@sjcrh/proteinpaint-client 2.208.0 → 2.210.0

package/dist/matrix.integration.spec-VTXYJ46U.js.map

@@ -1,7 +0,0 @@
-{
-  "version": 3,
-  "sources": ["../plots/matrix/test/matrix.integration.spec.js"],
-  "sourcesContent": ["import tape from 'tape'\nimport { termjson } from '#test/testdata/termjson.ts'\nimport * as helpers from '#test/front.helpers.js'\nimport { sleep, detectLst, detectGte } from '#test/test.helpers.js'\nimport { getSortOptions } from '../matrix.sort.js'\nimport {\n\tproteinChangingMutations,\n\ttruncatingMutations,\n\tsynonymousMutations,\n\tmutationClasses,\n\tCNVClasses\n} from '#shared/common.js'\n\n/**************\n test sections\n\nonly dictionary terms\ntermCollection\nwith divide by terms\nlong column group labels\n\n***************/\ntape('\\n', function (test) {\n\ttest.comment('-***- plots/matrix -***-')\n\ttest.end()\n})\n\ntape('only dictionary terms', function (test) {\n\ttest.timeoutAfter(5000)\n\ttest.plan(5)\n\trunpp({\n\t\tstate: {\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\t\tavailContentWidth: 1200\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: 'Demographics',\n\t\t\t\t\t\t\tlst: [\n\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\tid: 'aaclassic_5',\n\t\t\t\t\t\t\t\t\tq: {\n\t\t\t\t\t\t\t\t\t\tmode: 'continuous'\n\t\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t\t},\n\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\tid: 'sex'\n\t\t\t\t\t\t\t\t\t//q: { mode: 'values' } // or 'groupsetting'\n\t\t\t\t\t\t\t\t},\n\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\tid: 'agedx',\n\t\t\t\t\t\t\t\t\tq: {\n\t\t\t\t\t\t\t\t\t\tmode: 'discrete',\n\t\t\t\t\t\t\t\t\t\ttype: 'regular-bin',\n\t\t\t\t\t\t\t\t\t\tbin_size: 5,\n\t\t\t\t\t\t\t\t\t\tfirst_bin: {\n\t\t\t\t\t\t\t\t\t\t\tstartunbounded: true,\n\t\t\t\t\t\t\t\t\t\t\tstop: 5,\n\t\t\t\t\t\t\t\t\t\t\tstopinclusive: true\n\t\t\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t\t\t} // or 'continuous'\n\t\t\t\t\t\t\t\t},\n\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\tid: 'Arrhythmias'\n\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t]\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tfunction runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g').size(),\n\t\t\t4,\n\t\t\t`should render the expected number of serieses`\n\t\t)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g rect').size(),\n\t\t\t240,\n\t\t\t`should render the expected number of cell rects`\n\t\t)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.cluster.selectAll('.sjpp-matrix-clusteroutlines rect').size(),\n\t\t\t1,\n\t\t\t`should render the expected number of cluster rects`\n\t\t)\n\t\t// select the first series\n\t\tconst sg0rects = matrix.Inner.dom.seriesesG.select('.sjpp-mass-series-g').selectAll('rect')\n\t\ttest.equal(\n\t\t\tsg0rects.filter(d => d.key <= 0 && d.fill === 'transparent').size(),\n\t\t\t14,\n\t\t\t`should render special values with transparent rects`\n\t\t)\n\t\tconst uniqueHts = new Set()\n\t\tsg0rects.each(d => uniqueHts.add(d.height))\n\t\ttest.equal(uniqueHts.size, 45, `should render different rect heights for continuous mode bar plots`)\n\n\t\t// TODO: test for matrix bar plots of continuous mode terms with allowed negative value\n\n\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\ttest.end()\n\t}\n})\n\ntape('termCollection', function (test) {\n\trunpp({\n\t\tstate: {\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: '',\n\t\t\t\t\t\t\tlst: [getTermCollection()]\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: { callbacks: { 'postRender.test': runTests } }\n\t})\n\n\tfunction runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g').size(),\n\t\t\t1,\n\t\t\t`should render the expected number of serieses`\n\t\t)\n\t\t// TODO: test sorting after simulated use of edit menu\n\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\ttest.end()\n\t}\n})\n\ntape('with divide by terms', function (test) {\n\ttest.timeoutAfter(5000)\n\ttest.plan(3)\n\trunpp({\n\t\tstate: {\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\tavailContentWidth: 1200\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\tdivideBy: {\n\t\t\t\t\t\tid: 'sex'\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: 'Demographics',\n\t\t\t\t\t\t\tlst: [\n\t\t\t\t\t\t\t\t{ id: 'agedx', term: termjson['agedx'] },\n\t\t\t\t\t\t\t\t{ id: 'diaggrp', term: termjson['diaggrp'] },\n\t\t\t\t\t\t\t\t{ id: 'aaclassic_5', term: termjson['aaclassic_5'] }\n\t\t\t\t\t\t\t]\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tfunction runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g').size(),\n\t\t\t3,\n\t\t\t`should render the expected number of serieses`\n\t\t)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g rect').size(),\n\t\t\t180,\n\t\t\t`should render the expected number of cell rects`\n\t\t)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.cluster.selectAll('.sjpp-matrix-clusteroutlines rect').size(),\n\t\t\t2,\n\t\t\t`should render the expected number of cluster rects`\n\t\t)\n\n\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\ttest.end()\n\t}\n})\n\ntape('long column group labels', function (test) {\n\ttest.timeoutAfter(5000)\n\ttest.plan(2)\n\trunpp({\n\t\tstate: {\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\tavailContentWidth: 1200\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\tdivideBy: {\n\t\t\t\t\t\tid: 'diaggrp'\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: 'Demographics',\n\t\t\t\t\t\t\tlst: [\n\t\t\t\t\t\t\t\t{ id: 'diaggrp', term: termjson['diaggrp'] },\n\t\t\t\t\t\t\t\t{ id: 'agedx', term: termjson['agedx'] },\n\t\t\t\t\t\t\t\t{ id: 'aaclassic_5', term: termjson['aaclassic_5'] }\n\t\t\t\t\t\t\t]\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test222': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tfunction runTests(matrix) {\n\t\tmatrix.on('postRender.test222', null)\n\t\tconst y = matrix.Inner.dom.clipRect.property('y').baseVal.value\n\t\ttest.true(y > -63 && y < -62, `should adjust the clip-path rect y-value to between -39 and -38, actual=${y}`)\n\t\tconst h = matrix.Inner.dom.clipRect.property('height').baseVal.value\n\t\ttest.true(h > 619 && h <= 620, `should adjust the clip-path height to between 595 and 596, actual=${h}`)\n\n\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\ttest.end()\n\t}\n})\n\ntape('divide by continuous terms', function (test) {\n\ttest.timeoutAfter(5000)\n\ttest.plan(3)\n\trunpp({\n\t\tstate: {\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\tavailContentWidth: 1200\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\tdivideBy: {\n\t\t\t\t\t\tid: 'agedx'\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: 'Demographics',\n\t\t\t\t\t\t\tlst: [\n\t\t\t\t\t\t\t\t{ id: 'sex', term: termjson['sex'] },\n\t\t\t\t\t\t\t\t{ id: 'diaggrp', term: termjson['diaggrp'] },\n\t\t\t\t\t\t\t\t{ id: 'aaclassic_5', term: termjson['aaclassic_5'] }\n\t\t\t\t\t\t\t]\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tfunction runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g').size(),\n\t\t\t3,\n\t\t\t`should render the expected number of serieses`\n\t\t)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g rect').size(),\n\t\t\t180,\n\t\t\t`should render the expected number of cell rects`\n\t\t)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.cluster.selectAll('.sjpp-matrix-clusteroutlines rect').size(),\n\t\t\t5,\n\t\t\t`should render the expected number of cluster rects`\n\t\t)\n\n\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\ttest.end()\n\t}\n})\n\ntape('geneVariant term', function (test) {\n\ttest.timeoutAfter(5000)\n\ttest.plan(2)\n\trunpp({\n\t\tstate: {\n\t\t\tnav: {\n\t\t\t\tactiveTab: 1\n\t\t\t},\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\tavailContentWidth: 1200\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: '',\n\t\t\t\t\t\t\tlst: [{ term: { gene: 'TP53', name: 'TP53', type: 'geneVariant', isleaf: true } }]\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tfunction runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g').size(),\n\t\t\t1,\n\t\t\t`should render the expected number of serieses`\n\t\t)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g rect').size(),\n\t\t\t242,\n\t\t\t`should render the expected number of cell rects`\n\t\t)\n\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\ttest.end()\n\t}\n})\n\ntape('geneVariant terms and dictionary terms', function (test) {\n\ttest.timeoutAfter(5000)\n\ttest.plan(3)\n\trunpp({\n\t\tstate: {\n\t\t\tnav: {\n\t\t\t\tactiveTab: 1\n\t\t\t},\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\tavailContentWidth: 1200\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: '',\n\t\t\t\t\t\t\tlst: [\n\t\t\t\t\t\t\t\t...getGenes(),\n\t\t\t\t\t\t\t\t{ id: 'agedx', term: termjson['agedx'] },\n\t\t\t\t\t\t\t\t{ id: 'diaggrp', term: termjson['diaggrp'] },\n\t\t\t\t\t\t\t\t{ id: 'aaclassic_5', term: termjson['aaclassic_5'] }\n\t\t\t\t\t\t\t]\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tfunction runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g').size(),\n\t\t\t6,\n\t\t\t`should render the expected number of serieses`\n\t\t)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g rect').size(),\n\t\t\t902,\n\t\t\t`should render the expected number of cell rects`\n\t\t)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.cluster.selectAll('.sjpp-matrix-clusteroutlines rect').size(),\n\t\t\t1,\n\t\t\t`should render the expected number of cluster rects`\n\t\t)\n\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\ttest.end()\n\t}\n})\n\ntape('geneVariant terms with divide by dictionary term', function (test) {\n\ttest.timeoutAfter(5000)\n\ttest.plan(3)\n\trunpp({\n\t\tstate: {\n\t\t\tnav: {\n\t\t\t\tactiveTab: 1\n\t\t\t},\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\tavailContentWidth: 1200\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\tdivideBy: {\n\t\t\t\t\t\tid: 'sex'\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: '',\n\t\t\t\t\t\t\tlst: getGenes()\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tfunction runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g').size(),\n\t\t\t3,\n\t\t\t`should render the expected number of serieses`\n\t\t)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g rect').size(),\n\t\t\t722,\n\t\t\t`should render the expected number of cell rects`\n\t\t)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.cluster.selectAll('.sjpp-matrix-clusteroutlines rect').size(),\n\t\t\t2,\n\t\t\t`should render the expected number of cluster rects`\n\t\t)\n\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\ttest.end()\n\t}\n})\n\ntape('geneVariant terms and dictionary terms divide by dictionary term', function (test) {\n\ttest.timeoutAfter(5000)\n\ttest.plan(3)\n\trunpp({\n\t\tstate: {\n\t\t\tnav: {\n\t\t\t\tactiveTab: 1\n\t\t\t},\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\tavailContentWidth: 1200\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\tdivideBy: {\n\t\t\t\t\t\tid: 'sex'\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: '',\n\t\t\t\t\t\t\tlst: [\n\t\t\t\t\t\t\t\t...getGenes(),\n\t\t\t\t\t\t\t\t{ id: 'agedx', term: termjson['agedx'] },\n\t\t\t\t\t\t\t\t{ id: 'diaggrp', term: termjson['diaggrp'] },\n\t\t\t\t\t\t\t\t{ id: 'aaclassic_5', term: termjson['aaclassic_5'] }\n\t\t\t\t\t\t\t]\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tfunction runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g').size(),\n\t\t\t6,\n\t\t\t`should render the expected number of serieses`\n\t\t)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g rect').size(),\n\t\t\t902,\n\t\t\t`should render the expected number of cell rects`\n\t\t)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.cluster.selectAll('.sjpp-matrix-clusteroutlines