLDER_CLASS); every report becomes a
+ * REPORT_CLASS node. A report listed in several groups gets one copy per
+ * group ("id", "id(1)", ...); edges connect to the first copy.
+ * @param {Object<string, string[]>} node_groups - Mapping of group names to child IDs
+ * @param {Array<[string, string]>} direct_node_connections - Array of [source, target] edge pairs
+ * @param {string[]} extraIds - Other node IDs to create even without edges (e.g. from the layout)
+ * @returns {Object[]} Cytoscape elements array
+ */
+export declare function buildGraph(node_groups?: NodeGroups, direct_node_connections?: Connections, extraIds?: string[]): GraphElement[];
+/**
+ * Elements to draw for the current toggles: node label with or without
+ * the group, and groups shown or hidden.
+ * @param {Object[]} allElements - Output of buildGraph
+ * @param {boolean} showFolders - Keep the group (compartment) nodes
+ * @param {boolean} showGroupInLabel - Label reports "id (Group)" instead of "id"
+ * @returns {Object[]} Fresh element copies, safe to hand to a new Cytoscape instance
+ */
+export declare function getVisibleElements(allElements: GraphElement[], showFolders: boolean, showGroupInLabel: boolean): GraphElement[];
+/**
+ * Collects the details shown in the side panel for a report node.
+ * Parents point to the node, children are pointed to by it;
+ * a two-way edge makes the other node both a parent and a child.
+ * With allLevels, the lists hold the whole chains instead: the parents of the parents, ...
+ * and the children of the children, ... (the node itself is left out).
+ * @param {cytoscape.NodeSingular} node - The double-clicked node
+ * @param {boolean} [allLevels] - Every level of parents and children, not just the first
+ * @returns {{id: string, name: string, group: string|null, parents: Object[], children: Object[]}}
+ */
+export declare function getNodeInfo(node: cytoscape.NodeSingular, allLevels?: boolean): NodeInfo;
+/**
+ * Follows the edges from a node to collect its whole chain of parents
+ * (nodes pointing to it, their parents, ...) or children. A two-way edge
+ * counts in both directions, as in getNodeInfo.
+ * @param {cytoscape.NodeSingular} start - The tracked node
+ * @param {'parents'|'children'} direction - Which way to follow the edges
+ * @returns {cytoscape.Collection} The start node plus every node and edge on the chain
+ */
+export declare function getTrackedElements(start: cytoscape.NodeSingular, direction: 'parents' | 'children'): cytoscape.Collection;
+/**
+ * The elements to hide for the reports unchecked in "Node to Display": those reports
+ * (Cytoscape then hides their edges too) and the groups left with no visible report.
+ * @param {cytoscape.Core} cy - Cytoscape instance
+ * @param {Set<string>} hiddenIds - IDs of the reports to hide
+ * @returns {cytoscape.Collection} Elements to hide
+ */
+export declare function getHiddenElements(cy: cytoscape.Core, hiddenIds: Set<string>): cytoscape.Collection;
+/**
+ * Formats node details as plain text for the clipboard, matching the side panel:
+ * the group and the parent/child lists appear only when not empty.
+ * @param {ReturnType<typeof getNodeInfo>} info - Output of getNodeInfo
+ * @returns {string} Text to copy
+ */
+export declare function formatNodeInfo(info: NodeInfo): string;
+/**
+ * Mixes a "#rrggbb" or "rgb(r, g, b)" color with white (used as the tracked node's fill).
+ * Other color formats fall back to white.
+ * @param {string} color - Hex or rgb() color
+ * @param {number} [amount=0.88] - Share of white, 0..1
+ * @returns {string} Hex color
+ */
+export declare function lightTint(color: string, amount?: number): string;
+/**
+ * Highlights the tracked chains (Track node 1 and 2) and dims the rest.
+ * Elements on one chain get that track's class (track-parents, track2-children, ...);
+ * elements on both chains also get "track-mixed" with the common color in
+ * data(trackMixColor) and, for the tracked nodes, its light tint in data(trackMixFill).
