@abi-software/mapintegratedvuer 1.9.0-beta.0 → 1.9.0-beta.2

package/dist/ContentMixin-Ccjd33IX.js

@@ -1,358 +0,0 @@
-import "vue";
-import { u as p, c as u, E as r, T as d, d as h, e as m } from "./index-BGZgzrzo.js";
-import { mapStores as g } from "pinia";
-function y(e) {
-  return e[0].toUpperCase() + e.substring(1);
-}
-const I = {
-  emits: ["flatmap-provenance-ready", "resource-selected", "species-changed"],
-  props: {
-    /**
-     * Object containing information for
-     * the required viewing.
-     */
-    entry: Object,
-    visible: {
-      type: Boolean,
-      default: !0
-    },
-    mouseHovered: {
-      type: Boolean,
-      default: !1
-    }
-  },
-  computed: {
-    ...g(p, u),
-    idNamePair() {
-      return this.splitFlowStore.idNamePair;
-    },
-    syncMode() {
-      return this.splitFlowStore.syncMode;
-    },
-    useHelpModeDialog() {
-      return this.settingsStore.useHelpModeDialog;
-    },
-    connectivityInfoSidebar() {
-      return this.settingsStore.connectivityInfoSidebar;
-    },
-    annotationSidebar() {
-      return this.settingsStore.annotationSidebar;
-    }
-  },
-  mounted: function() {
-    r.on("startHelp", () => {
-      this.startHelp();
-    }), this.multiflatmapRef = this.$refs.multiflatmap, this.flatmapRef = this.$refs.flatmap, this.scaffoldRef = this.$refs.scaffold;
-  },
-  methods: {
-    toggleSyncMode: function() {
-    },
-    getState: function() {
-    },
-    openMap: function(e) {
-      e === "SYNC" ? (this.toggleSyncMode(), this.trackOpenMap("toggle_map_sync_mode")) : (r.emit("OpenNewMap", e), this.trackOpenMap(`open_new_${e}_map`)), this.onConnectivityInfoClose();
-    },
-    onMapmanagerLoaded: function(e) {
-      this.settingsStore.updateMapManager(e);
-    },
-    trackOpenMap: function(e) {
-      d.sendEvent({
-        event: "interaction_event",
-        event_name: "portal_maps_open_map",
-        category: e,
-        location: "open_new_map"
-      });
-    },
-    updateWithViewUrl: function() {
-    },
-    /**
-     * Perform a local search on this contentvuer
-     */
-    search: function() {
-      return !1;
-    },
-    /**
-     * Get a list of search suggestions on this contentvuer
-     */
-    searchSuggestions: function() {
-    },
-    /**
-     * Callback when the vuers emit a selected event.
-     */
-    resourceSelected: function(e, t) {
-      var s, o, l, f;
-      if (this.resourceHasAction(t)) {
-        r.emit("PopoverActionClick", t);
-        return;
-      }
-      let i, n = !1;
-      const a = {
-        paneIndex: this.entry.id,
-        type: e,
-        resource: t,
-        internalName: void 0,
-        eventType: void 0
-      };
-      if (e == "MultiFlatmap" || e == "Flatmap")
-        if (a.internalName = (s = t == null ? void 0 : t.feature) != null && s.label ? t.feature.label : this.idNamePair[t.feature.models], t.eventType == "click")
-          if (a.eventType = "selected", t.feature.type == "marker") {
-            let c = a.internalName;
-            this.settingsStore.isFeaturedMarkerIdentifier(
-              t.feature.id
-            ) ? i = {
-              type: "Search",
-              term: this.settingsStore.featuredMarkerDoi(
-                t.feature.id
-              ),
-              featuredDataset: !0
-            } : i = {
-              type: "Facet",
-              facet: c,
-              facetPropPath: "anatomy.organ.category.name",
-              term: "Anatomical structure"
-            }, n = !0, e == "MultiFlatmap" && this.$refs.multiflatmap.getCurrentFlatmap().mapImp.clearSearchResults();
-          } else t.feature.type == "feature" && this.syncMode && (n = !0);
-        else t.eventType == "mouseenter" && (a.eventType = "highlighted", n = !0);
-      else e == "Scaffold" && (t && t[0] && ((((o = t[0].data) == null ? void 0 : o.id) === void 0 || ((l = t[0].data) == null ? void 0 : l.id) === "") && (t[0].data.id = (f = t[0].data) == null ? void 0 : f.group), a.internalName = t[0].data.id, t[0].data.lastActionOnMarker === !0 && (i = {
-        type: "Facet",
-        facet: y(t[0].data.id),
-        facetPropPath: "anatomy.organ.category.name",
-        term: "Anatomical structure"
-      })), a.eventType = "selected", n = !0);
-      i && r.emit("PopoverActionClick", i), n && this.$emit("resource-selected", a);
-    },
-    resourceHasAction: function(e) {
-      return e.type === "URL" || e.type === "Search" || e.type === "Neuron Search" || e.type == "Facet" || e.type == "Facets";
-    },
-    /**
-     * Check if this viewer is currently visible
-     */
-    isVisible: function() {
-      return this.splitFlowStore.getPaneNameById(this.entry.id) !== void 0;
-    },
-    displayTooltip: function() {
-    },
-    /**
-     * Get the term to zoom/highlight in a synchronisation event,
-     * if it cannot be found in the map, it will perform several
-     * calls to try to ge a valid name/id.