rect').size(),\n\t\t\t2,\n\t\t\t`should render the expected number of cluster rects`\n\t\t)\n\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\ttest.end()\n\t}\n})\n\ntape('sort samples by sample name', function (test) {\n\ttest.timeoutAfter(5000)\n\ttest.plan(4)\n\trunpp({\n\t\tstate: {\n\t\t\tnav: {\n\t\t\t\tactiveTab: 1\n\t\t\t},\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\tavailContentWidth: 1200,\n\t\t\t\t\t\t\tsortSamplesBy: 'name'\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: '',\n\t\t\t\t\t\t\tlst: getGenes()\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tfunction runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\t\tconst g = matrix.Inner.dom.sampleLabelsPG.selectAll('.sjpp-matrix-series-label-g g')\n\t\ttest.equal(g.size(), 60, `should render the expected number of sample names`)\n\t\ttest.equal(g._groups[0][0].textContent, '2646', `should be the expected sample name`)\n\t\ttest.equal(g._groups[0][9].textContent, '2772', `should be the expected sample name`)\n\t\ttest.equal(g._groups[0][59].textContent, '3472', `should be the expected sample name`)\n\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\ttest.end()\n\t}\n})\n\ntape('sort samples by Mutation categories, not sorted by CNV', function (test) {\n\ttest.timeoutAfter(5000)\n\ttest.plan(4)\n\trunpp({\n\t\tstate: {\n\t\t\tnav: {\n\t\t\t\tactiveTab: 1\n\t\t\t},\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\tavailContentWidth: 1200,\n\t\t\t\t\t\t\tsortSamplesBy: 'a'\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: 'Demographics',\n\t\t\t\t\t\t\tlst: getGenes()\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tfunction runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.sampleLabelsPG.selectAll('.sjpp-matrix-series-label-g g').size(),\n\t\t\t60,\n\t\t\t`should render the expected number of sample names`\n\t\t)\n\t\tconst rects = matrix.Inner.dom.sampleLabelsPG.selectAll('.sjpp-matrix-series-label-g g')._groups[0]\n\t\tconst index_3346 = Array.from(rects).find(rect => rect.textContent == '3346').__data__.index\n\t\ttest.true(index_3346 < 10, `sample 3346 should be in the expected order (not sorted by CNV)`)\n\t\tconst index_2660 = Array.from(rects).find(rect => rect.textContent == '2660').__data__.index\n\t\ttest.equal(index_2660, 8, `sample 2660 should be in the expected order (not sorted by CNV)`)\n\t\tconst index_3472 = Array.from(rects).find(rect => rect.textContent == '3472').__data__.index\n\t\ttest.true(index_3472 > 9, `sample 3472 should be in the expected order (not sorted by CNV)`)\n\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\ttest.end()\n\t}\n})\n\ntape('sort samples by CNV+SSM > SSM-only', function (test) {\n\ttest.timeoutAfter(5000)\n\ttest.plan(5)\n\tconst sortOptions = getSortOptions(\n\t\tundefined,\n\t\t{},\n\t\t{\n\t\t\tproteinChangingMutations,\n\t\t\ttruncatingMutations,\n\t\t\tsynonymousMutations,\n\t\t\tmutationClasses,\n\t\t\tCNVClasses\n\t\t}\n\t)\n\n\tconst cnvtb = sortOptions.a.sortPriority[0].tiebreakers[2]\n\tcnvtb.disabled = false\n\n\trunpp({\n\t\tstate: {\n\t\t\tnav: {\n\t\t\t\tactiveTab: 1\n\t\t\t},\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tlegendValueFilter: {\n\t\t\t\t\t\ttype: 'tvslst',\n\t\t\t\t\t\tlst: []\n\t\t\t\t\t},\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\tavailContentWidth: 1200,\n\t\t\t\t\t\t\tsortSamplesBy: 'a',\n\t\t\t\t\t\t\tsortOptions\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: '',\n\t\t\t\t\t\t\tlst: getGenes()\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tfunction runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.sampleLabelsPG.selectAll('.sjpp-matrix-series-label-g g').size(),\n\t\t\t60,\n\t\t\t`should render the expected number of sample names`\n\t\t)\n\t\tconst rects = matrix.Inner.dom.sampleLabelsPG.selectAll('.sjpp-matrix-series-label-g g')._groups[0]\n\t\tconst r = Array.from(rects)\n\t\tconst index_3416 = r.find(rect => rect.textContent == '3416').__data__.index\n\t\ttest.equal(index_3416, 0, `should be in the expected order`)\n\t\tconst index_3346 = r.find(rect => rect.textContent == '3346').__data__.index\n\t\ttest.equal(index_3346, 9, `should be in the expected order`)\n\t\tconst index_2660 = r.find(rect => rect.textContent == '2660').__data__.index\n\t\ttest.equal(index_2660, 11, `should be in the expected order`)\n\t\tconst index_3472 = r.find(rect => rect.textContent == '3472').__data__.index\n\t\ttest.equal(index_3472, r.length - 1, `should be in the expected order`)\n\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\ttest.end()\n\t}\n})\n\ntape('set max number of samples', function (test) {\n\ttest.timeoutAfter(5000)\n\ttest.plan(1)\n\trunpp({\n\t\tstate: {\n\t\t\tnav: {\n\t\t\t\tactiveTab: 1\n\t\t\t},\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\t\tavailContentWidth: 1200,\n\t\t\t\t\t\t\tmaxSample: 10\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: '',\n\t\t\t\t\t\t\tlst: [\n\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\tid: 'sex'\n\t\t\t\t\t\t\t\t\t//q: { mode: 'values' } // or 'groupsetting'\n\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t]\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tfunction runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g rect').size(),\n\t\t\t10,\n\t\t\t`should render the expected number of cell rects`\n\t\t)\n\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\ttest.end()\n\t}\n})\n\ntape('sort sample groups by Group Name', function (test) {\n\ttest.timeoutAfter(5000)\n\ttest.plan(2)\n\trunpp({\n\t\tstate: {\n\t\t\tnav: {\n\t\t\t\tactiveTab: 1\n\t\t\t},\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\tavailContentWidth: 1200,\n\t\t\t\t\t\t\tsortSampleGrpsBy: 'name'\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\tdivideBy: {\n\t\t\t\t\t\tid: 'genetic_race'\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: '',\n\t\t\t\t\t\t\tlst: getGenes()\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tfunction runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\t\tconst matrixGroupLabels = matrix.Inner.dom.sampleLabelsPG.selectAll(\n\t\t\t'.sjpp-matrix-series-group-label-g .sjpp-matrix-label'\n\t\t)._groups[0]\n\t\ttest.true(matrixGroupLabels[0].textContent.startsWith('African Ancestry'), `should be the expected group name`)\n\t\ttest.true(matrixGroupLabels[2].textContent.startsWith('European Ancestry'), `should be the expected group name`)\n\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\ttest.end()\n\t}\n})\n\ntape('sort sample groups by Sample Count', function (test) {\n\ttest.timeoutAfter(5000)\n\ttest.plan(2)\n\trunpp({\n\t\tstate: {\n\t\t\tnav: {\n\t\t\t\tactiveTab: 1\n\t\t\t},\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\tavailContentWidth: 1200,\n\t\t\t\t\t\t\tsortSampleGrpsBy: 'sampleCount'\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\tdivideBy: {\n\t\t\t\t\t\tid: 'genetic_race'\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: '',\n\t\t\t\t\t\t\tlst: getGenes()\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tfunction runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\t\tconst matrixGroupLabels = matrix.Inner.dom.sampleLabelsPG.selectAll(\n\t\t\t'.sjpp-matrix-series-group-label-g .sjpp-matrix-label'\n\t\t)._groups[0]\n\t\ttest.true(matrixGroupLabels[0].textContent.startsWith('European Ancestry'), `should be the expected group name`)\n\t\ttest.true(matrixGroupLabels[2].textContent.startsWith('Asian Ancestry'), `should be the expected group name`)\n\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\ttest.end()\n\t}\n})\n\ntape('sort sample groups by Hits', function (test) {\n\ttest.timeoutAfter(5000)\n\ttest.plan(2)\n\trunpp({\n\t\tstate: {\n\t\t\tnav: {\n\t\t\t\tactiveTab: 1\n\t\t\t},\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\tavailContentWidth: 1200,\n\t\t\t\t\t\t\tsortSampleGrpsBy: 'hits'\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\tdivideBy: {\n\t\t\t\t\t\tid: 'Hearing loss'\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: '',\n\t\t\t\t\t\t\tlst: getGenes()\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tfunction runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\t\tconst matrixGroupLabels = matrix.Inner.dom.sampleLabelsPG.selectAll(\n\t\t\t'.sjpp-matrix-series-group-label-g .sjpp-matrix-label'\n\t\t)._groups[0]\n\t\ttest.true(matrixGroupLabels[0].textContent.startsWith('3: Severe'), `should be the expected group name`)\n\t\ttest.true(matrixGroupLabels[4].textContent.startsWith('1: Mild'), `should be the expected group name`)\n\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\ttest.end()\n\t}\n})\n\ntape('sort sample groups by Hits 2', function (test) {\n\ttest.timeoutAfter(5000)\n\ttest.plan(2)\n\trunpp({\n\t\tstate: {\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tid: 'xyz',\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\tavailContentWidth: 1200,\n\t\t\t\t\t\t\tsortSampleGrpsBy: 'hits'\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\tdivideBy: {\n\t\t\t\t\t\tid: 'agedx'\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: '',\n\t\t\t\t\t\t\tlst: getGenes()\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\tpostRender: runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tfunction runTests(matrix) {\n\t\tmatrix.on('postRender', null)\n\t\tconst matrixGroupLabels = matrix.Inner.dom.sampleLabelsPG.selectAll(\n\t\t\t'.sjpp-matrix-series-group-label-g .sjpp-matrix-label'\n\t\t)._groups[0]\n\t\ttest.true(matrixGroupLabels[0].textContent.startsWith('10 to <15'), `should have the expected left-most group name`)\n\t\ttest.true(matrixGroupLabels[4].textContent.startsWith('\u226520'), `should have the right-most expected group name`)\n\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\ttest.end()\n\t}\n})\n\ntape('Display Sample Counts for Gene: Absolute', function (test) {\n\ttest.timeoutAfter(5000)\n\ttest.plan(2)\n\trunpp({\n\t\tstate: {\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\tavailContentWidth: 1200,\n\t\t\t\t\t\t\tsamplecount4gene: 'abs'\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: '',\n\t\t\t\t\t\t\tlst: getGenes()\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tfunction runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\n\t\tconst termLabels = matrix.Inner.dom.termLabelG.selectAll('.sjpp-matrix-term-label-g .sjpp-matrix-label')._groups[0]\n\t\tconst pattern = /\\(\\d+\\)/\n\t\ttest.true(pattern.test(termLabels[0].textContent), `should display sample counts for gene by absolute number`)\n\t\ttest.true(\n\t\t\tpattern.test(termLabels[termLabels.length - 1].textContent),\n\t\t\t`should display sample counts for gene by absolute number`\n\t\t)\n\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\ttest.end()\n\t}\n})\n\ntape('Display Sample Counts for Gene: Percent', function (test) {\n\ttest.timeoutAfter(5000)\n\ttest.plan(2)\n\trunpp({\n\t\tstate: {\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\tavailContentWidth: 1200,\n\t\t\t\t\t\t\tsamplecount4gene: 'pct'\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: '',\n\t\t\t\t\t\t\tlst: getGenes()\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tfunction runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\n\t\tconst termLabels = matrix.Inner.dom.termLabelG.selectAll('.sjpp-matrix-term-label-g .sjpp-matrix-label')._groups[0]\n\t\tconst pattern = /\\(\\d+(\\.\\d+)? ?