🚧 split functionality out as 'focus'

Simply renaming this functionality and separating it from 'zoom' helped
me understand the difference better. The separate buttons may be helpful
too.

src/actions/recomputeReduxState.js

@@ -64,8 +64,8 @@ const modifyStateViaURLQuery = (state, query) => {
   if (query.m && state.branchLengthsToDisplay === "divAndDate") {
     state["distanceMeasure"] = query.m;
   }
-  if (query.z) {
-    state["treeZoom"] = query.z;
+  if (query.focus) {
+    state["treeFocus"] = query.focus;
   }
   if (query.c) {
     state["colorBy"] = query.c;

src/actions/types.js

@@ -7,7 +7,7 @@ export const SEARCH_INPUT_CHANGE = "SEARCH_INPUT_CHANGE";
 export const CHANGE_LAYOUT = "CHANGE_LAYOUT";
 export const CHANGE_BRANCH_LABEL = "CHANGE_BRANCH_LABEL";
 export const CHANGE_DISTANCE_MEASURE = "CHANGE_DISTANCE_MEASURE";
-export const CHANGE_TREE_ZOOM = "CHANGE_TREE_ZOOM";
+export const CHANGE_TREE_FOCUS = "CHANGE_TREE_FOCUS";
 export const CHANGE_DATES_VISIBILITY_THICKNESS = "CHANGE_DATES_VISIBILITY_THICKNESS";
 export const CHANGE_ABSOLUTE_DATE_MIN = "CHANGE_ABSOLUTE_DATE_MIN";
 export const CHANGE_ABSOLUTE_DATE_MAX = "CHANGE_ABSOLUTE_DATE_MAX";

src/components/tree/index.js

@@ -15,7 +15,7 @@ const Tree = connect((state) => ({
   temporalConfidence: state.controls.temporalConfidence,
   distanceMeasure: state.controls.distanceMeasure,
   explodeAttr: state.controls.explodeAttr,
-  treeZoom: state.controls.treeZoom,
+  treeFocus: state.controls.treeFocus,
   colorScale: state.controls.colorScale,
   colorings: state.metadata.colorings,
   genomeMap: state.entropy.genomeMap,

src/components/tree/phyloTree/change.js

@@ -258,7 +258,7 @@ export const change = function change({
   /* change these things to provided value (unless undefined) */
   newDistance = undefined,
   newLayout = undefined,
-  newTreeZoom = undefined,
+  newTreeFocus = undefined,
   updateLayout = undefined, // todo - this seems identical to `newLayout`
   newBranchLabellingKey = undefined,
   showAllBranchLabels = undefined,
@@ -314,7 +314,7 @@ export const change = function change({
     svgPropsToUpdate.add("stroke-width");
     nodePropsToModify["stroke-width"] = branchThickness;
   }
-  if (newDistance || newLayout || newTreeZoom || updateLayout || zoomIntoClade || svgHasChangedDimensions || changeNodeOrder) {
+  if (newDistance || newLayout || newTreeFocus || updateLayout || zoomIntoClade || svgHasChangedDimensions || changeNodeOrder) {
     elemsToUpdate.add(".tip").add(".branch.S").add(".branch.T").add(".branch");
     elemsToUpdate.add(".vaccineCross").add(".vaccineDottedLine").add(".conf");
     elemsToUpdate.add('.branchLabel').add('.tipLabel');
@@ -360,10 +360,10 @@ export const change = function change({
   /* run calculations as needed - these update properties on the phylotreeNodes (similar to updateNodesWithNewData) */
   /* distance */
   if (newDistance || updateLayout) this.setDistance(newDistance);
-  /* treeZoom */
-  if (newTreeZoom || updateLayout) this.setTreeZoom(newTreeZoom);
-  /* layout (must run after distance and treeZoom) */
-  if (newDistance || newLayout || newTreeZoom || updateLayout || changeNodeOrder) {
+  /* treeFocus */
+  if (newTreeFocus || updateLayout) this.setTreeFocus(newTreeFocus);
+  /* layout (must run after distance and treeFocus) */
+  if (newDistance || newLayout || newTreeFocus || updateLayout || changeNodeOrder) {
     this.setLayout(newLayout || this.layout, scatterVariables);
   }
   /* show confidences - set this param which actually adds the svg paths for
@@ -380,7 +380,7 @@ export const change = function change({
     newDistance ||
     newLayout ||
     changeNodeOrder ||
-    newTreeZoom ||
+    newTreeFocus ||
     updateLayout ||
     zoomIntoClade ||
     svgHasChangedDimensions ||