-     */
-    getNameAndIdFromSyncData: async function(e) {
-      let t = e.internalName;
-      t === void 0 && e.resource && (t = e.resource.label);
-      let i;
-      if (e.resource && e.resource.resource && (i = e.resource.resource[0]), this.entry.type === "Scaffold") {
-        if (this.$refs.scaffold.findObjectsWithGroupName(t).length === 0) {
-          if (e.resource && e.resource.feature) {
-            const s = h(e.resource.feature.models);
-            if (s.length > 0) return s;
-          }
-          let a = m(t);
-          if (a)
-            return a;
-          if (i && e.eventType === "selected")
-            return fetch(`${this.apiLocation}get-related-terms/${i}`).then((s) => s.json()).then((s) => {
-              var o;
-              if (((o = s.uberon) == null ? void 0 : o.array.length) > 0)
-                return t = s.uberon.array[0].name.charAt(0).toUpperCase() + s.uberon.array[0].name.slice(1), i = s.uberon.array[0].id.toUpperCase(), { id: i, name: t };
-            });
-        }
-      } else if (this.entry.type === "MultiFlatmap")
-        if (t === "Bladder")
-          t = "Urinary Bladder";
-        else {
-          const n = h(t);
-          n.length > 0 && (t = n[0]);
-        }
-      return { id: i, name: t };
-    },
-    // Get the species and andaotmy info for the featured datasets
-    getDatasetAnatomyInfo: function(e) {
-      fetch(`${this.apiLocation}dataset_info/anatomy?identifier=${e}`).then((t) => t.json()).then((t) => {
-        const i = t.result[0];
-        let n;
-        try {
-          n = i.anatomy.organ[0].curie;
-        } catch {
-          n = void 0;
-        }
-        let a;
-        try {
-          a = i.item.curie;
-        } catch {
-          a = void 0;
-        }
-        let s;
-        try {
-          let o = 0, l = !1;
-          for (; !l && o < i.organisms.subject.length; ) {
-            const f = i.organisms.subject[o];
-            f.species && (s = f.species.name, l = !0), o += 1;
-          }
-        } catch {
-          s = void 0;
-        }
-        this.settingsStore.updateFeaturedMarker({
-          identifier: e,
-          marker: n,
-          doi: a,
-          species: s
-        });
-      });
-    },
-    // Check if the old featured dataset api has any info
-    oldFeaturedDatasetApiHasInfo: async function() {
-      let t = await (await fetch(`${this.apiLocation}get_featured_datasets_identifiers`)).json();
-      return !t.identifiers || t.identifiers.length == 0 ? !1 : t.identifiers;
-    },
-    // Check if the new featured dataset api has any info
-    newFeaturedDatasetApiHasInfo: async function() {
-      let t = await (await fetch(`${this.apiLocation}get_featured_dataset`)).json();
-      return !t.datasets || t.datasets.length == 0 ? !1 : t.datasets.map((i) => i.id);
-    },
-    /**
-     * Get a list of featured datasets to display.