+ * @param {cytoscape.Core} cy - Cytoscape instance
+ * @param {{id: string, direction: 'parents'|'children'}[]} tracks - Track 1 and Track 2 ('' id = off)
+ * @param {string} [commonColor] - Hex color of elements on both chains
+ */
+export interface Track {
+    id: string;
+    direction: 'parents' | 'children';
+}
+export declare function applyTracking(cy: cytoscape.Core, tracks: Track[], commonColor?: string): void;
+/**
+ * Cytoscape stylesheet; later rules override earlier ones.
+ * @param {{selectedColor?: string, parentsColor?: string, childrenColor?: string,
+ *   track2ParentsColor?: string, track2ChildrenColor?: string}} [colors]
+ *   Selected node color and Track node 1 / Track node 2 chain colors
+ * @returns {Object[]} Stylesheet
+ */
+export interface StyleColors {
+    selectedColor?: string | undefined;
+    parentsColor?: string | undefined;
+    childrenColor?: string | undefined;
+    track2ParentsColor?: string | undefined;
+    track2ChildrenColor?: string | undefined;
+}
+export declare function makeStyles({ selectedColor, parentsColor, childrenColor, track2ParentsColor, track2ChildrenColor, }?: StyleColors): StylesheetJson;
+/**
+ * Searchable node picker: typing any part of a name (case-insensitive) filters the list.
+ * Arrow keys move through the matches, Enter picks one, Escape closes the list.
+ * @param {string} [id] - id for the input (to link a <label>)
+ * @param {{id: string, label: string}[]} options - Nodes to choose from
+ * @param {string} selectedId - Currently selected node id ('' for none)
+ * @param {(id: string) => void} onSelect - Called with the chosen node id
+ * @param {string} [noneLabel] - Label of the first entry, which selects no node
+ * @param {Set<string>} [hiddenIds] - With onToggleVisible: nodes whose checkbox is off
+ * @param {(id: string) => void} [onToggleVisible] - When given, each node gets a checkbox
+ *   (on = shown); called with the node id when it is clicked
+ */
+export interface NodeSearchProps {
+    id?: string;
+    options: {
+        id: string;
+        label: string;
+    }[];
+    selectedId: string;
+    onSelect: (id: string) => void;
+    noneLabel?: string;
+    hiddenIds?: Set<string>;
+    onToggleVisible?: (id: string) => void;
+}
+export declare function NodeSearch({ id, options, selectedId, onSelect, noneLabel, hiddenIds, onToggleVisible, }: NodeSearchProps): React.JSX.Element;
+/** Options of create_graph: grid placement, colors ("#rrggbb" or "rgb(r, g, b)") and text sizes (CSS lengths) */
+export interface GraphOptions extends LayoutOptions {
+    /** Reports per row when the layout is built from the groups */
+    layoutColumns?: number | undefined;
+    selectedColor?: string | undefined;
+    parentsColor?: string | undefined;
+    childrenColor?: string | undefined;
+    track2ParentsColor?: string | undefined;
+    track2ChildrenColor?: string | undefined;
+    commonColor?: string | undefined;
+    topControlsFontSize?: string | undefined;
+    rightDisplayFontSize?: string | undefined;
+}
+/**
+ * Factory function that creates a React Graph component.
+ * Initializes Cytoscape instance, manages graph state, and handles node selection.