%\\)/\n\t\ttest.true(pattern.test(termLabels[0].textContent), `should display sample counts for gene by percentage`)\n\t\ttest.true(\n\t\t\tpattern.test(termLabels[termLabels.length - 1].textContent),\n\t\t\t`should display sample counts for gene by percentage`\n\t\t)\n\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\ttest.end()\n\t}\n})\n\ntape('Display Sample Counts for Gene: None', function (test) {\n\ttest.timeoutAfter(5000)\n\ttest.plan(2)\n\trunpp({\n\t\tstate: {\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\tavailContentWidth: 1200,\n\t\t\t\t\t\t\tsamplecount4gene: ''\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: '',\n\t\t\t\t\t\t\tlst: getGenes()\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tfunction runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\n\t\tconst termLabels = matrix.Inner.dom.termLabelG.selectAll('.sjpp-matrix-term-label-g .sjpp-matrix-label')._groups[0]\n\t\tconst pattern = /\\(\\d+(\\.\\d+)?%\\)|\\(\\d+\\)/g\n\t\ttest.true(!pattern.test(termLabels[0].textContent), `should not display sample counts for gene`)\n\t\ttest.true(!pattern.test(termLabels[termLabels.length - 1].textContent), `should not display sample counts for gene`)\n\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\ttest.end()\n\t}\n})\n\ntape('Sort Genes By Sample Count', function (test) {\n\ttest.timeoutAfter(5000)\n\ttest.plan(2)\n\trunpp({\n\t\tstate: {\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\tavailContentWidth: 1200,\n\t\t\t\t\t\t\tsortTermsBy: 'sampleCount'\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: '',\n\t\t\t\t\t\t\tlst: getGenes()\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tfunction runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\n\t\tconst termLabels = matrix.Inner.dom.termLabelG.selectAll('.sjpp-matrix-term-label-g .sjpp-matrix-label')._groups[0]\n\t\ttest.true(termLabels[0].textContent.startsWith('AKT1'), `should sort genes by sample count`)\n\t\ttest.true(termLabels[2].textContent.startsWith('KRAS'), `should sort genes by sample count`)\n\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\ttest.end()\n\t}\n})\n\ntape('Sort Genes By Input Data Order', function (test) {\n\ttest.timeoutAfter(5000)\n\ttest.plan(2)\n\trunpp({\n\t\tstate: {\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\tavailContentWidth: 1200,\n\t\t\t\t\t\t\tsortTermsBy: 'asListed'\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: '',\n\t\t\t\t\t\t\tlst: getGenes()\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tfunction runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\n\t\tconst termLabels = matrix.Inner.dom.termLabelG.selectAll('.sjpp-matrix-term-label-g .sjpp-matrix-label')._groups[0]\n\t\ttest.true(termLabels[0].textContent.startsWith('TP53'), `should sort genes by input data order`)\n\t\ttest.true(termLabels[2].textContent.startsWith('AKT1'), `should sort genes by input data order`)\n\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\ttest.end()\n\t}\n})\n\ntape('avoid race condition - plot edit', function (test) {\n\ttest.timeoutAfter(1500)\n\ttest.plan(4)\n\trunpp({\n\t\tstate: {\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\tavailContentWidth: 1200,\n\t\t\t\t\t\t\tsortTermsBy: 'asListed'\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: '',\n\t\t\t\t\t\t\tlst: getGenes()\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tasync function runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\t\tmatrix.Inner.app.vocabApi.origGetAnnotatedSampleData = matrix.Inner.app.vocabApi.getAnnotatedSampleData\n\t\tmatrix.Inner.app.vocabApi.getAnnotatedSampleData = async (opts, _refs = {}) => {\n\t\t\tconst j = i\n\t\t\t// immediately set i to zero before sleep(), so that the next dispatch() actually uses the updated i value\n\t\t\ti = 0\n\t\t\tconst data = await matrix.Inner.app.vocabApi.origGetAnnotatedSampleData(opts, _refs)\n\t\t\t// simulate the delay after the network request, so that the component.api.getAbortSignal()\n\t\t\t// is called before network requests and the signal matches the sequenceId for the component api\n\t\t\tawait sleep(j)\n\t\t\treturn data\n\t\t}\n\t\t// set up the postRender callback before triggering rerenders via app.dispatch\n\t\tmatrix.on('postRender.test', async () => {\n\t\t\tmatrix.on('postRender.test', null)\n\t\t\t// run tests after the delayed response, as part of simulating the race condition\n\t\t\tawait sleep(responseDelay + 300)\n\t\t\tconst termLabels = matrix.Inner.dom.termLabelG.selectAll('.sjpp-matrix-term-label-g .sjpp-matrix-label')\n\t\t\ttest.equal(termLabels.size(), 1, `should have 1 gene row`)\n\t\t\ttest.true(termLabels._groups?.[0][0].textContent.startsWith('BCR'), `should sort genes by input data order`)\n\t\t\tconst rects = matrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g rect')\n\t\t\tconst hits = rects.filter(d => d.key === 'BCR' && d.value.class != 'WT' && d.value.class != 'Blank')\n\t\t\ttest.equal(\n\t\t\t\trects.size(),\n\t\t\t\t240,\n\t\t\t\t'should have the expected total number of matrix cell rects, inlcuding WT and not tested'\n\t\t\t)\n\t\t\ttest.equal(hits.size(), 2, 'should have the expected number of matrix cell rects with hits')\n\t\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\t\ttest.end()\n\t\t})\n\n\t\tconst responseDelay = 10\n\t\tlet i = responseDelay\n\t\ttry {\n\t\t\tconst results = await Promise.all([\n\t\t\t\tmatrix.Inner.app.dispatch({\n\t\t\t\t\ttype: 'plot_edit',\n\t\t\t\t\tid: matrix.id,\n\t\t\t\t\tconfig: {\n\t\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\tname: '',\n\t\t\t\t\t\t\t\tlst: [\n\t\t\t\t\t\t\t\t\t// $id is added manually since fillTermWrapper() is not called here and\n\t\t\t\t\t\t\t\t\t// cannot be assumed to be called within store.plot_edit()\n\t\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\t\t$id: 0,\n\t\t\t\t\t\t\t\t\t\tterm: {\n\t\t\t\t\t\t\t\t\t\t\tgene: 'KRAS',\n\t\t\t\t\t\t\t\t\t\t\tname: 'KRAS',\n\t\t\t\t\t\t\t\t\t\t\ttype: 'geneVariant',\n\t\t\t\t\t\t\t\t\t\t\tisleaf: true,\n\t\t\t\t\t\t\t\t\t\t\tgroupsetting: { disabled: false }\n\t\t\t\t\t\t\t\t\t\t},\n\t\t\t\t\t\t\t\t\t\tq: { type: 'values' }\n\t\t\t\t\t\t\t\t\t},\n\t\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\t\t$id: 1,\n\t\t\t\t\t\t\t\t\t\tterm: {\n\t\t\t\t\t\t\t\t\t\t\tgene: 'AKT1',\n\t\t\t\t\t\t\t\t\t\t\tname: 'AKT1',\n\t\t\t\t\t\t\t\t\t\t\ttype: 'geneVariant',\n\t\t\t\t\t\t\t\t\t\t\tisleaf: true,\n\t\t\t\t\t\t\t\t\t\t\tgroupsetting: { disabled: false }\n\t\t\t\t\t\t\t\t\t\t},\n\t\t\t\t\t\t\t\t\t\tq: { type: 'values' }\n\t\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t\t]\n\t\t\t\t\t\t\t}\n\t\t\t\t\t\t]\n\t\t\t\t\t}\n\t\t\t\t}),\n\t\t\t\t(async () => {\n\t\t\t\t\tawait sleep(1)\n\t\t\t\t\tmatrix.Inner.app.dispatch({\n\t\t\t\t\t\ttype: 'plot_edit',\n\t\t\t\t\t\tid: matrix.id,\n\t\t\t\t\t\tconfig: {\n\t\t\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\tname: '',\n\t\t\t\t\t\t\t\t\t// $id is added manually since fillTermWrapper() is not called here and\n\t\t\t\t\t\t\t\t\t// cannot be assumed to be called within store.plot_edit()\n\t\t\t\t\t\t\t\t\tlst: [\n\t\t\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\t\t\t$id: 3,\n\t\t\t\t\t\t\t\t\t\t\tterm: {\n\t\t\t\t\t\t\t\t\t\t\t\tname: 'BCR',\n\t\t\t\t\t\t\t\t\t\t\t\tgenes: [\n\t\t\t\t\t\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\t\t\t\t\t\tkind: 'gene',\n\t\t\t\t\t\t\t\t\t\t\t\t\t\tid: 'BCR',\n\t\t\t\t\t\t\t\t\t\t\t\t\t\tgene: 'BCR',\n\t\t\t\t\t\t\t\t\t\t\t\t\t\tname: 'BCR',\n\t\t\t\t\t\t\t\t\t\t\t\t\t\ttype: 'geneVariant'\n\t\t\t\t\t\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t\t\t\t\t\t],\n\t\t\t\t\t\t\t\t\t\t\t\ttype: 'geneVariant',\n\t\t\t\t\t\t\t\t\t\t\t\tisleaf: true,\n\t\t\t\t\t\t\t\t\t\t\t\tgroupsetting: { disabled: false }\n\t\t\t\t\t\t\t\t\t\t\t},\n\t\t\t\t\t\t\t\t\t\t\tq: { type: 'values' }\n\t\t\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t\t\t]\n\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t]\n\t\t\t\t\t\t}\n\t\t\t\t\t})\n\t\t\t\t})()\n\t\t\t])\n\t\t} catch (e) {\n\t\t\ttest.fail('error: ' + e)\n\t\t\tthrow e\n\t\t}\n\t}\n})\n\ntape('avoid race condition - cohort change', function (test) {\n\ttest.timeoutAfter(3000)\n\ttest.plan(4)\n\trunpp({\n\t\tstate: {\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\tavailContentWidth: 1200,\n\t\t\t\t\t\t\tsortTermsBy: 'asListed'\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: '',\n\t\t\t\t\t\t\tlst: getGenes()\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tasync function runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\t\tmatrix.Inner.app.vocabApi.origGetAnnotatedSampleData = matrix.Inner.app.vocabApi.getAnnotatedSampleData\n\t\tmatrix.Inner.app.vocabApi.getAnnotatedSampleData = async (opts, _refs = {}) => {\n\t\t\tconst vkeys = opts.filter.lst?.[0].tvs.values.map(v => v.key)\n\t\t\tconst j = responseDelays[i]\n\t\t\t// immediately increment i before before sleep(), so that the next dispatch() actually uses the updated i value\n\t\t\ti++\n\t\t\t// Simulate the delay before the network request, so that subsequent component.api.update()\n\t\t\t// will abort the opts.signal that is supplied to the fetch request that will be cancelled.\n\t\t\t// Ideally, an aborted request will show up as red text in the Network tab to verify the\n\t\t\t// simulated request cancellations, but in this test, the abort signal will be aborted before\n\t\t\t// fetch and Chrome doesn't display non-initiated requests at all in the Netrok tab. Also,\n\t\t\t// memoized responses in namedFetch() will not trigger fetch if an already aborted signal is detected.\n\t\t\tawait sleep(j)\n\t\t\tconst data = await matrix.Inner.app.vocabApi.origGetAnnotatedSampleData(opts, _refs)\n\t\t\treturn data\n\t\t}\n\t\t// set up the postRender callback before triggering rerenders via app.dispatch\n\t\tmatrix.on('postRender.test', async () => {\n\t\t\tmatrix.on('postRender.test', null)\n\t\t\t// run tests after all the delayed responses as part of simulating the race condition\n\t\t\tawait sleep(responseDelays.reduce((sum, v) => sum + v, 0) + 300)\n\t\t\tconst termLabels = matrix.Inner.dom.termLabelG.selectAll('.sjpp-matrix-term-label-g .sjpp-matrix-label')\n\t\t\ttest.equal(termLabels.size(), 3, `should have 3 gene rows`)\n\t\t\tconst rects = matrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g rect')\n\t\t\ttest.equal(\n\t\t\t\trects.size(),\n\t\t\t\t1202,\n\t\t\t\t'should have the expected total number of matrix cell rects, inlcuding WT and not tested'\n\t\t\t)\n\t\t\tconst hits = rects.filter(d => d.key === 'BCR' && d.value.class != 'WT' && d.value.class != 'Blank')\n\t\t\ttest.equal(hits.size(), 0, 'should have the expected number of matrix cell rects with hits')\n\t\t\ttest.deepEqual(\n\t\t\t\tmatrix.Inner.app.getState().termfilter.filter.lst?.[0].tvs,\n\t\t\t\tmatrix.Inner.state.filter.lst?.[0].tvs,\n\t\t\t\t`app.state and matrix.state should have the same cohort filter value`\n\t\t\t)\n\t\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\t\ttest.end()\n\t\t})\n\n\t\tconst responseDelays = [800, 500, 10]\n\t\tlet i = 0\n\t\ttry {\n\t\t\tconst results = await Promise.all([\n\t\t\t\t(async () => {\n\t\t\t\t\tawait sleep(100)\n\t\t\t\t\tmatrix.Inner.app.dispatch({\n\t\t\t\t\t\ttype: 'cohort_set',\n\t\t\t\t\t\tactiveCohort: 1\n\t\t\t\t\t})\n\t\t\t\t})(),\n\t\t\t\t(async () => {\n\t\t\t\t\tawait sleep(200)\n\t\t\t\t\tmatrix.Inner.app.dispatch({\n\t\t\t\t\t\ttype: 'cohort_set',\n\t\t\t\t\t\tactiveCohort: 0\n\t\t\t\t\t})\n\t\t\t\t})(),\n\t\t\t\t(async () => {\n\t\t\t\t\tawait sleep(300)\n\t\t\t\t\tmatrix.Inner.app.dispatch({\n\t\t\t\t\t\ttype: 'cohort_set',\n\t\t\t\t\t\tactiveCohort: 2\n\t\t\t\t\t})\n\t\t\t\t})()\n\t\t\t])\n\t\t} catch (e) {\n\t\t\ttest.fail('error: ' + e)\n\t\t\tthrow e\n\t\t}\n\t}\n})\n\n// legend filter tests\ntape('apply \"hide\" legend filters to a dictionary term', function (test) {\n\ttest.timeoutAfter(5000)\n\ttest.plan(10)\n\trunpp({\n\t\tstate: {\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\t\tavailContentWidth: 1200\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: 'Demographics',\n\t\t\t\t\t\t\tlst: [\n\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\tid: 'aaclassic_5',\n\t\t\t\t\t\t\t\t\tq: {\n\t\t\t\t\t\t\t\t\t\tmode: 'continuous'\n\t\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t\t},\n\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\tid: 'genetic_race'\n\t\t\t\t\t\t\t\t\t//q: { mode: 'values' } // or 'groupsetting'\n\t\t\t\t\t\t\t\t},\n\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\tid: 'agedx',\n\t\t\t\t\t\t\t\t\tq: {\n\t\t\t\t\t\t\t\t\t\tmode: 'discrete',\n\t\t\t\t\t\t\t\t\t\ttype: 'regular-bin',\n\t\t\t\t\t\t\t\t\t\tbin_size: 5,\n\t\t\t\t\t\t\t\t\t\tfirst_bin: {\n\t\t\t\t\t\t\t\t\t\t\tstartunbounded: true,\n\t\t\t\t\t\t\t\t\t\t\tstop: 5,\n\t\t\t\t\t\t\t\t\t\t\tstopinclusive: true\n\t\t\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t\t\t} // or 'continuous'\n\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t]\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tasync function runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\n\t\t// 1. Hide\n\t\tconst legendTexts = [...matrix.Inner.dom.legendG.node().querySelectorAll('g g text')].find(d =>\n\t\t\td?.