-     */
-    getFeaturedDatasets: async function() {
-      let e = [], t = await this.oldFeaturedDatasetApiHasInfo();
-      if (t) e = t;
-      else {
-        let i = await this.newFeaturedDatasetApiHasInfo();
-        i && (e = i);
-      }
-      this.settingsStore.updateFeatured(e), e.forEach((i) => {
-        this.getDatasetAnatomyInfo(i);
-      });
-    },
-    zoomToFeatures: function() {
-    },
-    handleSyncMouseEvent: async function(e) {
-      let t = await this.getNameAndIdFromSyncData(e);
-      e.eventType === "highlighted" ? this.highlightFeatures(t) : e.eventType === "selected" && this.displayTooltip(t);
-    },
-    /**
-     * Handle sync pan zoom event
-     */
-    handleSyncPanZoomEvent: function() {
-    },
-    highlightFeatures: function() {
-    },
-    receiveSynchronisedEvent: async function(e) {
-      if (e.paneIndex !== this.entry.id)
-        e.eventType == "panZoom" || this.handleSyncMouseEvent(e);
-      else if (e.eventType == "selected") {
-        let t = await this.getNameAndIdFromSyncData(e);
-        this.zoomToFeatures(t, !1);
-      }
-    },
-    requestSynchronisedEvent: function() {
-    },
-    flatmapMarkerUpdate() {
-    },
-    onResize: function() {
-    },
-    startHelp: function() {
-      this.isInHelp === !1 && (this.helpMode = !0, window.addEventListener("mousedown", this.checkEndHelpMouseDown), this.isInHelp = !0);
-    },
-    endHelp: function() {
-      window.removeEventListener("mousedown", this.checkEndHelpMouseDown), this.helpMode = !1, setTimeout(() => {
-        this.isInHelp = !1;
-      }, 200);
-    },
-    onHelpModeShowNext: function() {
-      this.helpModeActiveItem += 1;
-    },
-    onHelpModeLastItem: function(e) {
-      e && (this.helpModeLastItem = !0);
-    },
-    onFinishHelpMode: function() {
-      this.helpMode = !1, this.helpModeActiveItem = 0, this.helpModeLastItem = !1;
-    },
-    onTooltipShown: function() {
-      this.$refs.multiflatmap && this.$refs.multiflatmapHelp && this.$refs.multiflatmapHelp.toggleTooltipHighlight(), this.$refs.flatmap && this.$refs.flatmapHelp && this.$refs.flatmapHelp.toggleTooltipHighlight(), this.$refs.scaffold && this.$refs.scaffoldHelp && this.$refs.scaffoldHelp.toggleTooltipHighlight();
-    },
-    onMapTooltipShown: function() {
-      this.$refs.multiflatmap && this.$refs.multiflatmapHelp && this.$refs.multiflatmapHelp.toggleTooltipPinHighlight(), this.$refs.flatmap && this.$refs.flatmapHelp && this.$refs.flatmapHelp.toggleTooltipPinHighlight(), this.$refs.scaffold && this.$refs.scaffoldHelp && this.$refs.scaffoldHelp.toggleTooltipPinHighlight();
-    },
-    /**
-     * End help-mode only if user clicks outside of help mode dialog.
-     */
-    checkEndHelpMouseDown: function(e) {
-      e.target.closest(".help-mode-dialog") || this.endHelp();
-    },
-    getConnectivitiesByDOI: async function(e) {
-      return await this.$refs.multiflatmap.getCurrentFlatmap().searchConnectivitiesByReference(e);
-    },
-    highlightAnatomies: async function(e, t, i) {
-      const n = [...t], a = this.settingsStore.hoverHighlightOptions;
-      if (a.highlightConnectedPaths) {
-        const s = await e.queryPathsForFeatures(t);
-        s && n.push(...s);
-      }
-      if (a.highlightDOIPaths) {
-        const s = await this.getConnectivitiesByDOI(i);
-        s && n.push(...s);
-      }
-      return n;
-    },
-    mapHoverHighlight: function() {
-      if (this.visible) {
-        const e = this.settingsStore.hoverAnatomies, t = this.settingsStore.hoverOrgans, i = this.settingsStore.hoverDOI;