src/components/tree/phyloTree/layouts.js

@@ -301,7 +301,7 @@ export const calcYValues = (nodes, spacing = "even") => {
   // console.log("calcYValues started with ", spacing);
   let total = 0; /* cumulative counter of y value at tip */
   let calcY; /* fn called calcY(node) to return some amount of y value at a tip */
-  if (spacing.includes("zoom") && 'visibility' in nodes[0]) {
+  if (spacing.includes("focus") && 'visibility' in nodes[0]) {
     const numberOfTips = nodes.length;
     const numTipsVisible = nodes.filter((d) => !d.hasChildren && d.visibility === NODE_VISIBLE).length;
     const yPerVisible = (0.8 * numberOfTips) / numTipsVisible;
@@ -334,19 +334,19 @@ export const calcYValues = (nodes, spacing = "even") => {
 };
 
 /**
- * assigns the attribute this.treeZoom and calls the function that
- * recalculates yvalues based on treeZoom setting
- * @param treeZoom -- how to zoom nodes, eg ["even", "zoom"]
+ * assigns the attribute this.treeFocus and calls the function that
+ * recalculates yvalues based on treeFocus setting
+ * @param treeFocus -- how to zoom nodes, eg ["even", "focus"]
  */
-export const setTreeZoom = function setTreeZoom(treeZoom) {
-  timerStart("setTreeZoom");
-  if (typeof treeZoom === "undefined") {
-    this.treeZoom = "even";
+export const setTreeFocus = function setTreeFocus(treeFocus) {
+  timerStart("setTreeFocus");
+  if (typeof treeFocus === "undefined") {
+    this.treeFocus = "even";
   } else {
-    this.treeZoom = treeZoom;
+    this.treeFocus = treeFocus;
   }
-  calcYValues(this.nodes, this.treeZoom);
-  timerEnd("setTreeZoom");
+  calcYValues(this.nodes, this.treeFocus);
+  timerEnd("setTreeFocus");
 };
 
 /**

src/components/tree/phyloTree/phyloTree.js

@@ -63,7 +63,7 @@ PhyloTree.prototype.updateColorBy = renderers.updateColorBy;
 /* C A L C U L A T E    G E O M E T R I E S  E T C   ( M O D I F I E S    N O D E S ,    N O T    S V G ) */
 PhyloTree.prototype.setDistance = layouts.setDistance;
 PhyloTree.prototype.setLayout = layouts.setLayout;
-PhyloTree.prototype.setTreeZoom = layouts.setTreeZoom;
+PhyloTree.prototype.setTreeFocus = layouts.setTreeFocus;
 PhyloTree.prototype.rectangularLayout = layouts.rectangularLayout;
 PhyloTree.prototype.scatterplotLayout = layouts.scatterplotLayout;
 PhyloTree.prototype.unrootedLayout = layouts.unrootedLayout;

src/components/tree/phyloTree/renderers.js

@@ -7,7 +7,7 @@ import { getEmphasizedColor } from "../../../util/colorHelpers";
  * @param {d3 selection} svg      -- the svg into which the tree is drawn
  * @param {string} layout         -- the layout to be used, e.g. "rect"
  * @param {string} distance       -- the property used as branch length, e.g. div or num_date
- * @param {string} treeZoom       -- how to to treat spread of yValues, e.g. "even" or "zoom"
+ * @param {string} treeFocus       -- how to to treat spread of yValues, e.g. "even" or "focus"
  * @param {object} parameters     -- an object that contains options that will be added to this.params
  * @param {object} callbacks      -- an object with call back function defining mouse behavior
  * @param {array} branchThickness -- array of branch thicknesses (same ordering as tree nodes)
@@ -22,7 +22,7 @@ import { getEmphasizedColor } from "../../../util/colorHelpers";
  * @param {object} scatterVariables  -- {x, y} properties to map nodes => scatterplot (only used if layout="scatter")
  * @return {null}
  */
-export const render = function render(svg, layout, distance, treeZoom, parameters, callbacks, branchThickness, visibility, drawConfidence, vaccines, branchStroke, tipStroke, tipFill, tipRadii, dateRange, scatterVariables) {
+export const render = function render(svg, layout, distance, treeFocus, parameters, callbacks, branchThickness, visibility, drawConfidence, vaccines, branchStroke, tipStroke, tipFill, tipRadii, dateRange, scatterVariables) {
   timerStart("phyloTree render()");
   this.svg = svg;
   this.params = Object.assign(this.params, parameters);
@@ -43,7 +43,7 @@ export const render = function render(svg, layout, distance, treeZoom, parameter
   /* set x, y values & scale them to the screen */
   setDisplayOrder(this.nodes);
   this.setDistance(distance);
-  this.setTreeZoom(treeZoom);
+  this.setTreeFocus(treeFocus);
   this.setLayout(layout, scatterVariables);
   this.mapToScreen();
 

