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https://github.com/chanzuckerberg/cellxgene.git
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refactoring - immutable crossfilter (#647)
* immutable crossfilter * PR review changes
This commit is contained in:
Bruce Martin
Vendored
+115
-101
@@ -35,7 +35,6 @@ const Controls = (
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world: null,
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categoricalSelectionState: null,
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crossfilter: null,
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dimensionMap: null,
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userDefinedGenes: [],
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userDefinedGenesLoading: false,
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diffexpGenes: [],
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@@ -95,8 +94,10 @@ const Controls = (
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state,
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world
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);
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const crossfilter = Crossfilter(world.obsAnnotations);
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const dimensionMap = World.createObsDimensionMap(crossfilter, world);
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const crossfilter = World.createObsDimensions(
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new Crossfilter(world.obsAnnotations),
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world
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);
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WorldUtil.clearCaches();
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return {
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@@ -104,11 +105,10 @@ const Controls = (
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loading: false,
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error: null,
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universe,
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fullUniverseCache: { world, crossfilter, dimensionMap },
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fullUniverseCache: { world, crossfilter },
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world,
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categoricalSelectionState,
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crossfilter,
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dimensionMap,
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colorMode,
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colorAccessor: null,
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colors,
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@@ -116,40 +116,35 @@ const Controls = (
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};
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}
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case "reset World to eq Universe": {
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/*
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1. Reset world & crossfilter, using previously created objects which were
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stashed in `fullUniverseCache`
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2. Add crossfilter dimension for all userDefined and diffexp genes/varData,
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as they are not part of the cached crossfilter.
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3. Compute categorical selection summary
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4. Reset all WorldUtil caches
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5. Reset color-by
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*/
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const { userDefinedGenes, diffexpGenes, fullUniverseCache } = state;
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const { world, crossfilter } = fullUniverseCache;
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// reset all crossfilter dimensions
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_.forEach(fullUniverseCache.dimensionMap, dim => dim.filterAll());
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const { world } = fullUniverseCache;
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const crossfilter = ControlsHelpers.createGeneDimensions(
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userDefinedGenes,
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diffexpGenes,
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world,
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fullUniverseCache.crossfilter
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);
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const colorMode = null;
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const colors = createColors(world, colorMode);
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const categoricalSelectionState = ControlsHelpers.createCategoricalSelectionState(
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state,
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world
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);
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/* free dimensions not in cache (otherwise they leak) */
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_.forEach(state.dimensionMap, (dim, dimName) => {
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if (!fullUniverseCache.dimensionMap[dimName]) {
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dim.dispose();
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}
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});
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const dimensionMap = {
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...fullUniverseCache.dimensionMap,
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...ControlsHelpers.createGenesDimMap(
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userDefinedGenes,
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diffexpGenes,
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world,
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crossfilter
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)
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};
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WorldUtil.clearCaches();
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return {
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...state,
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world,
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categoricalSelectionState,
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crossfilter,
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dimensionMap,
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colorMode,
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colorAccessor: null,
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colors,
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@@ -175,16 +170,15 @@ const Controls = (
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state,
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world
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);
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const crossfilter = Crossfilter(world.obsAnnotations);
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const dimensionMap = {
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...World.createObsDimensionMap(crossfilter, world),
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...ControlsHelpers.createGenesDimMap(
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userDefinedGenes,
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diffexpGenes,
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world,
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crossfilter
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)
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};
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let crossfilter = new Crossfilter(world.obsAnnotations);
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crossfilter = World.createObsDimensions(crossfilter, world);
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crossfilter = ControlsHelpers.createGeneDimensions(
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userDefinedGenes,
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diffexpGenes,
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world,
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crossfilter
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);
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WorldUtil.clearCaches();
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return {
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@@ -194,8 +188,7 @@ const Controls = (
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world,
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colors,
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categoricalSelectionState,
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crossfilter,
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dimensionMap
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crossfilter
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};
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}
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case "expression load success": {
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@@ -276,56 +269,57 @@ const Controls = (
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};
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}
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case "request user defined gene success": {
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const { world, crossfilter, dimensionMap, userDefinedGenes } = state;
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const { world, crossfilter: oldCrossfilter, userDefinedGenes } = state;
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const _userDefinedGenes = userDefinedGenes.slice();
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const gene = action.data.genes[0];
