diff --git a/.env b/.env index cea1d000..3440a9a6 100644 --- a/.env +++ b/.env @@ -1,8 +1,8 @@ VITE_APP_API_LOCATION=http://localhost:5000/ -VITE_FLATMAPAPI_LOCATION='' VITE_APP_ALGOLIA_KEY= VITE_APP_ALGOLIA_ID= VITE_APP_PENNSIEVE_API_LOCATION=https://api.pennsieve.io VITE_APP_ALGOLIA_INDEX=k-core_dev_published_time_desc +VITE_APP_BL_SERVER_URL= VITE_APP_NL_LINK_PREFIX= -VITE_APP_ROOT_URL= +VITE_APP_ROOT_URL= \ No newline at end of file diff --git a/.gitignore b/.gitignore index e6fb19bd..088af65d 100644 --- a/.gitignore +++ b/.gitignore @@ -1,7 +1,12 @@ .DS_Store dist node_modules +cypress/videos/* +cypress/screenshots/* +cypress/results/* +cypress/reports/* .env.local docs/.vitepress/dist docs/.vitepress/cache docs/components +.vitepress \ No newline at end of file diff --git a/cypress.config.js b/cypress.config.js new file mode 100644 index 00000000..3347d9a4 --- /dev/null +++ b/cypress.config.js @@ -0,0 +1,23 @@ +import { defineConfig } from "cypress"; + +export default defineConfig({ + defaultCommandTimeout: 10000, + reporter: "junit", + experimentalMemoryManagement: true, + numTestsKeptInMemory: 0, + reporter: "cypress-multi-reporters", + reporterOptions: { + configFile: "reporter-config.json", + }, + component: { + viewportWidth: 1440, + viewportHeight: 900, + specPattern: "cypress/component/*.cy.js", + devServer: { + framework: "vue", + bundler: "vite", + }, + }, + video: true, + videoCompression: true, +}); diff --git a/cypress/component/SideBar.cy.js b/cypress/component/SideBar.cy.js new file mode 100644 index 00000000..9a5e71cd --- /dev/null +++ b/cypress/component/SideBar.cy.js @@ -0,0 +1,172 @@ +import SideBar from "../../src/components/SideBar.vue" + +const searchHistory = [ + { filters: [], search: "heart" }, + { filters: [], search: "lung" }, + { filters: [], search: "scaffold" }, + { filters: [], search: "pig" }, + { filters: [], search: "heart" }, +] + +describe("", () => { + before(() => { + cy.intercept('**/dataset_info/**').as('dataset_info') + cy.intercept('**/discover/**').as('discover') + cy.intercept('**/image_search/**').as('image_search') + }) + + it("Should test the SideBar browser functionality", () => { + // Mock search history + cy.clearLocalStorage().then(() => { + window.localStorage.setItem( + "sparc.science-sidebar-search-history", + JSON.stringify(searchHistory) + ) + }) + + // see: https://on.cypress.io/mounting-vue + cy.mount(SideBar, { + props: { + envVars: { + API_LOCATION: Cypress.env("API_LOCATION"), + ALGOLIA_KEY: Cypress.env("ALGOLIA_KEY"), + ALGOLIA_ID: Cypress.env("ALGOLIA_ID"), + ALGOLIA_INDEX: Cypress.env("ALGOLIA_INDEX"), + PENNSIEVE_API_LOCATION: Cypress.env("PENNSIEVE_API_LOCATION"), + BL_SERVER_URL: Cypress.env("BL_SERVER_URL"), + NL_LINK_PREFIX: Cypress.env("NL_LINK_PREFIX"), + ROOT_URL: Cypress.env("ROOT_URL"), + }, + }, + }) + + cy.get(".open-tab").should("exist").click() + + cy.wait(['@dataset_info', '@discover', '@image_search'], { timeout: 20000 }) + + // Sidebar should be visible and have close tab + cy.get('.tab-container').should('not.exist') + cy.get(".close-tab").should("exist") + cy.get(".sidebar-container").should("be.visible") + + // Default 10 dataset cards should be loaded + cy.get(".dataset-card-container").should("have.length", 10) + + // Search history should be loaded + cy.get(".history-container > .search-tag").should("have.length", 3) + + // Search history should be clickable and filter the dataset cards + cy.get(".history-container > .search-tag").contains("heart").click() + cy.get('.header > .el-input > .el-input__wrapper > .el-input__inner').invoke('val').then(($input) => { + expect($input).to.equal('heart') + }) + cy.get('.history-container > .el-select > .el-select__wrapper').click() + cy.get('.history-container > .search-select > transition-stub > .sidebar-search-select-popper').as('fullHistory') + cy.get('@fullHistory').should('be.visible') + cy.get('@fullHistory').contains('scaffold').click() + cy.get('.header > .el-input > .el-input__wrapper > .el-input__inner').invoke('val').then(($input) => { + expect($input).to.equal('scaffold') + }) + + // Filter tags should be added and removed + cy.get('.ml-2 > .el-tag').should('not.exist') + cy.get('.el-cascader > .el-input > .el-input__wrapper').click() + cy.get(':nth-child(1) > .el-cascader-menu__wrap > .el-scrollbar__view').contains('Sex').click() + cy.get(':nth-child(2) > .el-cascader-menu__wrap > .el-scrollbar__view').contains('Male').click() + cy.get('.ml-2 > .el-tag').should('exist').and('contain', 'Male') + cy.get('.ml-2 > .el-tag > .el-tag__close').click() + cy.get('.ml-2 > .el-tag').should('not.exist') + + // Dataset card content should be loaded + cy.get(':nth-child(1) > .dataset-card-container > .dataset-card > :nth-child(2) > .card-left > .full-size > .gallery > .gallery-strip > .card-line > .key-image-span > .el-card > .el-card__body > :nth-child(1) > .cursor-pointer > img').should('exist') + cy.get(':nth-child(1) > .dataset-card-container > .dataset-card > :nth-child(2) > .card-left > .full-size > .gallery > .gallery-strip > .card-line > .key-image-span > .el-card > .el-card__body > :nth-child(1) > .details > .el-button').should('exist') + cy.get(':nth-child(1) > .dataset-card-container > .dataset-card > :nth-child(2) > .card-right > .title').should('exist') + cy.get(':nth-child(1) > .dataset-card-container > .dataset-card > :nth-child(2) > .card-right > :nth-child(2)').should('exist') + }) + + it("Should test the Provenance Card functionality", () => { + cy.fixture('neuronInfo.json').as('neuronInfo'); + + // Pass provenance card data to SideBar + cy.get('@neuronInfo').then((neuronInfo) => { + cy.mount(SideBar, { + props: { + envVars: { + API_LOCATION: Cypress.env("API_LOCATION"), + ALGOLIA_KEY: Cypress.env("ALGOLIA_KEY"), + ALGOLIA_ID: Cypress.env("ALGOLIA_ID"), + ALGOLIA_INDEX: Cypress.env("ALGOLIA_INDEX"), + PENNSIEVE_API_LOCATION: Cypress.env("PENNSIEVE_API_LOCATION"), + BL_SERVER_URL: Cypress.env("BL_SERVER_URL"), + NL_LINK_PREFIX: Cypress.env("NL_LINK_PREFIX"), + ROOT_URL: Cypress.env("ROOT_URL"), + }, + connectivityInfo: neuronInfo, + openAtStart: true, + activeTabId: 2, + }, + }) + }).as('wrapper') + + // Sidebar Connectivity tab should be activated when neuron is clicked + cy.get('.tab-container').should('exist') + cy.get(':nth-child(1) > .title-text-table > .title-text').should('exist').and('contain', 'Search').as('Search') + cy.get('.active-tab > .title-text-table > .title-text').should('exist').and('contain', 'Connectivity').as('Connectivity') + cy.get('.active-tab > .el-button > :nth-child(1)').should('exist').as('CloseConnectivity') + + cy.get('@neuronInfo').then((neuronInfo) => { + cy.get('.block > .title').contains(new RegExp(neuronInfo.name, 'i')).should('exist') + if ('origins' in neuronInfo) { + cy.get('.attribute-title-container').contains(/ORIGIN/i).should('exist').as('origins') + cy.get('@origins').parent().siblings('.attribute-content').should('have.length', neuronInfo.origins.length) + } + if ('components' in neuronInfo) { + cy.get('.attribute-title-container').contains(/COMPONENTS/i).should('exist').as('components') + cy.get('@components').parent().siblings('.attribute-content').should('have.length', neuronInfo.components.length) + } + if ('destinations' in