src/components/tree/reactD3Interface/change.js

@@ -49,9 +49,9 @@ export const changePhyloTreeViaPropsComparison = (mainTree, phylotree, oldProps,
     args.changeNodeOrder = true;
   }
 
-  /* change treeZoom behavior */
-  if (oldProps.treeZoom !== newProps.treeZoom) {
-    args.newTreeZoom = newProps.treeZoom;
+  /* change treeFocus behavior */
+  if (oldProps.treeFocus !== newProps.treeFocus) {
+    args.newTreeFocus = newProps.treeFocus;
     args.updateLayout = true;
   }
 

src/components/tree/reactD3Interface/initialRender.js

@@ -22,7 +22,7 @@ export const renderTree = (that, main, phylotree, props) => {
     select(ref),
     props.layout,
     props.distanceMeasure,
-    props.treeZoom,
+    props.treeFocus,
     { /* parameters (modifies PhyloTree's defaults) */
       grid: true,
       confidence: props.temporalConfidence.display,

src/components/tree/tree.js

@@ -2,7 +2,7 @@ import React from "react";
 import { withTranslation } from "react-i18next";
 import { FaSearchMinus } from "react-icons/fa";
 import { updateVisibleTipsAndBranchThicknesses } from "../../actions/tree";
-import { CHANGE_TREE_ZOOM } from "../../actions/types";
+import { CHANGE_TREE_FOCUS } from "../../actions/types";
 import Card from "../framework/card";
 import Legend from "./legend/legend";
 import PhyloTree from "./phyloTree/phyloTree";
@@ -40,7 +40,7 @@ class Tree extends React.Component {
     this.clearSelectedNode = callbacks.clearSelectedNode.bind(this);
     // this.handleIconClickHOF = callbacks.handleIconClickHOF.bind(this);
     this.redrawTree = () => {
-      this.props.dispatch({ type: CHANGE_TREE_ZOOM, data: "even" });
+      this.props.dispatch({ type: CHANGE_TREE_FOCUS, data: "even" });
       this.props.dispatch(updateVisibleTipsAndBranchThicknesses({
         root: [0, 0]
       }));
@@ -112,9 +112,17 @@ class Tree extends React.Component {
   }
 
   getStyles = () => {
-    // FIXME: double-check this
-    const activeResetTreeButton = true;
-    const activeZoomButton = true;
+    const activeResetTreeButton = this.props.tree.idxOfInViewRootNode !== 0 ||
+      this.props.treeToo.idxOfInViewRootNode !== 0;
+
+    const filteredTree = !!this.props.tree.idxOfFilteredRoot &&
+      this.props.tree.idxOfInViewRootNode !== this.props.tree.idxOfFilteredRoot;
+    const filteredTreeToo = !!this.props.treeToo.idxOfFilteredRoot &&
+      this.props.treeToo.idxOfInViewRootNode !== this.props.treeToo.idxOfFilteredRoot;
+    const activeZoomButton = filteredTree || filteredTreeToo;
+
+    const activeFocusButton = true;
+
     const treeIsZoomed = this.props.tree.idxOfInViewRootNode !== 0 ||
       this.props.treeToo.idxOfInViewRootNode !== 0;
 
@@ -139,6 +147,13 @@ class Tree extends React.Component {
         color: activeZoomButton ? darkGrey : lightGrey,
         pointerEvents: activeZoomButton ? "auto" : "none"
       },
+      focusOnSelectedButton: {
+        zIndex: 100,
+        display: "inline-block",
+        cursor: activeFocusButton ? "pointer" : "auto",
+        color: activeFocusButton ? darkGrey : lightGrey,
+        pointerEvents: activeFocusButton ? "auto" : "none"
+      },
       zoomOutButton: {
         zIndex: 100,
         display: "inline-block",
@@ -162,20 +177,23 @@ class Tree extends React.Component {
     );
   }
 