__data__?.text?.startsWith('Asian')\n\t\t)\n\t\tlegendTexts.dispatchEvent(\n\t\t\tnew MouseEvent('mouseup', {\n\t\t\t\tbubbles: true,\n\t\t\t\tcancelable: true\n\t\t\t})\n\t\t)\n\n\t\tconst options = matrix.Inner.dom.legendMenu.d.node().querySelectorAll('div.sja_menuoption.sja_sharp_border')\n\n\t\ttest.equal(options[0].innerText, 'Hide', `First option should be Hide`)\n\t\ttest.equal(options[1].innerText, 'Show only', `second option should be Show only`)\n\t\ttest.equal(options[2].innerText, 'Show all', `third option should be Show all`)\n\n\t\tconst rects = await detectLst({\n\t\t\telem: matrix.Inner.dom.seriesesG.node(),\n\t\t\tselector: '.sjpp-mass-series-g rect',\n\t\t\tcount: 177,\n\t\t\ttrigger: () => {\n\t\t\t\toptions[0].dispatchEvent(\n\t\t\t\t\tnew MouseEvent('click', {\n\t\t\t\t\t\tbubbles: true,\n\t\t\t\t\t\tcancelable: true\n\t\t\t\t\t})\n\t\t\t\t)\n\t\t\t}\n\t\t})\n\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g').size(),\n\t\t\t3,\n\t\t\t`should render the expected number of serieses`\n\t\t)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.cluster.selectAll('.sjpp-matrix-clusteroutlines rect').size(),\n\t\t\t1,\n\t\t\t`should render the expected number of cluster rects`\n\t\t)\n\n\t\t// 2. Show\n\t\tconst legendTexts2 = [...matrix.Inner.dom.legendG.node().querySelectorAll('g g text')].find(d =>\n\t\t\td?.__data__?.text?.startsWith('Asian')\n\t\t)\n\t\tlegendTexts2.dispatchEvent(\n\t\t\tnew MouseEvent('mouseup', {\n\t\t\t\tbubbles: true,\n\t\t\t\tcancelable: true\n\t\t\t})\n\t\t)\n\n\t\tconst options2 = matrix.Inner.dom.legendMenu.d.node().querySelectorAll('div.sja_menuoption.sja_sharp_border')\n\n\t\ttest.equal(options2[0].innerText, 'Show', `First option should be Show`)\n\t\ttest.equal(options2[1].innerText, 'Show only', `second option should be Show only`)\n\t\ttest.equal(options2[2].innerText, 'Show all', `third option should be Show all`)\n\n\t\tconst rects2 = await detectLst({\n\t\t\telem: matrix.Inner.dom.seriesesG.node(),\n\t\t\tselector: '.sjpp-mass-series-g rect',\n\t\t\tcount: 180,\n\t\t\ttrigger: () => {\n\t\t\t\toptions2[0].dispatchEvent(\n\t\t\t\t\tnew MouseEvent('click', {\n\t\t\t\t\t\tbubbles: true,\n\t\t\t\t\t\tcancelable: true\n\t\t\t\t\t})\n\t\t\t\t)\n\t\t\t}\n\t\t})\n\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g').size(),\n\t\t\t3,\n\t\t\t`should render the expected number of serieses`\n\t\t)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.cluster.selectAll('.sjpp-matrix-clusteroutlines rect').size(),\n\t\t\t1,\n\t\t\t`should render the expected number of cluster rects`\n\t\t)\n\n\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\ttest.end()\n\t}\n})\n\ntape('apply \"show only\" and \"show all\" legend filters to dictionary terms', function (test) {\n\ttest.timeoutAfter(5000)\n\ttest.plan(14)\n\trunpp({\n\t\tstate: {\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\t\tavailContentWidth: 1200\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: 'Demographics',\n\t\t\t\t\t\t\tlst: [\n\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\tid: 'aaclassic_5',\n\t\t\t\t\t\t\t\t\tq: {\n\t\t\t\t\t\t\t\t\t\tmode: 'continuous'\n\t\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t\t},\n\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\tid: 'sex'\n\t\t\t\t\t\t\t\t\t//q: { mode: 'values' } // or 'groupsetting'\n\t\t\t\t\t\t\t\t},\n\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\tid: 'agedx',\n\t\t\t\t\t\t\t\t\tq: {\n\t\t\t\t\t\t\t\t\t\tmode: 'discrete',\n\t\t\t\t\t\t\t\t\t\ttype: 'regular-bin',\n\t\t\t\t\t\t\t\t\t\tbin_size: 5,\n\t\t\t\t\t\t\t\t\t\tfirst_bin: {\n\t\t\t\t\t\t\t\t\t\t\tstartunbounded: true,\n\t\t\t\t\t\t\t\t\t\t\tstop: 5,\n\t\t\t\t\t\t\t\t\t\t\tstopinclusive: true\n\t\t\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t\t\t} // or 'continuous'\n\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t]\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tasync function runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\n\t\t// 1. Show only\n\t\tconst legendTexts = [...matrix.Inner.dom.legendG.node().querySelectorAll('g g text')].find(d =>\n\t\t\td?.__data__?.text?.startsWith('Male')\n\t\t)\n\t\tlegendTexts.dispatchEvent(\n\t\t\tnew MouseEvent('mouseup', {\n\t\t\t\tbubbles: true,\n\t\t\t\tcancelable: true\n\t\t\t})\n\t\t)\n\n\t\tconst options = matrix.Inner.dom.legendMenu.d.node().querySelectorAll('div.sja_menuoption.sja_sharp_border')\n\n\t\tconst rects = await detectLst({\n\t\t\telem: matrix.Inner.dom.seriesesG.node(),\n\t\t\tselector: '.sjpp-mass-series-g rect',\n\t\t\tcount: 75,\n\t\t\ttrigger: () => {\n\t\t\t\toptions[1].dispatchEvent(\n\t\t\t\t\tnew MouseEvent('click', {\n\t\t\t\t\t\tbubbles: true,\n\t\t\t\t\t\tcancelable: true\n\t\t\t\t\t})\n\t\t\t\t)\n\t\t\t}\n\t\t})\n\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g').size(),\n\t\t\t3,\n\t\t\t`should render the expected number of serieses`\n\t\t)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.cluster.selectAll('.sjpp-matrix-clusteroutlines rect').size(),\n\t\t\t1,\n\t\t\t`should render the expected number of cluster rects`\n\t\t)\n\n\t\t// 2. second Show only\n\t\tconst secondLegendTexts = [...matrix.Inner.dom.legendG.node().querySelectorAll('g g text')].find(d =>\n\t\t\td?.__data__?.text?.startsWith('<5')\n\t\t)\n\t\tsecondLegendTexts.dispatchEvent(\n\t\t\tnew MouseEvent('mouseup', {\n\t\t\t\tbubbles: true,\n\t\t\t\tcancelable: true\n\t\t\t})\n\t\t)\n\n\t\tconst secondOptions = matrix.Inner.dom.legendMenu.d.node().querySelectorAll('div.sja_menuoption.sja_sharp_border')\n\n\t\ttest.equal(secondOptions[0].innerText, 'Hide', `First option should be Hide`)\n\t\ttest.equal(secondOptions[1].innerText, 'Show only', `second option should be Show only`)\n\t\ttest.equal(secondOptions[2].innerText, 'Show all', `third option should be Show all`)\n\n\t\tconst secondRects = await detectLst({\n\t\t\telem: matrix.Inner.dom.seriesesG.node(),\n\t\t\tselector: '.sjpp-mass-series-g rect',\n\t\t\tcount: 30,\n\t\t\ttrigger: () => {\n\t\t\t\tsecondOptions[1].dispatchEvent(\n\t\t\t\t\tnew MouseEvent('click', {\n\t\t\t\t\t\tbubbles: true,\n\t\t\t\t\t\tcancelable: true\n\t\t\t\t\t})\n\t\t\t\t)\n\t\t\t}\n\t\t})\n\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g').size(),\n\t\t\t3,\n\t\t\t`should render the expected number of serieses`\n\t\t)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.cluster.selectAll('.sjpp-matrix-clusteroutlines rect').size(),\n\t\t\t1,\n\t\t\t`should render the expected number of cluster rects`\n\t\t)\n\n\t\t// 3. hide\n\t\tconst thirdLegendTexts = [...matrix.Inner.dom.legendG.node().querySelectorAll('g g text')].find(d =>\n\t\t\td?.__data__?.text?.startsWith('<5')\n\t\t)\n\t\tthirdLegendTexts.dispatchEvent(\n\t\t\tnew MouseEvent('mouseup', {\n\t\t\t\tbubbles: true,\n\t\t\t\tcancelable: true\n\t\t\t})\n\t\t)\n\t\tconst thirdOptions = matrix.Inner.dom.legendMenu.d.node().querySelectorAll('div.sja_menuoption.sja_sharp_border')\n\n\t\ttest.equal(thirdOptions[0].innerText, 'Hide', `First option should be Hide`)\n\t\ttest.equal(thirdOptions[2].innerText, 'Show all', `third option should be Show all`)\n\n\t\tconst thirdRects = await detectLst({\n\t\t\telem: matrix.Inner.dom.seriesesG.node(),\n\t\t\tselector: '.sjpp-mass-series-g rect',\n\t\t\tcount: 0,\n\t\t\ttrigger: () => {\n\t\t\t\tthirdOptions[0].dispatchEvent(\n\t\t\t\t\tnew MouseEvent('click', {\n\t\t\t\t\t\tbubbles: true,\n\t\t\t\t\t\tcancelable: true\n\t\t\t\t\t})\n\t\t\t\t)\n\t\t\t}\n\t\t})\n\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g').size(),\n\t\t\t0,\n\t\t\t`should render the expected number of serieses`\n\t\t)\n\n\t\t// 4. Show all\n\t\tconst fourthLegendTexts = [...matrix.Inner.dom.legendG.node().querySelectorAll('g g text')].find(d =>\n\t\t\td?.__data__?.text?.startsWith('<5')\n\t\t)\n\t\tfourthLegendTexts.dispatchEvent(\n\t\t\tnew MouseEvent('mouseup', {\n\t\t\t\tbubbles: true,\n\t\t\t\tcancelable: true\n\t\t\t})\n\t\t)\n\t\tconst fourthOptions = matrix.Inner.dom.legendMenu.d.node().querySelectorAll('div.sja_menuoption.sja_sharp_border')\n\n\t\ttest.equal(fourthOptions[0].innerText, 'Show', `first option should be Show`)\n\t\ttest.equal(fourthOptions[2].innerText, 'Show all', `third option should be Show all`)\n\n\t\tconst fourthRects = await detectLst({\n\t\t\telem: matrix.Inner.dom.seriesesG.node(),\n\t\t\tselector: '.sjpp-mass-series-g rect',\n\t\t\tcount: 75,\n\t\t\ttrigger: () => {\n\t\t\t\tfourthOptions[2].dispatchEvent(\n\t\t\t\t\tnew MouseEvent('click', {\n\t\t\t\t\t\tbubbles: true,\n\t\t\t\t\t\tcancelable: true\n\t\t\t\t\t})\n\t\t\t\t)\n\t\t\t}\n\t\t})\n\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g').size(),\n\t\t\t3,\n\t\t\t`should render the expected number of serieses`\n\t\t)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.cluster.selectAll('.sjpp-matrix-clusteroutlines rect').size(),\n\t\t\t1,\n\t\t\t`should render the expected number of cluster rects`\n\t\t)\n\n\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\ttest.end()\n\t}\n})\n\ntape(\n\t'apply \"Hide samples with\" and \"Do not show\" legend filters to a geneVariant term in geneVariant term only matrix',\n\tfunction (test) {\n\t\ttest.timeoutAfter(5000)\n\t\ttest.plan(12)\n\n\t\trunpp({\n\t\t\tstate: {\n\t\t\t\tplots: [\n\t\t\t\t\t{\n\t\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\t\tsettings: {\n\t\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\t\tavailContentWidth: 1200\n\t\t\t\t\t\t\t}\n\t\t\t\t\t\t},\n\t\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\tname: '',\n\t\t\t\t\t\t\t\tlst: [getGenes()[0]]\n\t\t\t\t\t\t\t}\n\t\t\t\t\t\t]\n\t\t\t\t\t}\n\t\t\t\t]\n\t\t\t},\n\t\t\tmatrix: {\n\t\t\t\tcallbacks: {\n\t\t\t\t\t'postRender.test': runTests\n\t\t\t\t}\n\t\t\t}\n\t\t})\n\n\t\tasync function runTests(matrix) {\n\t\t\tmatrix.on('postRender.test', null)\n\n\t\t\t// 1. Hide\n\t\t\tconst legendTexts = [...matrix.Inner.dom.legendG.node().querySelectorAll('g g text')].find(\n\t\t\t\td => d?.__data__?.$id?.startsWith('Germline Mutations') && d.