+ * @param {Object<string, string[]>} node_groups - Group (group box) names mapped to their report names
+ * @param {Array<[string, string]>} direct_node_connections - Edge definitions ([source, target] pairs)
+ * @param {string[][]|Object} [layoutOrOptions] - Layout grid (one row per layer). Optional: leave it out
+ *   and pass the options in its place, e.g. create_graph(node_groups, direct_node_connections, options),
+ *   to build the layout from the groups
+ * @param {Object} [optionsArg] - Layout rendering options (startX, startY, offsetX, offsetY, base,
+ *   layoutColumns = reports per row when the layout is built from the groups)
+ *   plus the colors ("#rrggbb"): selectedColor (Node to Display), parentsColor and
+ *   childrenColor (Track node 1), track2ParentsColor and track2ChildrenColor (Track node 2;
+ *   commonColor = elements on both chains, default rgb(239, 108, 0)), topControlsFontSize (text size of the top controls row, e.g. '16px')
+ *   and rightDisplayFontSize (text size of the right details panel)
+ * @returns {React.FC} Graph component
+ */
+export declare function create_graph(node_groups?: NodeGroups, direct_node_connections?: Connections, layoutOrOptions?: Layout | GraphOptions | null, optionsArg?: GraphOptions): FC;

package/dist/graphFactory.d.ts

@@ -0,0 +1,244 @@
+import type { FC } from 'react';
+import cytoscape from 'cytoscape';
+import type { StylesheetJson } from 'cytoscape';
+export * from './default_setting.js';
+export declare const REPORT_NODE = "node[class = \"macromolecule\"]";
+/** Group (folder box) names mapped to the names of the reports inside them */
+export type NodeGroups = Record<string, string[]>;
+/** Arrows: [source, target] */
+export type Connections = [string, string][];
+/** Layout grid: one list of report ids per row */
+export type Layout = string[][];
+/** Data of a graph element (a group box, a report or an arrow) */
+export interface ElementData {
+    id: string;
+    class?: string;
+    label?: string;
+    rawLabel?: string;
+    displayLabel?: string;
+    group?: string | null;
+    parent?: string | undefined;
+    source?: string;
+    target?: string;
+    graphLabel?: string | undefined;
+}
+/** A Cytoscape element as built by buildGraph */
+export interface GraphElement {
+    data: ElementData;
+    classes?: string;
+}
+/** Grid placement options of the layout */
+export interface LayoutOptions {
+    startX?: number | undefined;
+    startY?: number | undefined;
+    offsetX?: number | undefined;
+    offsetY?: number | undefined;
+    base?: number | undefined;
+}
+/** A report listed in a group's details: its id, name and group */
+export interface NodeRef {
+    id: string;
+    name: string;
+    group: string | null;
+}
+/** Details of a report shown in the side panel */
+export interface NodeInfo extends NodeRef {
+    parents: NodeRef[];
+    children: NodeRef[];
+}
+/**
+ * Size of a report box: exactly the label plus a little padding.
+ * @param {string|undefined} label - The node label text
+ * @param {number} [fontSize] - Font size of the label in px
+ * @returns {{width: number, height: number}} Box size in px
+ */
+export declare function getNodeSize(label: string | undefined, fontSize?: number): {
+    width: number;
+    height: number;
+};
+/**
+ * Compares names alphabetically, case-insensitive; numeric so "n2" comes before "n10".
+ * @param {string} a
+ * @param {string} b
+ * @returns {number}
+ */
+export declare function compareNames(a: string, b: string): number;
+/**
+ * Renames duplicate node IDs in layout to make them unique.
+ * Appends "(n)" suffix when duplicates are detected.
+ * @param {string[][]} layout - 2D array of node IDs arranged in rows/columns
+ * @returns {string[][]} Layout with renamed duplicates
+ */
+export declare function uniquifyLayout(layout?: Layout): Layout;
+/**
+ * Positions nodes in the Cytoscape graph based on layout specification.
+ * Handles missing/renamed nodes gracefully with fallbacks.
+ * @param {cytoscape.Core} cy - Cytoscape instance
+ * @param {string[][]} rows - 2D layout array with node IDs
+ * @param {Object} opts - Layout options (startX, startY, offsetX, offsetY, base)
+ */
+export declare function applyLayout(cy: cytoscape.Core, rows: Layout, opts?: LayoutOptions): void;
+/**
+ * Generates a unique ID by appending a counter suffix if needed.
+ * @param {string} base - Base ID string
+ * @param {Set<string>} taken - Set of already-used IDs (the new ID is added to it)
+ * @returns {string} Unique ID
+ */
+export declare function uniqueId(base: string, taken: Set<string>): string;
+/**
+ * Builds a layout from the groups, used when no layout is given.
+ * Each group starts a new row and fills rows of at most `columns` reports
+ * (group order, then report order); reports in no group come last.
+ * Copies of a report in several groups ("id(1)", ...) sit in their own group.
+ * @param {Object[]} elements - Cytoscape elements from buildGraph
+ * @param {number} [columns] - Maximum reports per row
+ * @returns {string[][]} Layout rows of node IDs
+ */
+export declare function layoutFromFolders(elements: GraphElement[], columns?: number): Layout;
+/**
+ * Builds the Cytoscape elements from groups, edges and extra node IDs.
+ * Folders become compound nodes (FOLDER_CLASS); every report becomes a
+ * REPORT_CLASS node. A report listed in several groups gets one copy per
+ * group ("id", "id(1)", ...); edges connect to the first copy.