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dimensionMap[
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userDefinedDimensionName(gene)
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] = World.createVarDataDimension(world, crossfilter, gene);
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const crossfilter = oldCrossfilter.addDimension(
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userDefinedDimensionName(gene),
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"scalar",
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world.varData.col(gene).asArray(),
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Float32Array
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);
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return {
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...state,
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dimensionMap,
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crossfilter,
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userDefinedGenes: _userDefinedGenes,
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userDefinedGenesLoading: false
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};
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}
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case "request differential expression success": {
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const { world, crossfilter, dimensionMap } = state;
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const { world, crossfilter: oldCrossfilter } = state;
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const _diffexpGenes = [];
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action.data.forEach(d => {
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_diffexpGenes.push(world.varAnnotations.at(d[0], "name"));
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});
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let crossfilter = oldCrossfilter;
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_.forEach(_diffexpGenes, gene => {
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dimensionMap[diffexpDimensionName(gene)] = World.createVarDataDimension(
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world,
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crossfilter,
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gene
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crossfilter = crossfilter.addDimension(
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diffexpDimensionName(gene),
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"scalar",
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world.varData.col(gene).asArray(),
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Float32Array
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);
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});
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return {
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...state,
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dimensionMap,
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crossfilter,
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diffexpGenes: _diffexpGenes
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};
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}
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case "clear differential expression": {
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const { world, dimensionMap } = state;
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const _dimensionMap = dimensionMap;
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const { world } = state;
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let { crossfilter } = state;
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_.forEach(action.diffExp, values => {
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const name = world.varAnnotations.at(values[0], "name");
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// clean up crossfilter dimensions
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const dimension = dimensionMap[diffexpDimensionName(name)];
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dimension.dispose();
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delete dimensionMap[diffexpDimensionName(name)];
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crossfilter = crossfilter.delDimension(diffexpDimensionName(name));
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});
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return {
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...state,
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dimensionMap: _dimensionMap,
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crossfilter,
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diffexpGenes: []
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};
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}
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@@ -342,34 +336,29 @@ const Controls = (
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};
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}
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case "clear user defined gene": {
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const { userDefinedGenes, dimensionMap } = state;
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const { userDefinedGenes, crossfilter: oldCrossfilter } = state;
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const newUserDefinedGenes = _.filter(
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userDefinedGenes,
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d => d !== action.data
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);
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const dimension = dimensionMap[userDefinedDimensionName(action.data)];
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dimension.dispose();
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delete dimensionMap[userDefinedDimensionName(action.data)];
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const crossfilter = oldCrossfilter.delDimension(
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userDefinedDimensionName(action.data)
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);
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return {
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...state,
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dimensionMap,
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crossfilter,
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userDefinedGenes: newUserDefinedGenes
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};
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}
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case "clear all user defined genes": {
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const { userDefinedGenes, dimensionMap } = state;
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const { userDefinedGenes } = state;
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let { crossfilter } = state;
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_.forEach(userDefinedGenes, gene => {
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const dimension = dimensionMap[userDefinedDimensionName(gene)];
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dimension.dispose();
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delete dimensionMap[userDefinedDimensionName(gene)];
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crossfilter = crossfilter.delDimension(userDefinedDimensionName(gene));
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});
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return {
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...state,
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dimensionMap,
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crossfilter,
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userDefinedGenes: []
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};
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}
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@@ -395,34 +384,49 @@ const Controls = (
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User Events
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*******************************/
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case "graph brush selection change": {
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state.dimensionMap[layoutDimensionName("XY")].filterWithinRect(
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action.brushCoords.northwest,
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action.brushCoords.southeast
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);
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const name = layoutDimensionName("XY");
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const [x0, y0] = action.brushCoords.northwest;
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const [x1, y1] = action.brushCoords.southeast;
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const crossfilter = state.crossfilter.select(name, {
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mode: "within-rect",
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x0,
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y0,
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x1,
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y1
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});
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return {
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...state,
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crossfilter,
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graphBrushSelection: action.brushCoords
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};
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}
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case "lasso deselect":
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case "graph brush deselect": {
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state.dimensionMap[layoutDimensionName("XY")].filterAll();