__data__.text?.startsWith('FRAMESHIFT')\n\t\t\t)\n\n\t\t\tlegendTexts.dispatchEvent(\n\t\t\t\tnew MouseEvent('mouseup', {\n\t\t\t\t\tbubbles: true,\n\t\t\t\t\tcancelable: true\n\t\t\t\t})\n\t\t\t)\n\n\t\t\tconst options = matrix.Inner.dom.legendMenu.d.node().querySelectorAll('div.sja_menuoption.sja_sharp_border')\n\n\t\t\ttest.equal(\n\t\t\t\toptions[0].innerText,\n\t\t\t\t'Hide samples with FRAMESHIFT',\n\t\t\t\t`First option should be \"Hide samples with FRAMESHIFT\"`\n\t\t\t)\n\t\t\ttest.equal(options[1].innerText, 'Do not show FRAMESHIFT', `second option should be \"Do not show FRAMESHIFT\"`)\n\n\t\t\ttest.equal(options.length, 2, `Should only show two options`)\n\n\t\t\tconst rects = await detectLst({\n\t\t\t\telem: matrix.Inner.dom.seriesesG.node(),\n\t\t\t\tselector: '.sjpp-mass-series-g rect',\n\t\t\t\tcount: 237,\n\t\t\t\ttrigger: () => {\n\t\t\t\t\toptions[0].dispatchEvent(\n\t\t\t\t\t\tnew MouseEvent('click', {\n\t\t\t\t\t\t\tbubbles: true,\n\t\t\t\t\t\t\tcancelable: true\n\t\t\t\t\t\t})\n\t\t\t\t\t)\n\t\t\t\t}\n\t\t\t})\n\n\t\t\ttest.equal(\n\t\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g').size(),\n\t\t\t\t1,\n\t\t\t\t`should render the expected number of serieses`\n\t\t\t)\n\t\t\ttest.equal(\n\t\t\t\tmatrix.Inner.dom.cluster.selectAll('.sjpp-matrix-clusteroutlines rect').size(),\n\t\t\t\t1,\n\t\t\t\t`should render the expected number of cluster rects`\n\t\t\t)\n\n\t\t\t// 2. Show\n\t\t\tconst legendTexts2 = [...matrix.Inner.dom.legendG.node().querySelectorAll('g g text')].find(\n\t\t\t\td => d?.__data__?.$id?.startsWith('Germline Mutations') && d.__data__.text?.startsWith('FRAMESHIFT')\n\t\t\t)\n\n\t\t\tlegendTexts2.dispatchEvent(\n\t\t\t\tnew MouseEvent('mouseup', {\n\t\t\t\t\tbubbles: true,\n\t\t\t\t\tcancelable: true\n\t\t\t\t})\n\t\t\t)\n\n\t\t\tconst options2 = matrix.Inner.dom.legendMenu.d.node().querySelectorAll('div.sja_menuoption.sja_sharp_border')\n\n\t\t\ttest.equal(\n\t\t\t\toptions2[0].innerText,\n\t\t\t\t'Show samples with FRAMESHIFT',\n\t\t\t\t`First option should be \"Show samples with FRAMESHIFT\"`\n\t\t\t)\n\t\t\ttest.equal(options2.length, 1, `Should only show one option`)\n\n\t\t\tconst rects2 = await detectLst({\n\t\t\t\telem: matrix.Inner.dom.seriesesG.node(),\n\t\t\t\tselector: '.sjpp-mass-series-g rect',\n\t\t\t\tcount: 242,\n\t\t\t\ttrigger: () => {\n\t\t\t\t\toptions2[0].dispatchEvent(\n\t\t\t\t\t\tnew MouseEvent('click', {\n\t\t\t\t\t\t\tbubbles: true,\n\t\t\t\t\t\t\tcancelable: true\n\t\t\t\t\t\t})\n\t\t\t\t\t)\n\t\t\t\t}\n\t\t\t})\n\n\t\t\ttest.equal(\n\t\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g').size(),\n\t\t\t\t1,\n\t\t\t\t`should render the expected number of serieses`\n\t\t\t)\n\t\t\ttest.equal(\n\t\t\t\tmatrix.Inner.dom.cluster.selectAll('.sjpp-matrix-clusteroutlines rect').size(),\n\t\t\t\t1,\n\t\t\t\t`should render the expected number of cluster rects`\n\t\t\t)\n\n\t\t\t// 3. Do not show\n\n\t\t\tconst legendTexts3 = [...matrix.Inner.dom.legendG.node().querySelectorAll('g g text')].find(\n\t\t\t\td => d?.__data__?.$id?.startsWith('Germline Mutations') && d.__data__.text?.startsWith('FRAMESHIFT')\n\t\t\t)\n\n\t\t\tlegendTexts3.dispatchEvent(\n\t\t\t\tnew MouseEvent('mouseup', {\n\t\t\t\t\tbubbles: true,\n\t\t\t\t\tcancelable: true\n\t\t\t\t})\n\t\t\t)\n\n\t\t\tconst options3 = matrix.Inner.dom.legendMenu.d.node().querySelectorAll('div.sja_menuoption.sja_sharp_border')\n\n\t\t\ttest.equal(options3.length, 2, `Should only show two options`)\n\n\t\t\tconst rects3 = await detectLst({\n\t\t\t\telem: matrix.Inner.dom.seriesesG.node(),\n\t\t\t\tselector: '.sjpp-mass-series-g rect',\n\t\t\t\tcount: 241,\n\t\t\t\ttrigger: () => {\n\t\t\t\t\toptions3[1].dispatchEvent(\n\t\t\t\t\t\tnew MouseEvent('click', {\n\t\t\t\t\t\t\tbubbles: true,\n\t\t\t\t\t\t\tcancelable: true\n\t\t\t\t\t\t})\n\t\t\t\t\t)\n\t\t\t\t}\n\t\t\t})\n\n\t\t\t// 4. Show\n\t\t\tconst legendTexts4 = [...matrix.Inner.dom.legendG.node().querySelectorAll('g g text')].find(\n\t\t\t\td => d?.__data__?.$id?.startsWith('Germline Mutations') && d.__data__.text?.startsWith('FRAMESHIFT')\n\t\t\t)\n\n\t\t\tlegendTexts4.dispatchEvent(\n\t\t\t\tnew MouseEvent('mouseup', {\n\t\t\t\t\tbubbles: true,\n\t\t\t\t\tcancelable: true\n\t\t\t\t})\n\t\t\t)\n\n\t\t\tconst options4 = matrix.Inner.dom.legendMenu.d.node().querySelectorAll('div.sja_menuoption.sja_sharp_border')\n\n\t\t\ttest.equal(\n\t\t\t\toptions4[0].innerText,\n\t\t\t\t'Show samples with FRAMESHIFT',\n\t\t\t\t`First option should be \"Show samples with FRAMESHIFT\"`\n\t\t\t)\n\t\t\ttest.equal(options4.length, 1, `Should only show one option`)\n\n\t\t\tconst rects4 = await detectLst({\n\t\t\t\telem: matrix.Inner.dom.seriesesG.node(),\n\t\t\t\tselector: '.sjpp-mass-series-g rect',\n\t\t\t\tcount: 242,\n\t\t\t\ttrigger: () => {\n\t\t\t\t\toptions4[0].dispatchEvent(\n\t\t\t\t\t\tnew MouseEvent('click', {\n\t\t\t\t\t\t\tbubbles: true,\n\t\t\t\t\t\t\tcancelable: true\n\t\t\t\t\t\t})\n\t\t\t\t\t)\n\t\t\t\t}\n\t\t\t})\n\n\t\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\t\ttest.end()\n\t\t}\n\t}\n)\n\ntape('apply legend group filters to a geneVariant term in geneVariant term only matrix', function (test) {\n\ttest.timeoutAfter(5000)\n\ttest.plan(15)\n\n\trunpp({\n\t\tstate: {\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\tavailContentWidth: 1200\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: '',\n\t\t\t\t\t\t\tlst: [{ term: { gene: 'TP53', name: 'TP53', type: 'geneVariant', isleaf: true } }]\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tasync function runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\n\t\t// 1. Show only truncating mutations\n\t\tconst legendTexts = [...matrix.Inner.dom.legendG.node().querySelectorAll('g g text')].find(\n\t\t\td => d?.__data__?.name == 'Somatic Mutations' && !d.__data__.isLegendItem\n\t\t)\n\n\t\tlegendTexts.dispatchEvent(\n\t\t\tnew MouseEvent('mouseup', {\n\t\t\t\tbubbles: true,\n\t\t\t\tcancelable: true\n\t\t\t})\n\t\t)\n\n\t\tconst options = matrix.Inner.dom.legendMenu.d.node().querySelectorAll('div.sja_menuoption.sja_sharp_border')\n\n\t\ttest.equal(\n\t\t\toptions[0].innerText,\n\t\t\t'Show only truncating mutations',\n\t\t\t`First option should be \"Show only truncating mutations\"`\n\t\t)\n\t\ttest.equal(\n\t\t\toptions[1].innerText,\n\t\t\t'Show only protein-changing mutations',\n\t\t\t`second option should be \"Show only protein-changing mutations\"`\n\t\t)\n\t\ttest.equal(\n\t\t\toptions[2].innerText,\n\t\t\t'Do not show Somatic Mutations',\n\t\t\t`third option should be \"Do not show Somatic Mutations\"`\n\t\t)\n\t\ttest.equal(options.length, 3, `Should show three options`)\n\t\tconst rects = await detectLst({\n\t\t\telem: matrix.Inner.dom.seriesesG.node(),\n\t\t\tselector: '.sjpp-mass-series-g rect',\n\t\t\tcount: 183,\n\t\t\ttrigger: () => {\n\t\t\t\toptions[0].dispatchEvent(\n\t\t\t\t\tnew MouseEvent('click', {\n\t\t\t\t\t\tbubbles: true,\n\t\t\t\t\t\tcancelable: true\n\t\t\t\t\t})\n\t\t\t\t)\n\t\t\t}\n\t\t})\n\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g').size(),\n\t\t\t1,\n\t\t\t`should render the expected number of serieses`\n\t\t)\n\n\t\t// 2. Show only protein-changing mutations\n\t\tconst legendTexts2 = [...matrix.Inner.dom.legendG.node().querySelectorAll('g g text')].find(\n\t\t\td => d?.__data__?.name == 'Somatic Mutations' && !d.__data__.isLegendItem\n\t\t)\n\n\t\tlegendTexts2.dispatchEvent(\n\t\t\tnew MouseEvent('mouseup', {\n\t\t\t\tbubbles: true,\n\t\t\t\tcancelable: true\n\t\t\t})\n\t\t)\n\n\t\tconst options2 = matrix.Inner.dom.legendMenu.d.node().querySelectorAll('div.sja_menuoption.sja_sharp_border')\n\n\t\ttest.equal(\n\t\t\toptions2[2].innerText,\n\t\t\t'Do not show Somatic Mutations',\n\t\t\t`third option should be \"Do not show Somatic Mutations\"`\n\t\t)\n\t\ttest.equal(\n\t\t\toptions2[3].innerText,\n\t\t\t'Show all Somatic Mutations',\n\t\t\t`fourth option should be \"Show all Somatic Mutations\"`\n\t\t)\n\t\ttest.equal(options2.length, 4, `Should show four options`)\n\t\tconst rects2 = await detectLst({\n\t\t\telem: matrix.Inner.dom.seriesesG.node(),\n\t\t\tselector: '.sjpp-mass-series-g rect',\n\t\t\tcount: 185,\n\t\t\ttrigger: () => {\n\t\t\t\toptions2[1].dispatchEvent(\n\t\t\t\t\tnew MouseEvent('click', {\n\t\t\t\t\t\tbubbles: true,\n\t\t\t\t\t\tcancelable: true\n\t\t\t\t\t})\n\t\t\t\t)\n\t\t\t}\n\t\t})\n\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g').size(),\n\t\t\t1,\n\t\t\t`should render the expected number of serieses`\n\t\t)\n\n\t\t// 3. Do not show somatic mutations\n\t\tconst legendTexts3 = [...matrix.Inner.dom.legendG.node().querySelectorAll('g g text')].find(\n\t\t\td => d?.__data__?.name == 'Somatic Mutations' && !d.__data__.isLegendItem\n\t\t)\n\n\t\tlegendTexts3.dispatchEvent(\n\t\t\tnew MouseEvent('mouseup', {\n\t\t\t\tbubbles: true,\n\t\t\t\tcancelable: true\n\t\t\t})\n\t\t)\n\n\t\tconst options3 = matrix.Inner.dom.legendMenu.d.node().querySelectorAll('div.sja_menuoption.sja_sharp_border')\n\n\t\ttest.equal(\n\t\t\toptions3[2].innerText,\n\t\t\t'Do not show Somatic Mutations',\n\t\t\t`third option should be \"Do not show Somatic Mutations\"`\n\t\t)\n\n\t\ttest.equal(options3.length, 4, `Should show four options`)\n\t\tconst rects3 = await detectLst({\n\t\t\telem: matrix.Inner.dom.seriesesG.node(),\n\t\t\tselector: '.sjpp-mass-series-g rect',\n\t\t\tcount: 182,\n\t\t\ttrigger: () => {\n\t\t\t\toptions3[2].dispatchEvent(\n\t\t\t\t\tnew MouseEvent('click', {\n\t\t\t\t\t\tbubbles: true,\n\t\t\t\t\t\tcancelable: true\n\t\t\t\t\t})\n\t\t\t\t)\n\t\t\t}\n\t\t})\n\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g').size(),\n\t\t\t1,\n\t\t\t`should render the expected number of serieses`\n\t\t)\n\n\t\t// 4. Show all somatic mutations\n\t\tconst legendTexts4 = [...matrix.Inner.dom.legendG.node().querySelectorAll('g g text')].find(\n\t\t\td => d?.__data__?.name == 'Somatic Mutations' && !d.__data__.isLegendItem\n\t\t)\n\n\t\tlegendTexts4.dispatchEvent(\n\t\t\tnew MouseEvent('mouseup', {\n\t\t\t\tbubbles: true,\n\t\t\t\tcancelable: true\n\t\t\t})\n\t\t)\n\n\t\tconst options4 = matrix.Inner.dom.legendMenu.d.node().querySelectorAll('div.sja_menuoption.sja_sharp_border')\n\n\t\ttest.equal(\n\t\t\toptions4[0].innerText,\n\t\t\t'Show all Somatic Mutations',\n\t\t\t`first option should be \"Show all Somatic Mutations\"`\n\t\t)\n\n\t\ttest.equal(options4.length, 1, `Should show one option`)\n\t\tconst rects4 = await detectLst({\n\t\t\telem: matrix.Inner.dom.seriesesG.node(),\n\t\t\tselector: '.sjpp-mass-series-g rect',\n\t\t\tcount: 242,\n\t\t\ttrigger: () => {\n\t\t\t\toptions4[0].dispatchEvent(\n\t\t\t\t\tnew MouseEvent('click', {\n\t\t\t\t\t\tbubbles: true,\n\t\t\t\t\t\tcancelable: true\n\t\t\t\t\t})\n\t\t\t\t)\n\t\t\t}\n\t\t})\n\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g').size(),\n\t\t\t1,\n\t\t\t`should render the expected number of serieses`\n\t\t)\n\n\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\ttest.end()\n\t}\n})\n\ntape(\n\t'apply legend group filters and legend filters to a matrix with both geneVariant and dictionary terms',\n\tfunction (test) {\n\t\ttest.timeoutAfter(5000)\n\t\ttest.plan(13)\n\n\t\trunpp({\n\t\t\tstate: {\n\t\t\t\tplots: [\n\t\t\t\t\t{\n\t\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\t\tsettings: {\n\t\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\t\tavailContentWidth: 1200\n\t\t\t\t\t\t\t}\n\t\t\t\t\t\t},\n\t\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\tname: '',\n\t\t\t\t\t\t\t\tlst: [\n\t\t\t\t\t\t\t\t\t...getGenes(),\n\t\t\t\t\t\t\t\t\t{ id: 'agedx', term: termjson['agedx'] },\n\t\t\t\t\t\t\t\t\t{ id: 'diaggrp', term: termjson['diaggrp'] },\n\t\t\t\t\t\t\t\t\t{ id: 'aaclassic_5', term: termjson['aaclassic_5'] }\n\t\t\t\t\t\t\t\t]\n\t\t\t\t\t\t\t}\n\t\t\t\t\t\t]\n\t\t\t\t\t}\n\t\t\t\t]\n\t\t\t},\n\t\t\tmatrix: {\n\t\t\t\tcallbacks: {\n\t\t\t\t\t'postRender.test': runTests\n\t\t\t\t}\n\t\t\t}\n\t\t})\n\n\t\tasync function runTests(matrix) {\n\t\t\tmatrix.on('postRender.test', null)\n\n\t\t\t// 1. Show only truncating mutations\n\t\t\tconst legendTexts = [...matrix.Inner.dom.legendG.node().querySelectorAll('g g text')].find(\n\t\t\t\td => d?.__data__?.name == 'Somatic Mutations' && !d.