-  zoomToSelected = () => {
-    // if currently set to "even", start at "zoom"
-    let treeZoomData = "zoom";
-    if (this.props.treeZoom.includes("zoom")) {
-      // if currently at "zoom", increment to "zoom-2"
-      if (!this.props.treeZoom.includes("-")) {
-        treeZoomData = "zoom-2";
+  focusOnSelected = () => {
+    // if currently set to "even", start at "focus"
+    let treeFocusData = "focus";
+    if (this.props.treeFocus.includes("focus")) {
+      // if currently at "focus", increment to "focus-2"
+      if (!this.props.treeFocus.includes("-")) {
+        treeFocusData = "focus-2";
       } else {
-      // if currently at "zoom-2", increment to "zoom-3", etc...
-        const increment = parseInt(this.props.treeZoom.split('-')[1], 10) + 1;
-        treeZoomData = "zoom-" + increment.toString();
+      // if currently at "focus-2", increment to "focus-3", etc...
+        const increment = parseInt(this.props.treeFocus.split('-')[1], 10) + 1;
+        treeFocusData = "focus-" + increment.toString();
       }
     }
-    this.props.dispatch({ type: CHANGE_TREE_ZOOM, data: treeZoomData });
+    this.props.dispatch({ type: CHANGE_TREE_FOCUS, data: treeFocusData });
+  };
+
+  zoomToSelected = () => {
     this.props.dispatch(updateVisibleTipsAndBranchThicknesses({
       root: [this.props.tree.idxOfFilteredRoot, this.props.treeToo.idxOfFilteredRoot]
     }));
@@ -266,6 +284,12 @@ class Tree extends React.Component {
             >
               {t("Zoom to Selected")}
             </button>
+            <button
+              style={{...tabSingle, ...styles.focusOnSelectedButton}}
+              onClick={this.focusOnSelected}
+            >
+              {t("Focus On Selected")}
+            </button>
             <button
               style={{...tabSingle, ...styles.resetTreeButton}}
               onClick={this.redrawTree}

src/middleware/changeURL.js

@@ -140,8 +140,8 @@ export const changeURLMiddleware = (store) => (next) => (action) => {
       query.p = action.notInURLState === true ? undefined : action.data;
       break;
     }
-    case types.CHANGE_TREE_ZOOM: {
-      query.z = action.data === state.controls.defaults.treeZoom ? undefined : action.data;
+    case types.CHANGE_TREE_FOCUS: {
+      query.z = action.data === state.controls.defaults.treeFocus ? undefined : action.data;
       break;
     }
     case types.TOGGLE_SIDEBAR: {

src/reducers/controls.ts

@@ -4,7 +4,7 @@ import { defaultGeoResolution,
   defaultDateRange,
   defaultDistanceMeasure,
   defaultLayout,
-  defaultTreeZoom,
+  defaultTreeFocus,
   controlsHiddenWidth,
   strainSymbol,
   twoColumnBreakpoint } from "../util/globals";
@@ -44,7 +44,7 @@ export const getDefaultControlsState = () => {
   const defaults: Partial<ControlsState> = {
     distanceMeasure: defaultDistanceMeasure,
     layout: defaultLayout,
-    treeZoom: defaultTreeZoom,
+    treeFocus: defaultTreeFocus,
     geoResolution: defaultGeoResolution,
     filters: {},
     filtersInFooter: [],
@@ -72,7 +72,7 @@ export const getDefaultControlsState = () => {
     layout: defaults.layout,
     scatterVariables: {},
     distanceMeasure: defaults.distanceMeasure,
-    treeZoom: defaults.treeZoom,
+    treeFocus: defaults.treeFocus,
     dateMin,
     dateMinNumeric,
     dateMax,
@@ -195,9 +195,9 @@ const Controls = (state: ControlsState = getDefaultControlsState(), action): Con
       }
       return Object.assign({}, state, updatesToState);
     }
-    case types.CHANGE_TREE_ZOOM:
+    case types.CHANGE_TREE_FOCUS:
       return Object.assign({}, state, {
-        treeZoom: action.data
+        treeFocus: action.data
       });
     case types.CHANGE_DATES_VISIBILITY_THICKNESS: {
       const newDates: Partial<ControlsState> = { quickdraw: action.quickdraw };

src/util/globals.js

@@ -27,7 +27,7 @@ export const defaultColorBy = "country";
 export const defaultGeoResolution = "country";
 export const defaultLayout = "rect";
 export const defaultDistanceMeasure = "num_date";
-export const defaultTreeZoom = "even";
+export const defaultTreeFocus = "even";
 export const defaultDateRange = 6;
 export const date_select = true;
 export const file_prefix = "Zika_";