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const name = layoutDimensionName("XY");
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const crossfilter = state.crossfilter.select(name, { mode: "all" });
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return {
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...state,
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crossfilter,
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graphBrushSelection: null
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};
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}
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case "lasso selection": {
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const { polygon } = action;
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const dXY = state.dimensionMap[layoutDimensionName("XY")];
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const name = layoutDimensionName("XY");
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const { crossfilter: oldCrossfilter } = state;
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let crossfilter;
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if (polygon.length < 3) {
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// single point or a line is not a polygon, and is therefore a deselect
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dXY.filterAll();
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crossfilter = oldCrossfilter.select(name, { mode: "all" });
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} else {
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dXY.filterWithinPolygon(polygon);
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crossfilter = oldCrossfilter.select(name, {
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mode: "within-polygon",
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polygon
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});
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}
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return {
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...state
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...state,
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crossfilter
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};
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}
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case "continuous metadata histogram brush": {
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@@ -430,15 +434,17 @@ const Controls = (
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action.continuousNamespace,
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action.selection
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);
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let { crossfilter } = state;
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// action.selection: metadata name being selected
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// action.range: filter range, or null if deselected
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if (!action.range) {
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state.dimensionMap[name].filterAll();
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crossfilter = crossfilter.select(name, { mode: "all" });
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} else {
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state.dimensionMap[name].filterRange(action.range);
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const [lo, hi] = action.range;
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crossfilter = crossfilter.select(name, { mode: "range", lo, hi });
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}
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return { ...state };
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return { ...state, crossfilter };
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}
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case "change opacity deselected cells in 2d graph background":
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return {
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@@ -476,13 +482,15 @@ const Controls = (
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// update the filter to match all selected options
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const cat = newCategoricalSelectionState[action.metadataField];
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state.dimensionMap[obsAnnoDimensionName(action.metadataField)].filterEnum(
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ControlsHelpers.selectedValuesForCategory(cat)
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);
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const dName = obsAnnoDimensionName(action.metadataField);
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const crossfilter = state.crossfilter.select(dName, {
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mode: "exact",
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values: ControlsHelpers.selectedValuesForCategory(cat)
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});
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return {
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...state,
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categoricalSelectionState: newCategoricalSelectionState
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categoricalSelectionState: newCategoricalSelectionState,
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crossfilter
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};
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}
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case "categorical metadata filter deselect": {
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@@ -500,13 +508,15 @@ const Controls = (
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// update the filter to match all selected options
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const cat = newCategoricalSelectionState[action.metadataField];
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state.dimensionMap[obsAnnoDimensionName(action.metadataField)].filterEnum(
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ControlsHelpers.selectedValuesForCategory(cat)
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);
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const dName = obsAnnoDimensionName(action.metadataField);
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const crossfilter = state.crossfilter.select(dName, {
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mode: "exact",
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values: ControlsHelpers.selectedValuesForCategory(cat)
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});
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return {
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...state,
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categoricalSelectionState: newCategoricalSelectionState
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categoricalSelectionState: newCategoricalSelectionState,
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crossfilter
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};
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}
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case "categorical metadata filter none of these": {
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@@ -520,12 +530,14 @@ const Controls = (
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).fill(false)
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}
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};
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state.dimensionMap[
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obsAnnoDimensionName(action.metadataField)
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].filterNone();
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const dName = obsAnnoDimensionName(action.metadataField);
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const crossfilter = state.crossfilter.select(dName, {
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mode: "none"
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});
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return {
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...state,
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categoricalSelectionState: newCategoricalSelectionState
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categoricalSelectionState: newCategoricalSelectionState,
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crossfilter
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};
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}
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case "categorical metadata filter all of these": {
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@@ -539,12 +551,14 @@ const Controls = (
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).fill(true)
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}
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};
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state.dimensionMap[
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obsAnnoDimensionName(action.metadataField)
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].filterAll();
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const dName = obsAnnoDimensionName(action.metadataField);
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const crossfilter = state.crossfilter.select(dName, {
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mode: "all"
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});
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return {
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...state,
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categoricalSelectionState: newCategoricalSelectionState
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categoricalSelectionState: newCategoricalSelectionState,
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crossfilter
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};
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}
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