__data__.isLegendItem\n\t\t\t)\n\n\t\t\tlegendTexts.dispatchEvent(\n\t\t\t\tnew MouseEvent('mouseup', {\n\t\t\t\t\tbubbles: true,\n\t\t\t\t\tcancelable: true\n\t\t\t\t})\n\t\t\t)\n\n\t\t\tconst options = matrix.Inner.dom.legendMenu.d.node().querySelectorAll('div.sja_menuoption.sja_sharp_border')\n\n\t\t\ttest.equal(\n\t\t\t\toptions[0].innerText,\n\t\t\t\t'Show only truncating mutations',\n\t\t\t\t`First option should be \"Show only truncating mutations\"`\n\t\t\t)\n\t\t\ttest.equal(options.length, 3, `Should show three options`)\n\t\t\tconst rects = await detectLst({\n\t\t\t\telem: matrix.Inner.dom.seriesesG.node(),\n\t\t\t\tselector: '.sjpp-mass-series-g rect',\n\t\t\t\tcount: 723,\n\t\t\t\ttrigger: () => {\n\t\t\t\t\toptions[0].dispatchEvent(\n\t\t\t\t\t\tnew MouseEvent('click', {\n\t\t\t\t\t\t\tbubbles: true,\n\t\t\t\t\t\t\tcancelable: true\n\t\t\t\t\t\t})\n\t\t\t\t\t)\n\t\t\t\t}\n\t\t\t})\n\n\t\t\ttest.equal(\n\t\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g').size(),\n\t\t\t\t6,\n\t\t\t\t`should render the expected number of serieses`\n\t\t\t)\n\n\t\t\t// 2. Show only protein-changing mutations\n\t\t\tconst legendTexts2 = [...matrix.Inner.dom.legendG.node().querySelectorAll('g g text')].find(\n\t\t\t\td => d?.__data__?.name == 'Somatic Mutations' && !d.__data__.isLegendItem\n\t\t\t)\n\n\t\t\tlegendTexts2.dispatchEvent(\n\t\t\t\tnew MouseEvent('mouseup', {\n\t\t\t\t\tbubbles: true,\n\t\t\t\t\tcancelable: true\n\t\t\t\t})\n\t\t\t)\n\n\t\t\tconst options2 = matrix.Inner.dom.legendMenu.d.node().querySelectorAll('div.sja_menuoption.sja_sharp_border')\n\n\t\t\ttest.equal(\n\t\t\t\toptions2[1].innerText,\n\t\t\t\t'Show only protein-changing mutations',\n\t\t\t\t`second option should be \"Show only protein-changing mutations\"`\n\t\t\t)\n\t\t\ttest.equal(\n\t\t\t\toptions2[3].innerText,\n\t\t\t\t'Show all Somatic Mutations',\n\t\t\t\t`fourth option should be \"Show all Somatic Mutations\"`\n\t\t\t)\n\t\t\ttest.equal(options2.length, 4, `Should show four options`)\n\t\t\tconst rects2 = await detectLst({\n\t\t\t\telem: matrix.Inner.dom.seriesesG.node(),\n\t\t\t\tselector: '.sjpp-mass-series-g rect',\n\t\t\t\tcount: 726,\n\t\t\t\ttrigger: () => {\n\t\t\t\t\toptions2[1].dispatchEvent(\n\t\t\t\t\t\tnew MouseEvent('click', {\n\t\t\t\t\t\t\tbubbles: true,\n\t\t\t\t\t\t\tcancelable: true\n\t\t\t\t\t\t})\n\t\t\t\t\t)\n\t\t\t\t}\n\t\t\t})\n\n\t\t\t// 3. Hide\n\t\t\tconst legendTexts3 = [...matrix.Inner.dom.legendG.node().querySelectorAll('g g text')].find(\n\t\t\t\td => d?.__data__?.$id?.startsWith('Somatic Mutations') && d.__data__.text?.startsWith('FRAMESHIFT')\n\t\t\t)\n\n\t\t\tlegendTexts3.dispatchEvent(\n\t\t\t\tnew MouseEvent('mouseup', {\n\t\t\t\t\tbubbles: true,\n\t\t\t\t\tcancelable: true\n\t\t\t\t})\n\t\t\t)\n\n\t\t\tconst options3 = matrix.Inner.dom.legendMenu.d.node().querySelectorAll('div.sja_menuoption.sja_sharp_border')\n\n\t\t\ttest.equal(\n\t\t\t\toptions3[0].innerText,\n\t\t\t\t'Hide samples with FRAMESHIFT',\n\t\t\t\t`First option should be \"Hide samples with FRAMESHIFT\"`\n\t\t\t)\n\t\t\ttest.equal(options3[1].innerText, 'Do not show FRAMESHIFT', `second option should be \"Do not show FRAMESHIFT\"`)\n\n\t\t\tconst rects3 = await detectLst({\n\t\t\t\telem: matrix.Inner.dom.seriesesG.node(),\n\t\t\t\tselector: '.sjpp-mass-series-g rect',\n\t\t\t\tcount: 712,\n\t\t\t\ttrigger: () => {\n\t\t\t\t\toptions3[0].dispatchEvent(\n\t\t\t\t\t\tnew MouseEvent('click', {\n\t\t\t\t\t\t\tbubbles: true,\n\t\t\t\t\t\t\tcancelable: true\n\t\t\t\t\t\t})\n\t\t\t\t\t)\n\t\t\t\t}\n\t\t\t})\n\n\t\t\ttest.equal(\n\t\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g').size(),\n\t\t\t\t6,\n\t\t\t\t`should render the expected number of serieses`\n\t\t\t)\n\n\t\t\t// 4. Show\n\t\t\tconst legendTexts4 = [...matrix.Inner.dom.legendG.node().querySelectorAll('g g text')].find(\n\t\t\t\td => d?.__data__?.$id?.startsWith('Somatic Mutations') && d.__data__.text?.startsWith('FRAMESHIFT')\n\t\t\t)\n\n\t\t\tlegendTexts4.dispatchEvent(\n\t\t\t\tnew MouseEvent('mouseup', {\n\t\t\t\t\tbubbles: true,\n\t\t\t\t\tcancelable: true\n\t\t\t\t})\n\t\t\t)\n\n\t\t\tconst options4 = matrix.Inner.dom.legendMenu.d.node().querySelectorAll('div.sja_menuoption.sja_sharp_border')\n\n\t\t\ttest.equal(\n\t\t\t\toptions4[0].innerText,\n\t\t\t\t'Show samples with FRAMESHIFT',\n\t\t\t\t`First option should be \"Show samples with FRAMESHIFT\"`\n\t\t\t)\n\t\t\ttest.equal(options4.length, 1, `Should only show one option`)\n\n\t\t\tconst rects4 = await detectLst({\n\t\t\t\telem: matrix.Inner.dom.seriesesG.node(),\n\t\t\t\tselector: '.sjpp-mass-series-g rect',\n\t\t\t\tcount: 726,\n\t\t\t\ttrigger: () => {\n\t\t\t\t\toptions4[0].dispatchEvent(\n\t\t\t\t\t\tnew MouseEvent('click', {\n\t\t\t\t\t\t\tbubbles: true,\n\t\t\t\t\t\t\tcancelable: true\n\t\t\t\t\t\t})\n\t\t\t\t\t)\n\t\t\t\t}\n\t\t\t})\n\n\t\t\t// 5. Show all somatic mutations\n\t\t\tconst legendTexts5 = [...matrix.Inner.dom.legendG.node().querySelectorAll('g g text')].find(\n\t\t\t\td => d?.__data__?.name == 'Somatic Mutations' && !d.__data__.isLegendItem\n\t\t\t)\n\n\t\t\tlegendTexts5.dispatchEvent(\n\t\t\t\tnew MouseEvent('mouseup', {\n\t\t\t\t\tbubbles: true,\n\t\t\t\t\tcancelable: true\n\t\t\t\t})\n\t\t\t)\n\n\t\t\tconst options5 = matrix.Inner.dom.legendMenu.d.node().querySelectorAll('div.sja_menuoption.sja_sharp_border')\n\n\t\t\ttest.equal(\n\t\t\t\toptions5[3].innerText,\n\t\t\t\t'Show all Somatic Mutations',\n\t\t\t\t`fourth option should be \"Show all Somatic Mutations\"`\n\t\t\t)\n\n\t\t\ttest.equal(options5.length, 4, `Should show four options`)\n\t\t\tconst rects5 = await detectLst({\n\t\t\t\telem: matrix.Inner.dom.seriesesG.node(),\n\t\t\t\tselector: '.sjpp-mass-series-g rect',\n\t\t\t\tcount: 902,\n\t\t\t\ttrigger: () => {\n\t\t\t\t\toptions5[3].dispatchEvent(\n\t\t\t\t\t\tnew MouseEvent('click', {\n\t\t\t\t\t\t\tbubbles: true,\n\t\t\t\t\t\t\tcancelable: true\n\t\t\t\t\t\t})\n\t\t\t\t\t)\n\t\t\t\t}\n\t\t\t})\n\n\t\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\t\ttest.end()\n\t\t}\n\t}\n)\n\n// cell brush zoom in\ntape('cell brush zoom in', function (test) {\n\ttest.timeoutAfter(5000)\n\ttest.plan(1)\n\trunpp({\n\t\tstate: {\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\t\tavailContentWidth: 300\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: 'Demographics',\n\t\t\t\t\t\t\tlst: [\n\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\tid: 'aaclassic_5',\n\t\t\t\t\t\t\t\t\tq: {\n\t\t\t\t\t\t\t\t\t\tmode: 'continuous'\n\t\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t\t},\n\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\tid: 'sex'\n\t\t\t\t\t\t\t\t\t//q: { mode: 'values' } // or 'groupsetting'\n\t\t\t\t\t\t\t\t},\n\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\tid: 'agedx',\n\t\t\t\t\t\t\t\t\tq: {\n\t\t\t\t\t\t\t\t\t\tmode: 'discrete',\n\t\t\t\t\t\t\t\t\t\ttype: 'regular-bin',\n\t\t\t\t\t\t\t\t\t\tbin_size: 5,\n\t\t\t\t\t\t\t\t\t\tfirst_bin: {\n\t\t\t\t\t\t\t\t\t\t\tstartunbounded: true,\n\t\t\t\t\t\t\t\t\t\t\tstop: 5,\n\t\t\t\t\t\t\t\t\t\t\tstopinclusive: true\n\t\t\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t\t\t} // or 'continuous'\n\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t]\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tasync function runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\n\t\tconst startCell = matrix.Inner.serieses[1].cells[10]\n\t\tconst endCell = matrix.Inner.serieses[1].cells[14]\n\n\t\tmatrix.Inner.clickedSeriesCell = {\n\t\t\tstartCell,\n\t\t\tendCell\n\t\t}\n\t\tmatrix.Inner.zoomWidth = Math.abs(startCell.totalIndex - endCell.totalIndex) * matrix.Inner.dimensions.colw\n\n\t\tmatrix.on('postRender.test', () => {\n\t\t\tmatrix.on('postRender.test', null)\n\t\t\ttest.deepEqual(matrix.Inner.settings.matrix.zoomLevel, 3.2, 'should have the expected zoom level after zoom in')\n\t\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\t\ttest.end()\n\t\t})\n\n\t\tmatrix.Inner.triggerZoomArea()\n\t}\n})\n\ntape('survival term in continous mode', function (test) {\n\ttest.timeoutAfter(5000)\n\ttest.plan(2)\n\trunpp({\n\t\tstate: {\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\tavailContentWidth: 1200\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: '',\n\t\t\t\t\t\t\tlst: [\n\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\tterm: {\n\t\t\t\t\t\t\t\t\t\tname: 'Overall survival',\n\t\t\t\t\t\t\t\t\t\ttype: 'survival',\n\t\t\t\t\t\t\t\t\t\tisleaf: true,\n\t\t\t\t\t\t\t\t\t\tunit: 'years',\n\t\t\t\t\t\t\t\t\t\tid: 'os'\n\t\t\t\t\t\t\t\t\t},\n\t\t\t\t\t\t\t\t\tq: {\n\t\t\t\t\t\t\t\t\t\tmode: 'continuous'\n\t\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t]\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tfunction runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g').size(),\n\t\t\t1,\n\t\t\t`should render the expected number of serieses`\n\t\t)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g rect').size(),\n\t\t\t60,\n\t\t\t`should render the expected number of cell rects`\n\t\t)\n\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\ttest.end()\n\t}\n})\n\ntape('survival term in discrete mode', function (test) {\n\ttest.timeoutAfter(5000)\n\ttest.plan(2)\n\trunpp({\n\t\tstate: {\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\tavailContentWidth: 1200\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: '',\n\t\t\t\t\t\t\tlst: [\n\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\tterm: {\n\t\t\t\t\t\t\t\t\t\tname: 'Overall survival',\n\t\t\t\t\t\t\t\t\t\ttype: 'survival',\n\t\t\t\t\t\t\t\t\t\tisleaf: true,\n\t\t\t\t\t\t\t\t\t\tunit: 'years',\n\t\t\t\t\t\t\t\t\t\tid: 'os'\n\t\t\t\t\t\t\t\t\t},\n\t\t\t\t\t\t\t\t\tq: {\n\t\t\t\t\t\t\t\t\t\tmode: 'continuous'\n\t\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t]\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tfunction runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g').size(),\n\t\t\t1,\n\t\t\t`should render the expected number of serieses`\n\t\t)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g rect').size(),\n\t\t\t60,\n\t\t\t`should render the expected number of cell rects`\n\t\t)\n\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\ttest.end()\n\t}\n})\n\ntape('survival term with divide by dictionary term', function (test) {\n\ttest.timeoutAfter(5000)\n\ttest.plan(3)\n\trunpp({\n\t\tstate: {\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\tavailContentWidth: 1200\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\tdivideBy: {\n\t\t\t\t\t\tid: 'sex'\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: '',\n\t\t\t\t\t\t\tlst: [\n\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\tterm: {\n\t\t\t\t\t\t\t\t\t\tname: 'Overall survival',\n\t\t\t\t\t\t\t\t\t\ttype: 'survival',\n\t\t\t\t\t\t\t\t\t\tisleaf: true,\n\t\t\t\t\t\t\t\t\t\tunit: 'years',\n\t\t\t\t\t\t\t\t\t\tid: 'os'\n\t\t\t\t\t\t\t\t\t},\n\t\t\t\t\t\t\t\t\tq: {\n\t\t\t\t\t\t\t\t\t\tmode: 'continuous'\n\t\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t]\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tfunction runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g').size(),\n\t\t\t1,\n\t\t\t`should render the expected number of serieses`\n\t\t)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g rect').size(),\n\t\t\t60,\n\t\t\t`should render the expected number of cell rects`\n\t\t)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.cluster.selectAll('.sjpp-matrix-clusteroutlines rect').size(),\n\t\t\t2,\n\t\t\t`should render the expected number of cluster rects`\n\t\t)\n\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\ttest.end()\n\t}\n})\n\ntape('dictionary term with divide by survival term', function (test) {\n\ttest.timeoutAfter(5000)\n\ttest.plan(3)\n\trunpp({\n\t\tstate: {\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\tavailContentWidth: 1200\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\tdivideBy: {\n\t\t\t\t\t\tid: 'os'\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: 'Demographics',\n\t\t\t\t\t\t\tlst: [\n\t\t\t\t\t\t\t\t{ id: 'agedx', term: termjson['agedx'] },\n\t\t\t\t\t\t\t\t{ id: 'diaggrp', term: termjson['diaggrp'] },\n\t\t\t\t\t\t\t\t{ id: 'aaclassic_5', term: termjson['aaclassic_5'] }\n\t\t\t\t\t\t\t]\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tfunction runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g').size(),\n\t\t\t3,\n\t\t\t`should render the expected number of serieses`\n\t\t)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g rect').size(),\n\t\t\t180,\n\t\t\t`should render the expected number of cell rects`\n\t\t)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.cluster.selectAll('.sjpp-matrix-clusteroutlines rect').size(),\n\t\t\t2,\n\t\t\t`should render the expected number of cluster rects`\n\t\t)\n\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\ttest.end()\n\t}\n})\n\ntape('apply \"hide\" and \"show\" legend filters to a survival term', function (test) {\n\ttest.timeoutAfter(5000)\n\ttest.plan(10)\n\trunpp({\n\t\tstate: {\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\t\tavailContentWidth: 1200\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: '',\n\t\t\t\t\t\t\tlst: [\n\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\tid: 'aaclassic_5',\n\t\t\t\t\t\t\t\t\tq: {\n\t\t\t\t\t\t\t\t\t\tmode: 'continuous'\n\t\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t\t},\n\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\tid: 'genetic_race'\n\t\t\t\t\t\t\t\t\t//q: { mode: 'values' } // or 'groupsetting'\n\t\t\t\t\t\t\t\t},\n\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\tid: 'agedx',\n\t\t\t\t\t\t\t\t\tq: {\n\t\t\t\t\t\t\t\t\t\tmode: 'discrete',\n\t\t\t\t\t\t\t\t\t\ttype: 'regular-bin',\n\t\t\t\t\t\t\t\t\t\tbin_size: 5,\n\t\t\t\t\t\t\t\t\t\tfirst_bin: {\n\t\t\t\t\t\t\t\t\t\t\tstartunbounded: true,\n\t\t\t\t\t\t\t\t\t\t\tstop: 5,\n\t\t\t\t\t\t\t\t\t\t\tstopinclusive: true\n\t\t\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t\t},\n\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\tterm: {\n\t\t\t\t\t\t\t\t\t\tname: 'Overall survival',\n\t\t\t\t\t\t\t\t\t\ttype: 'survival',\n\t\t\t\t\t\t\t\t\t\tisleaf: true,\n\t\t\t\t\t\t\t\t\t\tunit: 'years',\n\t\t\t\t\t\t\t\t\t\tid: 'os'\n\t\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t]\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tasync function runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\n\t\t// 1. Hide\n\t\tconst legendTexts = [...matrix.Inner.dom.legendG.node().querySelectorAll('g g text')].find(d =>\n\t\t\td?.__data__?.text?.startsWith('Alive')\n\t\t)\n\t\tlegendTexts.dispatchEvent(\n\t\t\tnew MouseEvent('mouseup', {\n\t\t\t\tbubbles: true,\n\t\t\t\tcancelable: true\n\t\t\t})\n\t\t)\n\n\t\tconst options = matrix.Inner.dom.legendMenu.d.node().querySelectorAll('div.sja_menuoption.sja_sharp_border')\n\n\t\ttest.equal(options[0].innerText, 'Hide', `First option should be Hide`)\n\t\ttest.equal(options[1].innerText, 'Show only', `second option should be Show only`)\n\t\ttest.equal(options[2].innerText, 'Show all', `third option should be Show all`)\n\n\t\tconst rects = await detectLst({\n\t\t\telem: matrix.Inner.dom.seriesesG.node(),\n\t\t\tselector: '.sjpp-mass-series-g rect',\n\t\t\tcount: 228,\n\t\t\ttrigger: () => {\n\t\t\t\toptions[0].dispatchEvent(\n\t\t\t\t\tnew MouseEvent('click', {\n\t\t\t\t\t\tbubbles: true,\n\t\t\t\t\t\tcancelable: true\n\t\t\t\t\t})\n\t\t\t\t)\n\t\t\t}\n\t\t})\n\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g').size(),\n\t\t\t4,\n\t\t\t`should render the expected number of serieses`\n\t\t)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.cluster.selectAll('.sjpp-matrix-clusteroutlines rect').size(),\n\t\t\t1,\n\t\t\t`should render the expected number of cluster rects`\n\t\t)\n\n\t\t// 2. Show\n\t\tconst legendTexts2 = [...matrix.Inner.dom.legendG.node().querySelectorAll('g g text')].find(d =>\n\t\t\td?.__data__?.text?.startsWith('Alive')\n\t\t)\n\t\tlegendTexts2.dispatchEvent(\n\t\t\tnew MouseEvent('mouseup', {\n\t\t\t\tbubbles: true,\n\t\t\t\tcancelable: true\n\t\t\t})\n\t\t)\n\n\t\tconst options2 = matrix.Inner.dom.legendMenu.d.node().querySelectorAll('div.sja_menuoption.sja_sharp_border')\n\n\t\ttest.equal(options2[0].innerText, 'Show', `First option should be Show`)\n\t\ttest.equal(options2[1].innerText, 'Show only', `second option should be Show only`)\n\t\ttest.equal(options2[2].innerText, 'Show all', `third option should be Show all`)\n\n\t\tconst rects2 = await detectLst({\n\t\t\telem: matrix.Inner.dom.seriesesG.node(),\n\t\t\tselector: '.sjpp-mass-series-g rect',\n\t\t\tcount: 240,\n\t\t\ttrigger: () => {\n\t\t\t\toptions2[0].dispatchEvent(\n\t\t\t\t\tnew MouseEvent('click', {\n\t\t\t\t\t\tbubbles: true,\n\t\t\t\t\t\tcancelable: true\n\t\t\t\t\t})\n\t\t\t\t)\n\t\t\t}\n\t\t})\n\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g').size(),\n\t\t\t4,\n\t\t\t`should render the expected number of serieses`\n\t\t)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.cluster.selectAll('.sjpp-matrix-clusteroutlines rect').size(),\n\t\t\t1,\n\t\t\t`should render the expected number of cluster rects`\n\t\t)\n\n\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\ttest.end()\n\t}\n})\n\ntape('apply \"show only\" and \"show all\" legend filters to a survival terms', function (test) {\n\ttest.timeoutAfter(5000)\n\ttest.plan(14)\n\trunpp({\n\t\tstate: {\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\t// the matrix autocomputes the colw based on available screen width,\n\t\t\t\t\t\t\t// need to set an exact screen width for consistent tests using getBBox()\n\t\t\t\t\t\t\tavailContentWidth: 1200\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: '',\n\t\t\t\t\t\t\tlst: [\n\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\tid: 'aaclassic_5',\n\t\t\t\t\t\t\t\t\tq: {\n\t\t\t\t\t\t\t\t\t\tmode: 'continuous'\n\t\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t\t},\n\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\tid: 'genetic_race'\n\t\t\t\t\t\t\t\t\t//q: { mode: 'values' } // or 'groupsetting'\n\t\t\t\t\t\t\t\t},\n\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\tid: 'agedx',\n\t\t\t\t\t\t\t\t\tq: {\n\t\t\t\t\t\t\t\t\t\tmode: 'discrete',\n\t\t\t\t\t\t\t\t\t\ttype: 'regular-bin',\n\t\t\t\t\t\t\t\t\t\tbin_size: 5,\n\t\t\t\t\t\t\t\t\t\tfirst_bin: {\n\t\t\t\t\t\t\t\t\t\t\tstartunbounded: true,\n\t\t\t\t\t\t\t\t\t\t\tstop: 5,\n\t\t\t\t\t\t\t\t\t\t\tstopinclusive: true\n\t\t\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t\t},\n\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\tterm: {\n\t\t\t\t\t\t\t\t\t\tname: 'Overall survival',\n\t\t\t\t\t\t\t\t\t\ttype: 'survival',\n\t\t\t\t\t\t\t\t\t\tisleaf: true,\n\t\t\t\t\t\t\t\t\t\tunit: 'years',\n\t\t\t\t\t\t\t\t\t\tid: 'os'\n\t\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t\t]\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tasync function runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\n\t\t// 1. Show only\n\t\tconst legendTexts = [...matrix.Inner.dom.legendG.node().querySelectorAll('g g text')].find(d =>\n\t\t\td?.__data__?.text?.startsWith('Alive')\n\t\t)\n\t\tlegendTexts.dispatchEvent(\n\t\t\tnew MouseEvent('mouseup', {\n\t\t\t\tbubbles: true,\n\t\t\t\tcancelable: true\n\t\t\t})\n\t\t)\n\n\t\tconst options = matrix.Inner.dom.legendMenu.d.node().querySelectorAll('div.sja_menuoption.sja_sharp_border')\n\n\t\tconst rects = await detectLst({\n\t\t\telem: matrix.Inner.dom.seriesesG.node(),\n\t\t\tselector: '.sjpp-mass-series-g rect',\n\t\t\tcount: 12,\n\t\t\ttrigger: () => {\n\t\t\t\toptions[1].dispatchEvent(\n\t\t\t\t\tnew MouseEvent('click', {\n\t\t\t\t\t\tbubbles: true,\n\t\t\t\t\t\tcancelable: true\n\t\t\t\t\t})\n\t\t\t\t)\n\t\t\t}\n\t\t})\n\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g').size(),\n\t\t\t4,\n\t\t\t`should render the expected number of serieses`\n\t\t)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.cluster.selectAll('.sjpp-matrix-clusteroutlines rect').size(),\n\t\t\t1,\n\t\t\t`should render the expected number of cluster rects`\n\t\t)\n\n\t\t// 2. second Show only\n\t\tconst secondLegendTexts = [...matrix.Inner.dom.legendG.node().querySelectorAll('g g text')].find(d =>\n\t\t\td?.__data__?.text?.startsWith('<5')\n\t\t)\n\t\tsecondLegendTexts.dispatchEvent(\n\t\t\tnew MouseEvent('mouseup', {\n\t\t\t\tbubbles: true,\n\t\t\t\tcancelable: true\n\t\t\t})\n\t\t)\n\n\t\tconst secondOptions = matrix.Inner.dom.legendMenu.d.node().querySelectorAll('div.sja_menuoption.sja_sharp_border')\n\n\t\ttest.equal(secondOptions[0].innerText, 'Hide', `First option should be Hide`)\n\t\ttest.equal(secondOptions[1].innerText, 'Show only', `second option should be Show only`)\n\t\ttest.equal(secondOptions[2].innerText, 'Show all', `third option should be Show all`)\n\n\t\tconst secondRects = await detectLst({\n\t\t\telem: matrix.Inner.dom.seriesesG.node(),\n\t\t\tselector: '.sjpp-mass-series-g rect',\n\t\t\tcount: 4,\n\t\t\ttrigger: () => {\n\t\t\t\tsecondOptions[1].dispatchEvent(\n\t\t\t\t\tnew MouseEvent('click', {\n\t\t\t\t\t\tbubbles: true,\n\t\t\t\t\t\tcancelable: true\n\t\t\t\t\t})\n\t\t\t\t)\n\t\t\t}\n\t\t})\n\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g').size(),\n\t\t\t4,\n\t\t\t`should render the expected number of serieses`\n\t\t)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.cluster.selectAll('.sjpp-matrix-clusteroutlines rect').size(),\n\t\t\t1,\n\t\t\t`should render the expected number of cluster rects`\n\t\t)\n\n\t\t// 3. first show all\n\t\tconst thirdLegendTexts = [...matrix.Inner.dom.legendG.node().querySelectorAll('g g text')].find(d =>\n\t\t\td?.__data__?.text?.startsWith('<5')\n\t\t)\n\t\tthirdLegendTexts.dispatchEvent(\n\t\t\tnew MouseEvent('mouseup', {\n\t\t\t\tbubbles: true,\n\t\t\t\tcancelable: true\n\t\t\t})\n\t\t)\n\t\tconst thirdOptions = matrix.Inner.dom.legendMenu.d.node().querySelectorAll('div.sja_menuoption.sja_sharp_border')\n\n\t\ttest.equal(thirdOptions[0].innerText, 'Hide', `First option should be Hide`)\n\t\ttest.equal(thirdOptions[2].innerText, 'Show all', `third option should be Show all`)\n\n\t\tconst thirdRects = await detectLst({\n\t\t\telem: matrix.Inner.dom.seriesesG.node(),\n\t\t\tselector: '.sjpp-mass-series-g rect',\n\t\t\tcount: 12,\n\t\t\ttrigger: () => {\n\t\t\t\tthirdOptions[2].dispatchEvent(\n\t\t\t\t\tnew MouseEvent('click', {\n\t\t\t\t\t\tbubbles: true,\n\t\t\t\t\t\tcancelable: true\n\t\t\t\t\t})\n\t\t\t\t)\n\t\t\t}\n\t\t})\n\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g').size(),\n\t\t\t4,\n\t\t\t`should render the expected number of serieses`\n\t\t)\n\n\t\t// 4. Show all\n\t\tconst fourthLegendTexts = [...matrix.Inner.dom.legendG.node().querySelectorAll('g g text')].find(d =>\n\t\t\td?.