+ * @param {Object<string, string[]>} node_groups - Mapping of group names to child IDs
+ * @param {Array<[string, string]>} direct_node_connections - Array of [source, target] edge pairs
+ * @param {string[]} extraIds - Other node IDs to create even without edges (e.g. from the layout)
+ * @returns {Object[]} Cytoscape elements array
+ */
+export declare function buildGraph(node_groups?: NodeGroups, direct_node_connections?: Connections, extraIds?: string[]): GraphElement[];
+/**
+ * Elements to draw for the current toggles: node label with or without
+ * the group, and groups shown or hidden.
+ * @param {Object[]} allElements - Output of buildGraph
+ * @param {boolean} showFolders - Keep the group (compartment) nodes
+ * @param {boolean} showGroupInLabel - Label reports "id (Group)" instead of "id"
+ * @returns {Object[]} Fresh element copies, safe to hand to a new Cytoscape instance
+ */
+export declare function getVisibleElements(allElements: GraphElement[], showFolders: boolean, showGroupInLabel: boolean): GraphElement[];
+/**
+ * Collects the details shown in the side panel for a report node.
+ * Parents point to the node, children are pointed to by it;
+ * a two-way edge makes the other node both a parent and a child.
+ * With allLevels, the lists hold the whole chains instead: the parents of the parents, ...
+ * and the children of the children, ... (the node itself is left out).
+ * @param {cytoscape.NodeSingular} node - The double-clicked node
+ * @param {boolean} [allLevels] - Every level of parents and children, not just the first
+ * @returns {{id: string, name: string, group: string|null, parents: Object[], children: Object[]}}
+ */
+export declare function getNodeInfo(node: cytoscape.NodeSingular, allLevels?: boolean): NodeInfo;
+/**
+ * Follows the edges from a node to collect its whole chain of parents
+ * (nodes pointing to it, their parents, ...) or children. A two-way edge
+ * counts in both directions, as in getNodeInfo.
+ * @param {cytoscape.NodeSingular} start - The tracked node
+ * @param {'parents'|'children'} direction - Which way to follow the edges
+ * @returns {cytoscape.Collection} The start node plus every node and edge on the chain
+ */
+export declare function getTrackedElements(start: cytoscape.NodeSingular, direction: 'parents' | 'children'): cytoscape.Collection;
+/**
+ * The elements to hide for the reports unchecked in "Node to Display": those reports
+ * (Cytoscape then hides their edges too) and the groups left with no visible report.
+ * @param {cytoscape.Core} cy - Cytoscape instance
+ * @param {Set<string>} hiddenIds - IDs of the reports to hide
+ * @returns {cytoscape.Collection} Elements to hide
+ */
+export declare function getHiddenElements(cy: cytoscape.Core, hiddenIds: Set<string>): cytoscape.Collection;
+/**
+ * Formats node details as plain text for the clipboard, matching the side panel:
+ * the group and the parent/child lists appear only when not empty.
+ * @param {ReturnType<typeof getNodeInfo>} info - Output of getNodeInfo
+ * @returns {string} Text to copy
+ */
+export declare function formatNodeInfo(info: NodeInfo): string;
+/**
+ * Mixes a "#rrggbb" or "rgb(r, g, b)" color with white (used as the tracked node's fill).
+ * Other color formats fall back to white.
+ * @param {string} color - Hex or rgb() color
+ * @param {number} [amount=0.88] - Share of white, 0..1
+ * @returns {string} Hex color
+ */
+export declare function lightTint(color: string, amount?: number): string;
+/**
+ * Highlights the tracked chains (Track node 1 and 2) and dims the rest.
+ * Elements on one chain get that track's class (track-parents, track2-children, ...);
+ * elements on both chains also get "track-mixed" with the common color in
+ * data(trackMixColor) and, for the tracked nodes, its light tint in data(trackMixFill).
+ * @param {cytoscape.Core} cy - Cytoscape instance
+ * @param {{id: string, direction: 'parents'|'children'}[]} tracks - Track 1 and Track 2 ('' id = off)
+ * @param {string} [commonColor] - Hex color of elements on both chains
+ */
+export interface Track {
+    id: string;
+    direction: 'parents' | 'children';
+}
+export declare function applyTracking(cy: cytoscape.Core, tracks: Track[], commonColor?: string): void;
+/**
+ * Cytoscape stylesheet; later rules override earlier ones.