-        let n = null, a = null;
-        this.flatmapRef && (n = this.$refs.flatmap.mapImp), this.multiflatmapRef && (n = this.$refs.multiflatmap.getCurrentFlatmap().mapImp), this.scaffoldRef && (a = this.$refs.scaffold), n && n.clearSearchResults(), e.length || t.length ? (clearTimeout(this.hoverDelay), this.multiflatmapRef || this.flatmapRef ? this.highlightAnatomies(n, e, i).then((s) => {
-          n.selectFeatures(s);
-        }) : this.scaffoldRef && (a == null || a.changeHighlightedByName(t, "", !1))) : this.hoverDelay = setTimeout(() => {
-          this.multiflatmapRef || this.flatmapRef ? n == null || n.clearSearchResults() : this.scaffoldRef && (a == null || a.changeHighlightedByName(t, "", !1));
-        }, 500);
-      }
-    },
-    onAnnotationOpen: function(e) {
-      r.emit("annotation-open", e);
-    },
-    onAnnotationClose: function() {
-      r.emit("annotation-close");
-    },
-    onConnectivityInfoOpen: function(e) {
-      r.emit("connectivity-info-open", e);
-    },
-    onConnectivityInfoClose: function() {
-      r.emit("connectivity-info-close");
-    },
-    onConnectivityGraphError: function(e) {
-      r.emit("connectivity-graph-error", e);
-    }
-  },
-  data: function() {
-    return {
-      apiLocation: void 0,
-      activeSpecies: "Human Male",
-      scaffoldCamera: void 0,
-      mainStyle: {
-        height: this.entry.datasetTitle ? "calc(100% - 30px)" : "100%",
-        width: "100%",
-        bottom: "0px"
-      },
-      helpMode: !1,
-      helpModeActiveItem: 0,
-      helpModeLastItem: !1,
-      multiflatmapRef: null,
-      flatmapRef: null,
-      scaffoldRef: null,
-      scaffoldLoaded: !1,
-      isInHelp: !1,
-      hoverDelay: void 0,
-      mapManager: void 0
-    };
-  },
-  created: function() {
-    this.flatmapAPI = void 0, this.apiLocation = void 0, this.settingsStore.flatmapAPI && (this.flatmapAPI = this.settingsStore.flatmapAPI), this.settingsStore.sparcApi && (this.apiLocation = this.settingsStore.sparcApi), this.settingsStore.mapManager && (this.mapManager = this.settingsStore.mapManager);
-  },
-  watch: {
-    helpMode: function(e) {
-      e || (this.helpModeActiveItem = 0);
-    }
-  }
-};
-export {
-  I as C
-};

package/src/components/markerZoomLevelsHardCoded.js

@@ -1,250 +0,0 @@
-// Set zoom values for micro and mesoscopic
-let microscopic = 7
-let mesoscopic = 5
-
-// Set what level each uberon shows at
-export default [
-  {
-    "id": "UBERON:0000948",
-    "name": "heart",
-    "showAtZoom": 1,
-  },
-  {
-    "id": "UBERON:0001759",
-    "name": "vagus nerve",
-    "showAtZoom": 1
-  },
-  {
-    "id": "UBERON:0001155",
-    "name": "colon",
-    "showAtZoom": 1
-  },
-  {
-    "id": "UBERON:0000945",
-    "name": "stomach",
-    "showAtZoom": 1
-  },
-  {
-    "id": "UBERON:0001013",
-    "name": "adipose tissue",
-    "showAtZoom": 1
-  },
-  {
-    "id": "UBERON:0001255",
-    "name": "urinary bladder",
-    "showAtZoom": 1
-  },
-  {
-    "id": "UBERON:0001348",
-    "name": "brown adipose tissue",
-    "showAtZoom": 6
-  },
-  {
-    "id": "UBERON:0002008",
-    "name": "cardiac nerve plexus",
-    "showAtZoom": 1
-  },
-  {
-    "id": "UBERON:0002240",
-    "name": "spinal cord",
-    "showAtZoom": 1
-  },
-  {
-    "id": "UBERON:0002005",
-    "name": "Enteric Nervous System",
-    "showAtZoom": 4
-  },
-  {
-    "id": "UBERON:0013702",
-    "name": "body proper",
-    "showAtZoom": 1
-  },
-  {
-    "id": "UBERON:0002298",
-    "name": "brainstem",
-    "showAtZoom": 1
-  },
-  {
-    "id": "UBERON:0002439",