__data__?.text?.startsWith('Alive')\n\t\t)\n\t\tfourthLegendTexts.dispatchEvent(\n\t\t\tnew MouseEvent('mouseup', {\n\t\t\t\tbubbles: true,\n\t\t\t\tcancelable: true\n\t\t\t})\n\t\t)\n\t\tconst fourthOptions = matrix.Inner.dom.legendMenu.d.node().querySelectorAll('div.sja_menuoption.sja_sharp_border')\n\n\t\ttest.equal(fourthOptions[0].innerText, 'Hide', `first option should be Hide`)\n\t\ttest.equal(fourthOptions[2].innerText, 'Show all', `third option should be Show all`)\n\n\t\tconst fourthRects = await detectLst({\n\t\t\telem: matrix.Inner.dom.seriesesG.node(),\n\t\t\tselector: '.sjpp-mass-series-g rect',\n\t\t\tcount: 240,\n\t\t\ttrigger: () => {\n\t\t\t\tfourthOptions[2].dispatchEvent(\n\t\t\t\t\tnew MouseEvent('click', {\n\t\t\t\t\t\tbubbles: true,\n\t\t\t\t\t\tcancelable: true\n\t\t\t\t\t})\n\t\t\t\t)\n\t\t\t}\n\t\t})\n\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.seriesesG.selectAll('.sjpp-mass-series-g').size(),\n\t\t\t4,\n\t\t\t`should render the expected number of serieses`\n\t\t)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.cluster.selectAll('.sjpp-matrix-clusteroutlines rect').size(),\n\t\t\t1,\n\t\t\t`should render the expected number of cluster rects`\n\t\t)\n\n\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\ttest.end()\n\t}\n})\n\ntape('sample ancestry labels and line spans', function (test) {\n\ttest.timeoutAfter(8000)\n\t// leaf samples 1-9 have a designed 2-level ancestry in the TermdbTest sample_ancestry table:\n\t//   1_patient is the direct parent of samples 1,2,3\n\t//   2_patient is the direct parent of samples 4,5,6\n\t//   3_patient is the grandparent (distance 2) of samples 1-6 AND the direct parent of 7,8,9\n\t// so the matrix should render 3 ancestor line spans (1_patient, 2_patient, and the nested\n\t// 3_patient spanning all 9), labeled by ancestor name\n\tconst ancestrySampleIds = [1, 2, 3, 4, 5, 6, 7, 8, 9]\n\tconst filter = {\n\t\ttype: 'tvslst',\n\t\tin: true,\n\t\tjoin: '',\n\t\tlst: [\n\t\t\t{\n\t\t\t\ttype: 'tvs',\n\t\t\t\tnoEdit: true,\n\t\t\t\ttvs: {\n\t\t\t\t\tterm: {\n\t\t\t\t\t\tname: 'ancestry test samples',\n\t\t\t\t\t\ttype: 'samplelst',\n\t\t\t\t\t\tvalues: { grp: { key: 'grp', list: ancestrySampleIds.map(id => ({ sampleId: id })) } }\n\t\t\t\t\t}\n\t\t\t\t}\n\t\t\t}\n\t\t]\n\t}\n\n\trunpp({\n\t\tstate: {\n\t\t\t// samples 1-9 belong to the XYZ cohort (index 1); the store ANDs the active\n\t\t\t// cohort filter with the samplelst filter below to yield exactly samples 1-9\n\t\t\tactiveCohort: 1,\n\t\t\ttermfilter: { filter },\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'matrix',\n\t\t\t\t\tsettings: {\n\t\t\t\t\t\tmatrix: {\n\t\t\t\t\t\t\tavailContentWidth: 1200,\n\t\t\t\t\t\t\tsortBySampleAncestry: 'last'\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\ttermgroups: [\n\t\t\t\t\t\t{\n\t\t\t\t\t\t\tname: 'Demographics',\n\t\t\t\t\t\t\tlst: [{ id: 'diaggrp' }]\n\t\t\t\t\t\t}\n\t\t\t\t\t]\n\t\t\t\t}\n\t\t\t]\n\t\t},\n\t\tmatrix: {\n\t\t\tcallbacks: {\n\t\t\t\t'postRender.test': runTests\n\t\t\t}\n\t\t}\n\t})\n\n\tfunction runTests(matrix) {\n\t\tmatrix.on('postRender.test', null)\n\t\ttest.equal(matrix.Inner.sampleOrder.length, 9, 'should render the 9 filtered samples')\n\n\t\tconst spanNodes = matrix.Inner.dom.svg.selectAll('.sjpp-matrix-label-span').nodes()\n\t\ttest.equal(spanNodes.length, 3, 'should render 3 ancestor spans (1_patient, 2_patient, and the nested 3_patient)')\n\n\t\tconst lineX2ByLabel = {}\n\t\tfor (const node of spanNodes) {\n\t\t\tconst label = node.querySelector('text')?.textContent\n\t\t\tlineX2ByLabel[label] = +node.querySelector('line')?.getAttribute('x2')\n\t\t}\n\t\ttest.deepEqual(\n\t\t\tObject.keys(lineX2ByLabel).sort(),\n\t\t\t['1_patient', '2_patient', '3_patient'],\n\t\t\t'ancestor spans should be labeled by ancestor name (1_patient, 2_patient, 3_patient)'\n\t\t)\n\t\ttest.equal(\n\t\t\tmatrix.Inner.dom.svg.selectAll('.sjpp-matrix-label-span line').size(),\n\t\t\t3,\n\t\t\t'should render 3 ancestor line spans'\n\t\t)\n\t\t// 3_patient is the grandparent spanning all 9 samples, while 1_patient and 2_patient\n\t\t// each span only their 3 direct children, so its line must be the widest\n\t\ttest.ok(\n\t\t\tlineX2ByLabel['3_patient'] > lineX2ByLabel['1_patient'] &&\n\t\t\t\tlineX2ByLabel['3_patient'] > lineX2ByLabel['2_patient'],\n\t\t\t'the nested grandparent span (3_patient) should be wider than the parent spans (1_patient, 2_patient)'\n\t\t)\n\n\t\t// disabling the ancestry feature must clear the previously rendered spans\n\t\tmatrix.on('postRender.disableTest', () => {\n\t\t\tmatrix.on('postRender.disableTest', null)\n\t\t\ttest.equal(\n\t\t\t\tmatrix.Inner.dom.svg.selectAll('.sjpp-matrix-label-span').size(),\n\t\t\t\t0,\n\t\t\t\t'ancestor spans should be removed after sortBySampleAncestry is disabled'\n\t\t\t)\n\t\t\tif (test._ok) matrix.Inner.app.destroy()\n\t\t\ttest.end()\n\t\t})\n\t\tmatrix.Inner.app.dispatch({\n\t\t\ttype: 'plot_edit',\n\t\t\tid: matrix.Inner.id,\n\t\t\tconfig: { settings: { matrix: { sortBySampleAncestry: false } } }\n\t\t})\n\t}\n})\n\n/*************************\n reusable helper functions\n**************************/\n\nconst runpp = helpers.getRunPp('mass', {\n\tstate: {\n\t\tdslabel: 'TermdbTest',\n\t\tgenome: 'hg38-test',\n\t\tnav: { activeTab: -1 }\n\t},\n\tdebug: 1\n})\n\nfunction getGenes() {\n\treturn [\n\t\t{ term: { gene: 'TP53', name: 'TP53', type: 'geneVariant', isleaf: true } },\n\t\t{ term: { gene: 'KRAS', name: 'KRAS', type: 'geneVariant', isleaf: true } },\n\t\t{ term: { gene: 'AKT1', name: 'AKT1', type: 'geneVariant', isleaf: true } }\n\t]\n}\nfunction getTermCollection() {\n\treturn {\n\t\t//isAtomic: true,\n\t\ttype: 'TermCollectionTWCont',\n\t\t//$id: 'TwBase_0__48243_99155',\n\t\tterm: {\n\t\t\ttype: 'termCollection',\n\t\t\ttermlst: [\n\t\t\t\t{\n\t\t\t\t\ttype: 'float',\n\t\t\t\t\tbins: {\n\t\t\t\t\t\tdefault: {\n\t\t\t\t\t\t\ttype: 'regular-bin',\n\t\t\t\t\t\t\tbin_size: 5,\n\t\t\t\t\t\t\tstartinclusive: true,\n\t\t\t\t\t\t\tfirst_bin: { startunbounded: true, stop: 5 }\n\t\t\t\t\t\t},\n\t\t\t\t\t\tlabel_offset: 1\n\t\t\t\t\t},\n\t\t\t\t\tname: 'Age (years) at Cancer Diagnosis',\n\t\t\t\t\tid: 'agedx',\n\t\t\t\t\tisleaf: true,\n\t\t\t\t\tvalues: {},\n\t\t\t\t\thashtmldetail: true\n\t\t\t\t},\n\t\t\t\t{\n\t\t\t\t\ttype: 'float',\n\t\t\t\t\tbins: {\n\t\t\t\t\t\tdefault: {\n\t\t\t\t\t\t\ttype: 'regular-bin',\n\t\t\t\t\t\t\tstartinclusive: true,\n\t\t\t\t\t\t\tbin_size: 5,\n\t\t\t\t\t\t\tfirst_bin: { stop: 25 },\n\t\t\t\t\t\t\tlast_bin: { start: 55 }\n\t\t\t\t\t\t}\n\t\t\t\t\t},\n\t\t\t\t\tname: 'Age (years) at Death',\n\t\t\t\t\tid: 'a_death',\n\t\t\t\t\tisleaf: true,\n\t\t\t\t\tvalues: {},\n\t\t\t\t\thashtmldetail: true\n\t\t\t\t},\n\t\t\t\t{\n\t\t\t\t\ttype: 'float',\n\t\t\t\t\tbins: { default: { type: 'regular-bin', startinclusive: true, bin_size: 10, first_bin: { stop: 15 } } },\n\t\t\t\t\tname: 'Age (years) at Last NDI Search',\n\t\t\t\t\tid: 'a_ndi',\n\t\t\t\t\tisleaf: true,\n\t\t\t\t\tvalues: {}\n\t\t\t\t},\n\t\t\t\t{\n\t\t\t\t\ttype: 'float',\n\t\t\t\t\tbins: { default: { type: 'regular-bin', startinclusive: true, bin_size: 10, first_bin: { stop: 15 } } },\n\t\t\t\t\tvalues: { '-994': { label: 'N/A: No campus visit', uncomputable: true } },\n\t\t\t\t\tname: 'Age at last ABC assessment',\n\t\t\t\t\tid: 'agelastvisit',\n\t\t\t\t\tisleaf: true\n\t\t\t\t}\n\t\t\t],\n\t\t\tname: 'Fake Collection 1',\n\t\t\tisleaf: true,\n\t\t\tpropsByTermId: {\n\t\t\t\tagedx: { color: '#1b9e77' },\n\t\t\t\ta_death: { color: '#d95f02' },\n\t\t\t\ta_ndi: { color: '#7570b3' },\n\t\t\t\tagelastvisit: { color: '#e7298a' }\n\t\t\t}\n\t\t},\n\t\tq: { isAtomic: true, mode: 'continuous', lst: [] }\n\t}\n}\n"],
-  "mappings": 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-  "names": ["tape"]
-}

package/dist/matrix.interactivity-YHDIO5A2.js

@@ -1,37 +0,0 @@
-import {
-  getConfigForShowAll,
-  setInteractivity,
-  showAll
-} from "./chunk-GPZYAJQH.js";
-import "./chunk-QJ3HYZH3.js";
-import "./chunk-HJ6L54YS.js";
-import "./chunk-KV4W2ACA.js";
-import "./chunk-DMWOK4DS.js";
-import "./chunk-ELJX3QIQ.js";
-import "./chunk-5IMFPVGT.js";
-import "./chunk-EEB5VE2A.js";
-import "./chunk-6RRZRISL.js";
-import "./chunk-2KM4PRQM.js";
-import "./chunk-VMRO6DMC.js";
-import "./chunk-HKKTNIMX.js";
-import "./chunk-GMRIEUBW.js";
-import "./chunk-4EZLVENZ.js";
-import "./chunk-WINIL2KN.js";
-import "./chunk-PF4DSFDR.js";
-import "./chunk-7X6NF7NI.js";
-import "./chunk-W5J3LTYS.js";
-import "./chunk-Z2ZITHT4.js";
-import "./chunk-4OLM3KSB.js";
-import "./chunk-FXQXCOII.js";
-import "./chunk-TLT4YIG3.js";
-import "./chunk-5R63Q5KH.js";
-import "./chunk-I6Y4O3RR.js";
-import "./chunk-Q5RDQNIT.js";
-import "./chunk-DQC5FFGV.js";
-import "./chunk-HS5PO5ZQ.js";
-export {
-  getConfigForShowAll,
-  setInteractivity,
-  showAll
-};
-//# sourceMappingURL=matrix.interactivity-YHDIO5A2.js.map

package/dist/matrix.layout-25HYKUF2.js

@@ -1,39 +0,0 @@
-import {
-  getMaxGrpLabelWidth,
-  setAutoDimensions,
-  setLabelsAndScales,
-  setLayout
-} from "./chunk-6DPELKO5.js";
-import "./chunk-QJ3HYZH3.js";
-import "./chunk-HJ6L54YS.js";
-import "./chunk-KV4W2ACA.js";
-import "./chunk-DMWOK4DS.js";
-import "./chunk-ELJX3QIQ.js";
-import "./chunk-5IMFPVGT.js";
-import "./chunk-EEB5VE2A.js";
-import "./chunk-6RRZRISL.js";
-import "./chunk-2KM4PRQM.js";
-import "./chunk-VMRO6DMC.js";
-import "./chunk-HKKTNIMX.js";
-import "./chunk-GMRIEUBW.js";
-import "./chunk-4EZLVENZ.js";
-import "./chunk-WINIL2KN.js";
-import "./chunk-PF4DSFDR.js";
-import "./chunk-7X6NF7NI.js";
-import "./chunk-W5J3LTYS.js";
-import "./chunk-Z2ZITHT4.js";
-import "./chunk-4OLM3KSB.js";
-import "./chunk-FXQXCOII.js";
-import "./chunk-TLT4YIG3.js";
-import "./chunk-5R63Q5KH.js";
-import "./chunk-I6Y4O3RR.js";
-import "./chunk-Q5RDQNIT.js";
-import "./chunk-DQC5FFGV.js";
-import "./chunk-HS5PO5ZQ.js";
-export {
-  getMaxGrpLabelWidth,
-  setAutoDimensions,
-  setLabelsAndScales,
-  setLayout
-};
-//# sourceMappingURL=matrix.layout-25HYKUF2.js.map

package/dist/matrix.legend-IMK7DH4V.js

@@ -1,20 +0,0 @@
-import {
-  CNVkey2order,
-  getLegendData,
-  getLegendItemText
-} from "./chunk-3PQDD5HM.js";
-import "./chunk-V2OJLJSK.js";
-import "./chunk-GMRIEUBW.js";
-import "./chunk-4EZLVENZ.js";
-import "./chunk-Z2ZITHT4.js";
-import "./chunk-4OLM3KSB.js";
-import "./chunk-5R63Q5KH.js";
-import "./chunk-I6Y4O3RR.js";
-import "./chunk-Q5RDQNIT.js";
-import "./chunk-HS5PO5ZQ.js";
-export {
-  CNVkey2order,
-  getLegendData,
-  getLegendItemText
-};
-//# sourceMappingURL=matrix.legend-IMK7DH4V.js.map

package/dist/matrix.renderers-3RZRN6HO.js

@@ -1,34 +0,0 @@
-import {
-  setRenderers
-} from "./chunk-GGQVDHYF.js";
-import "./chunk-C2MCQZWH.js";
-import "./chunk-QJ3HYZH3.js";
-import "./chunk-HJ6L54YS.js";
-import "./chunk-KV4W2ACA.js";
-import "./chunk-DMWOK4DS.js";
-import "./chunk-ELJX3QIQ.js";
-import "./chunk-5IMFPVGT.js";
-import "./chunk-EEB5VE2A.js";
-import "./chunk-6RRZRISL.js";
-import "./chunk-2KM4PRQM.js";
-import "./chunk-VMRO6DMC.js";
-import "./chunk-HKKTNIMX.js";
-import "./chunk-GMRIEUBW.js";
-import "./chunk-4EZLVENZ.js";
-import "./chunk-WINIL2KN.js";
-import "./chunk-PF4DSFDR.js";
-import "./chunk-7X6NF7NI.js";
-import "./chunk-W5J3LTYS.js";
-import "./chunk-Z2ZITHT4.js";
-import "./chunk-4OLM3KSB.js";
-import "./chunk-FXQXCOII.js";
-import "./chunk-TLT4YIG3.js";
-import "./chunk-5R63Q5KH.js";
-import "./chunk-I6Y4O3RR.js";
-import "./chunk-Q5RDQNIT.js";
-import "./chunk-DQC5FFGV.js";
-import "./chunk-HS5PO5ZQ.js";
-export {
-  setRenderers
-};
-//# sourceMappingURL=matrix.renderers-3RZRN6HO.js.map

package/dist/matrix.serieses-ZTVHQ7QA.js

@@ -1,19 +0,0 @@
-import {
-  getSerieses
-} from "./chunk-VWGRKOVJ.js";
-import "./chunk-74C6G6JD.js";
-import "./chunk-3PQDD5HM.js";
-import "./chunk-V2OJLJSK.js";
-import "./chunk-GMRIEUBW.js";
-import "./chunk-4EZLVENZ.js";
-import "./chunk-W5J3LTYS.js";
-import "./chunk-Z2ZITHT4.js";
-import "./chunk-4OLM3KSB.js";
-import "./chunk-5R63Q5KH.js";
-import "./chunk-I6Y4O3RR.js";
-import "./chunk-Q5RDQNIT.js";
-import "./chunk-HS5PO5ZQ.js";
-export {
-  getSerieses
-};
-//# sourceMappingURL=matrix.serieses-ZTVHQ7QA.js.map

package/dist/matrix.sort-EDXHT6NZ.js

@@ -1,26 +0,0 @@
-import {
-  getMclassSorter,
-  getSampleGroupSorter,
-  getSampleSorter,
-  getSortOptions,
-  getTermSorter,
-  reshapeSortPriority
-} from "./chunk-U45R6QNT.js";
-import "./chunk-C2MCQZWH.js";
-import "./chunk-GMRIEUBW.js";
-import "./chunk-4EZLVENZ.js";
-import "./chunk-Z2ZITHT4.js";
-import "./chunk-4OLM3KSB.js";
-import "./chunk-5R63Q5KH.js";
-import "./chunk-I6Y4O3RR.js";
-import "./chunk-Q5RDQNIT.js";
-import "./chunk-HS5PO5ZQ.js";
-export {
-  getMclassSorter,
-  getSampleGroupSorter,
-  getSampleSorter,
-  getSortOptions,
-  getTermSorter,
-  reshapeSortPriority
-};
-//# sourceMappingURL=matrix.sort-EDXHT6NZ.js.map