+ * @param {{selectedColor?: string, parentsColor?: string, childrenColor?: string,
+ *   track2ParentsColor?: string, track2ChildrenColor?: string}} [colors]
+ *   Selected node color and Track node 1 / Track node 2 chain colors
+ * @returns {Object[]} Stylesheet
+ */
+export interface StyleColors {
+    selectedColor?: string | undefined;
+    parentsColor?: string | undefined;
+    childrenColor?: string | undefined;
+    track2ParentsColor?: string | undefined;
+    track2ChildrenColor?: string | undefined;
+}
+export declare function makeStyles({ selectedColor, parentsColor, childrenColor, track2ParentsColor, track2ChildrenColor, }?: StyleColors): StylesheetJson;
+/**
+ * Searchable node picker: typing any part of a name (case-insensitive) filters the list.
+ * Arrow keys move through the matches, Enter picks one, Escape closes the list.
+ * @param {string} [id] - id for the input (to link a <label>)
+ * @param {{id: string, label: string}[]} options - Nodes to choose from
+ * @param {string} selectedId - Currently selected node id ('' for none)
+ * @param {(id: string) => void} onSelect - Called with the chosen node id
+ * @param {string} [noneLabel] - Label of the first entry, which selects no node
+ * @param {Set<string>} [hiddenIds] - With onToggleVisible: nodes whose checkbox is off
+ * @param {(id: string) => void} [onToggleVisible] - When given, each node gets a checkbox
+ *   (on = shown); called with the node id when it is clicked
+ */
+export interface NodeSearchProps {
+    id?: string;
+    options: {
+        id: string;
+        label: string;
+    }[];
+    selectedId: string;
+    onSelect: (id: string) => void;
+    noneLabel?: string;
+    hiddenIds?: Set<string>;
+    onToggleVisible?: (id: string) => void;
+}
+export declare function NodeSearch({ id, options, selectedId, onSelect, noneLabel, hiddenIds, onToggleVisible, }: NodeSearchProps): React.JSX.Element;
+/** Options of create_graph: grid placement, colors ("#rrggbb" or "rgb(r, g, b)") and text sizes (CSS lengths) */
+export interface GraphOptions extends LayoutOptions {
+    /** Reports per row when the layout is built from the groups */
+    layoutColumns?: number | undefined;
+    selectedColor?: string | undefined;
+    parentsColor?: string | undefined;
+    childrenColor?: string | undefined;
+    track2ParentsColor?: string | undefined;
+    track2ChildrenColor?: string | undefined;
+    commonColor?: string | undefined;
+    topControlsFontSize?: string | undefined;
+    rightDisplayFontSize?: string | undefined;
+}
+/**
+ * Factory function that creates a React Graph component.
+ * Initializes Cytoscape instance, manages graph state, and handles node selection.
+ * @param {Object<string, string[]>} node_groups - Group (group box) names mapped to their report names
+ * @param {Array<[string, string]>} direct_node_connections - Edge definitions ([source, target] pairs)
+ * @param {string[][]|Object} [layoutOrOptions] - Layout grid (one row per layer). Optional: leave it out
+ *   and pass the options in its place, e.g. create_graph(node_groups, direct_node_connections, options),
+ *   to build the layout from the groups
+ * @param {Object} [optionsArg] - Layout rendering options (startX, startY, offsetX, offsetY, base,
+ *   layoutColumns = reports per row when the layout is built from the groups)
+ *   plus the colors ("#rrggbb"): selectedColor (Node to Display), parentsColor and
+ *   childrenColor (Track node 1), track2ParentsColor and track2ChildrenColor (Track node 2;
+ *   commonColor = elements on both chains, default rgb(239, 108, 0)), topControlsFontSize (text size of the top controls row, e.g. '16px')
+ *   and rightDisplayFontSize (text size of the right details panel)
+ * @returns {React.FC} Graph component
+ */
+export declare function create_graph(node_groups?: NodeGroups, direct_node_connections?: Connections, layoutOrOptions?: Layout | GraphOptions | null, optionsArg?: GraphOptions): FC;

package/dist/index.cjs

@@ -0,0 +1,3 @@
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