-    "name": "myenteric nerve plexus",
-    "showAtZoom": 6
-  },
-  {
-    "id": "UBERON:0000010",
-    "name": "peripheral nervous system",
-    "showAtZoom": 6
-  },
-  {
-    "id": "UBERON:0002048",
-    "name": "lung",
-    "showAtZoom": 1
-  },
-  {
-    "id": "UBERON:0002410",
-    "name": "autonomic nervous system",
-    "showAtZoom": 6
-  },
-  {
-    "id": "UBERON:0002441",
-    "name": "cervicothoracic ganglion",
-    "showAtZoom": 6
-  },
-  {
-    "id": "UBERON:0005363",
-    "name": "inferior vagus X ganglion",
-    "showAtZoom": 6
-  },
-  {
-    "id": "UBERON:0001264",
-    "name": "pancreas",
-    "showAtZoom": 1
-  },
-  {
-    "id": "UBERON:0001884",
-    "name": "phrenic nerve",
-    "showAtZoom": 6
-  },
-  {
-    "id": "UBERON:0002059",
-    "name": "submandibular ganglion",
-    "showAtZoom": 7
-  },
-  {
-    "id": "UBERON:0001347",
-    "name": "white adipose tissue",
-    "showAtZoom": 6
-  },
-  {
-    "id": "UBERON:0001556",
-    "name": "lower urinary tract",
-    "showAtZoom": 1
-  },
-  {
-    "id": "UBERON:0002262",
-    "name": "celiac ganglion",
-    "showAtZoom": 5
-  },
-  {
-    "id": "UBERON:0000955",
-    "name": "Brain",
-    "showAtZoom": 1
-  },
-  {
-    "id": "UBERON:0000160",
-    "name": "intestine",
-    "showAtZoom": 1
-  },
-  {
-    "id": "UBERON:0001322",
-    "name": "sciatic nerve",
-    "showAtZoom": 1
-  },
-  {
-    "id": "UBERON:0001649",
-    "name": "glossopharyngeal nerve",
-    "showAtZoom": 6
-  },
-  {
-    "id": "UBERON:0002063",
-    "name": "sinus venosus",
-    "showAtZoom": 6
-  },
-  {
-    "id": "UBERON:0002107",
-    "name": "liver",
-    "showAtZoom": 1
-  },
-  {
-    "id": "UBERON:0002113",
-    "name": "kidney",
-    "showAtZoom": 1
-  },
-  {
-    "id": "UBERON:0002481",
-    "name": "bone tissue",
-    "showAtZoom": 1
-  },
-  {
-    "id": "UBERON:0004907",
-    "name": "lower digestive tract",
-    "showAtZoom": 4
-  },
-  {
-    "id": "UBERON:0000044",
-    "name": "Dorsal root ganglion",
-    "showAtZoom": 5
-  },
-  // New levels from Keeran
-  {
-    "id": "UBERON:0001736",
-    "name": "Submandibular gland",
-    "showAtZoom": microscopic,
-    "keyword": true
-  },
-  {
-    "id": "UBERON:0001160",
-    "name": "Fundus of stgit omach",
-    "showAtZoom": mesoscopic,
-    "keyword": true
-  },
-  {
-    "id": "UBERON:0000955",
-    "name": "Brain",
-    "showAtZoom": mesoscopic,
-    "keyword": true
-  },
-  {
-    "id": "UBERON:0003708",
-    "name": "Carotid sinus",
-    "showAtZoom": microscopic,
-    "keyword": true
-  },
-  {
-    "id": "UBERON:0002079",
-    "name": "Left cardiac atrium",
-    "showAtZoom": mesoscopic,
-    "keyword": true
-  },
-  {
-    "id": "ILX:0485722",
-    "name": "Nodose ganglion",
-    "showAtZoom": microscopic,
-    "keyword": true
-  },
-  {
-    "id": "UBERON:0002078",
-    "name": "Right cardiac atrium",
-    "showAtZoom": mesoscopic,
-    "keyword": true
-  },
-  {
-    "id": "UBERON:0002084",
-    "name": "Heart left ventricle",
-    "showAtZoom": mesoscopic,
-    "keyword": true
-  },
-  {
-    "id": "UBERON:0002080",
-    "name": "Heart right ventricle",
-    "showAtZoom": mesoscopic,
-    "keyword": true
-  },
-  {
-    "id": "UBERON:0001508",
-    "name": "Arch of Aorta",
-    "showAtZoom": mesoscopic,
-    "keyword": true
-  },
-  {
-    "id": "UBERON:0001738",
-    "name": "Thyroid cartilage",
-    "showAtZoom": mesoscopic,
-    "keyword": true
-  },
-  {
-    "id": "UBERON:0000388",
-    "name": "Epiglottis",
-    "showAtZoom": mesoscopic,
-    "keyword": true
-  },
-]