neuronInfo) { + cy.get('.attribute-title-container').contains(/DESTINATION/i).should('exist').as('destinations') + cy.get('@destinations').parent().siblings('.attribute-content').should('have.length', neuronInfo.destinations.length) + } + }) + + // Click event in Provenance card should behave correctly + cy.get('@wrapper').then(({ wrapper, component }) => { + // Click on tabs + cy.get('@Search').click().then(() => { + expect(wrapper.emitted()['tabClicked'][0]).to.deep.equal([{ id: 1, type: 'search' }]) // Switch to Search + }) + cy.get('@Connectivity').click().then(() => { + expect(wrapper.emitted()['tabClicked'][1]).to.deep.equal([{ id: 2, type: 'connectivity' }]) // Switch to Connectivity + }) + cy.get('@CloseConnectivity').click().then(() => { + expect(wrapper.emitted()['connectivity-info-close']).to.exist // Close Connectivity + }) + + // Click on buttons + cy.window().then((window) => { + cy.stub(window, 'open').as('Open') + }) + cy.get('#open-pubmed-button').should('exist').click() + cy.get('@neuronInfo').then((neuronInfo) => { + cy.get('@Open').should('have.been.calledOnceWithExactly', Cypress.sinon.match(neuronInfo.hyperlinks[0].url), '_blank') + }) + + cy.get('.connectivity-info-title > :nth-child(2) > .el-button').click() + cy.get('#open-dendrites-button').should('exist').click() + cy.get('.el-button').contains('Explore destination data').should('exist').click() + cy.get('.el-button').contains('Search for data on components').should('exist').click() + + cy.then(() => { + // The emit order will follow the clicked order + cy.get('@neuronInfo').then((neuronInfo) => { + expect(wrapper.emitted()['show-connectivity'][0][0]).to.deep.equal(neuronInfo.featureId) + const getName = (entries) => entries.map((entry) => entry.name.toLowerCase()) + expect(wrapper.emitted()['actionClick'][0][0]['labels']).to.deep.equal(getName(neuronInfo.originsWithDatasets)) + expect(wrapper.emitted()['actionClick'][1][0]['labels']).to.deep.equal(getName(neuronInfo.destinationsWithDatasets)) + expect(wrapper.emitted()['actionClick'][2][0]['labels']).to.deep.equal(getName(neuronInfo.componentsWithDatasets)) + }) + }) + }) + }) +}) diff --git a/cypress/fixtures/example.json b/cypress/fixtures/example.json new file mode 100644 index 00000000..02e42543 --- /dev/null +++ b/cypress/fixtures/example.json @@ -0,0 +1,5 @@ +{ + "name": "Using fixtures to represent data", + "email": "hello@cypress.io", + "body": "Fixtures are a great way to mock data for responses to routes" +} diff --git a/cypress/fixtures/neuronInfo.json b/cypress/fixtures/neuronInfo.json new file mode 100644 index 00000000..bb29b2ec --- /dev/null +++ b/cypress/fixtures/neuronInfo.json @@ -0,0 +1,55 @@ +{ + "destinations": [ + "uterus", + "uterine cervix", + "nucleus of solitary tract" + ], + "origins": [ + "inferior vagus X ganglion" + ], + "components": [ + "vagus nerve" + ], + "destinationsWithDatasets": [ + { + "id": "UBERON:0000002", + "name": "uterine cervix" + }, + { + "id": "UBERON:0000995", + "name": "uterus" + }, + { + "id": "UBERON:0009050", + "name": "nucleus of solitary tract" + } + ], + "originsWithDatasets": [ + { + "id": "UBERON:0005363", + "name": "inferior vagus X ganglion" + } + ], + "componentsWithDatasets": [ + { + "id": "UBERON:0001759", + "name": "vagus nerve" + } + ], + "title": "nodose ganglion with axon sensory terminal in uterus or uterine cervix via abdominal vagal nerve with axon terminal in nucleus of the tractus solitarius via vagus nerve", + "featureId": [ + "ilxtr:sparc-nlp/femrep/64" + ], + "hyperlinks": [ + { + "url": "https://pubmed.ncbi.nlm.nih.gov/?term=%2F%2Fdoi.org%2F10.1016%2F0196-9781%2885%2990306-7%2C%2F%2Fdx.doi.org%2F10.1007%2Fs004410051211%2C%2F%2Fdoi.org%2F10.1016%2F0361-9230%2890%2990221-K%2C%2F%2Fdoi.org%2F10.1016%2Fj.autneu.2014.11.009%2C%2F%2Fdoi.org%2F10.1016%2F0006-8993%2895%2901312-1", + "id": "pubmed" + } + ], + "provenanceTaxonomy": [ + "NCBITaxon:10116" + ], + "provenanceTaxonomyLabel": [ + "Rattus norvegicus" + ] +} \ No newline at end of file diff --git a/cypress/support/commands.js b/cypress/support/commands.js new file mode 100644 index 00000000..698b01a4 --- /dev/null +++ b/cypress/support/commands.js @@ -0,0 +1,37 @@ +/// +// *********************************************** +// This example commands.ts shows you how to +// create various custom commands and overwrite +// existing commands. +// +// For more comprehensive examples of custom +// commands please read more here: +// https://on.cypress.io/custom-commands +// *********************************************** +// +// +// -- This is a parent command -- +// Cypress.Commands.add('login', (email, password) => { ... }) +// +// +// -- This is a child command -- +// Cypress.Commands.add('drag', { prevSubject: 'element'}, (subject, options) => { ... }) +// +// +// -- This is a dual command -- +// Cypress.Commands.add('dismiss', { prevSubject: 'optional'}, (subject, options) => { ... }) +// +// +// -- This will overwrite an existing command -- +// Cypress.Commands.overwrite('visit', (originalFn, url, options) => { ... }) +// +// declare global { +// namespace Cypress { +// interface Chainable { +// login(email: string, password: string): Chainable +// drag(subject: string, options?: Partial): Chainable +// dismiss(subject: string, options?: Partial): Chainable +// visit(originalFn: CommandOriginalFn, url: string, options: Partial): Chainable +// } +// } +// } \ No newline at end of file diff --git a/cypress/support/component-index.html b/cypress/support/component-index.html new file mode 100644 index 00000000..ac6e79fd --- /dev/null +++ b/cypress/support/component-index.html @@ -0,0 +1,12 @@ + + + + + + + Components App + + +
+ + \ No newline at end of file diff --git a/cypress/support/component.js b/cypress/support/component.js new file mode 100644 index 00000000..ec7d6519 --- /dev/null +++ b/cypress/support/component.js @@ -0,0 +1,31 @@ +// *********************************************************** +// This example support/component.ts is processed and +// loaded automatically before your test files. +// +// This is a great place to put global configuration and +// behavior that modifies Cypress. +// +// You can change the location of this file or turn off +// automatically serving support files with the +// 'supportFile' configuration option. +// +// You can read more here: +// https://on.cypress.io/configuration +// *********************************************************** + +// Import commands.js using ES2015 syntax: +import './commands' + +// Alternatively you can use CommonJS syntax: +// require('./commands') + +import { mount } from 'cypress/vue' + +// Augment the Cypress namespace to include type definitions for +// your custom command. +// with a at the top of your spec. + +Cypress.Commands.add('mount', mount) + +// Example use: +// cy.mount(MyComponent) \ No newline at end of file diff --git a/package-lock.json b/package-lock.json index 9c199c94..3b08827c 100644 --- a/package-lock.json +++ b/package-lock.json @@ -1,12 +1,12 @@ { "name": "@abi-software/map-side-bar", - "version": "2.2.0", + "version": "2.2.1-beta.5", "lockfileVersion": 3, "requires": true, "packages": { "": { "name": "@abi-software/map-side-bar", - "version": "2.2.0", + "version": "2.2.1-beta.5", "dependencies": { "@abi-software/gallery": "^1.1.0", "@abi-software/svg-sprite": "^1.0.0", @@ -28,9 +28,13 @@ "autoprefixer": "^10.4.17", "chokidar": "^3.6.0", "concurrently": "^8.2.2", + "cypress": "^13.13.0", + "cypress-multi-reporters": "^1.6.4", + "cypress-wait-until": "^3.0.1", "eslint": "^8.56.0", "eslint-plugin-vue": "^9.19.2", "file-loader": "^5.0.2", + "mochawesome": "^7.1.3", "raw-loader": "^0.5.1", "sass": "^1.70.0", "transform-loader": "^0.2.4", @@ -514,6 +518,16 @@ "node": ">=6.9.0" } }, + "node_modules/@colors/colors": { + "version": "1.5.0", + "resolved": "https://registry.npmjs.org/@colors/colors/-/colors-1.5.0.tgz", + "integrity": "sha512-ooWCrlZP11i8GImSjTHYHLkvFDP48nS4+204nGb1RiX/WXYHmJA2III9/e2DWVabCESdW7hBAEzHRqUn9OUVvQ==", + "dev": true, + "optional": true, + "engines": { + "node": ">=0.1.90" + } + }, "node_modules/@ctrl/tinycolor": { "version": "3.6.1", "resolved": "https://registry.npmjs.org/@ctrl/tinycolor/-/tinycolor-3.6.1.tgz", @@ -522,6 +536,68 @@ "node": ">=10" } }, + "node_modules/@cypress/request": { + "version": "3.0.1", + "resolved": "https://registry.npmjs.org/@cypress/request/-/request-3.0.1.tgz", + "integrity": "sha512-TWivJlJi8ZDx2wGOw1dbLuHJKUYX7bWySw377nlnGOW3hP9/MUKIsEdXT/YngWxVdgNCHRBmFlBipE+5/2ZZlQ==", + "dev": true, + "dependencies": { + "aws-sign2": "~0.7.0", + "aws4": "^1.8.0", + "caseless": "~0.12.0", + "combined-stream": "~1.0.6", + "extend": "~3.0.2", + "forever-agent": "~0.6.1", + "form-data": "~2.3.2", + "http-signature": "~1.3.6", + "is-typedarray": "~1.0.0", + "isstream": "~0.1.2", + "json-stringify-safe": "~5.0.1", + "mime-types": "~2.1.19", + "performance-now": "^2.1.0", + "qs": "6.10.4", + "safe-buffer": "^5.1.2", + "tough-cookie": "^4.1.3", + "tunnel-agent": "^0.6.0", + "uuid": "^8.3.2" + }, + "engines": { + "node": ">= 6" + } + }, + "node_modules/@cypress/request/node_modules/form-data": { + "version": "2.3.3", + "resolved": "https://registry.npmjs.org/form-data/-/form-data-2.3.3.tgz", + "integrity": "sha512-1lLKB2Mu3aGP1Q/2eCOx0fNbRMe7XdwktwOruhfqqd0rIJWwN4Dh+E3hrPSlDCXnSR7UtZ1N38rVXm+6+MEhJQ==", + "dev": true, + "dependencies": { + "asynckit": "^0.4.0", + "combined-stream": "^1.0.6", + "mime-types": "^2.1.12" + }, + "engines": { + "node": ">= 0.12" + } + }, + "node_modules/@cypress/xvfb": { + "version": "1.2.4", + "resolved": "https://registry.npmjs.org/@cypress/xvfb/-/xvfb-1.2.4.tgz", + "integrity": "sha512-skbBzPggOVYCbnGgV+0dmBdW/s77ZkAOXIC1knS8NagwDjBrNC1LuXtQJeiN6l+m7lzmHtaoUw/ctJKdqkG57Q==", + "dev": true, + "dependencies": { + "debug": "^3.1.0", + "lodash.once": "^4.1.1" + } + }, + "node_modules/@cypress/xvfb/node_modules/debug": { + "version": "3.2.7", + "resolved": "https://registry.npmjs.org/debug/-/debug-3.2.7.tgz", + "integrity": "sha512-CFjzYYAi4ThfiQvizrFQevTTXHtnCqWfe7x1AhgEscTz6ZbLbfoLRLPugTQyBth6f8ZERVUSyWHFD/7Wu4t1XQ==", + "dev": true, + "dependencies": { + "ms": "^2.1.1" + } + }, "node_modules/@docsearch/css": { "version": "3.6.0", "resolved": "https://registry.npmjs.org/@docsearch/css/-/css-3.6.0.tgz", @@ -1461,16 +1537,37 @@ "resolved": "https://registry.npmjs.org/@types/node/-/node-20.12.3.tgz", "integrity": "sha512-sD+ia2ubTeWrOu+YMF+MTAB7E+O7qsMqAbMfW7DG3K1URwhZ5hN1pLlRVGbf4wDFzSfikL05M17EyorS86jShw==", "dev": true, - "peer": true, "dependencies": { "undici-types": "~5.26.4" } }, + "node_modules/@types/sinonjs__fake-timers": { + "version": "8.1.1", + "resolved": "https://registry.npmjs.org/@types/sinonjs__fake-timers/-/sinonjs__fake-timers-8.1.1.tgz", + "integrity": "sha512-0kSuKjAS0TrGLJ0M/+8MaFkGsQhZpB6pxOmvS3K8FYI72K//YmdfoW9X2qPsAKh1mkwxGD5zib9s1FIFed6E8g==", + "dev": true + }, + "node_modules/@types/sizzle": { + "version": "2.3.8", + "resolved": "https://registry.npmjs.org/@types/sizzle/-/sizzle-2.3.8.tgz", + "integrity": "sha512-0vWLNK2D5MT9dg0iOo8GlKguPAU02QjmZitPEsXRuJXU/OGIOt9vT9Fc26wtYuavLxtO45v9PGleoL9Z0k1LHg==", + "dev": true + }, "node_modules/@types/web-bluetooth": { "version": "0.0.16", "resolved": "https://registry.npmjs.org/@types/web-bluetooth/-/web-bluetooth-0.0.16.tgz", "integrity": "sha512-oh8q2Zc32S6gd/j50GowEjKLoOVOwHP/bWVjKJInBwQqdOYMdPrf1oVlelTlyfFK3CKxL1uahMDAr+vy8T7yMQ==" }, + "node_modules/@types/yauzl": { + "version": "2.10.3", + "resolved": "https://registry.npmjs.org/@types/yauzl/-/yauzl-2.10.3.tgz", + "integrity": 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"src/*", @@ -12,7 +12,8 @@ "serve": "vite --host", "build-bundle": "vite build", "preview": "vite preview", - "lint": "eslint --ext .js,.vue --ignore-path .gitignore --fix src", + "test": "cypress run --component", + "cypress:open": "cypress open", "release:beta": "npm version prerelease --preid=beta; npm publish --tag beta", "release:minor": "npm version minor; npm publish", "release:patch": "npm version patch; npm publish", @@ -57,8 +58,12 @@ "autoprefixer": "^10.4.17", "chokidar": "^3.6.0", "concurrently": "^8.2.2", + "cypress": "^13.13.0", + "cypress-multi-reporters": "^1.6.4", + "cypress-wait-until": "^3.0.1", "eslint": "^8.56.0", "eslint-plugin-vue": "^9.19.2", + "mochawesome": "^7.1.3", "file-loader": "^5.0.2", "raw-loader": "^0.5.1", "sass": "^1.70.0", diff --git a/reporter-config.json b/reporter-config.json new file mode 100644 index 00000000..a3b713a3 --- /dev/null +++ b/reporter-config.json @@ -0,0 +1,10 @@ +{ + "reporterEnabled": "mochawesome", + "mochawesomeReporterOptions": { + "reportDir": "cypress/reports/mocha", + "quiet": true, + "overwrite": false, + "html": true, + "json": true + } +} \ No newline at end of file diff --git a/src/App.vue b/src/App.vue index 2bec38fd..1258c40c 100644 --- a/src/App.vue +++ b/src/App.vue @@ -21,7 +21,8 @@ ref="sideBar" :visible="sideBarVisibility" :tabs="tabs" - :activeId="activeId" + :activeTabId="activeId" + :connectivityInfo="connectivityInput" @tabClicked="tabClicked" @search-changed="searchChanged($event)" @hover-changed="hoverChanged($event)" @@ -35,6 +36,9 @@ // optionally import default styles import SideBar from './components/SideBar.vue' import EventBus from './components/EventBus.js' +import exampleConnectivityInput from './exampleConnectivityInput.js' + +const capitalise = (str) => str.charAt(0).toUpperCase() + str.slice(1); // let testContext = { // "description": "3D digital tracings of the enteric plexus obtained from seven subjects (M11, M16, M162, M163, M164, M168) are mapped randomly on mouse proximal colon. The data depicts individual neural wiring patterns in enteric microcircuits, and revealed both neuron and fiber units wired in a complex organization.", @@ -96,8 +100,8 @@ export default { }, data: function () { return { - tabArray: [{ title: 'Flatmap', id: 1 }], - contextArray: [null, null, null], + contextArray: [null, null], + tabArray: [{ title: 'Flatmap', id: 1, type: 'search'}, { title: 'Connectivity', id: 2, type: 'connectivity' }], sideBarVisibility: true, envVars: { API_LOCATION: import.meta.env.VITE_APP_API_LOCATION, @@ -109,6 +113,7 @@ export default { NL_LINK_PREFIX: import.meta.env.VITE_APP_NL_LINK_PREFIX, ROOT_URL: import.meta.env.VITE_APP_ROOT_URL, }, + connectivityInput: exampleConnectivityInput, activeId: 1, } }, @@ -119,11 +124,24 @@ export default { searchChanged: function (data) { console.log(data) }, - tabClicked: function (id) { - this.activeId = id + tabClicked: function (tab) { + this.activeId = tab.id }, - action: function (val) { - console.log('action fired: ', val) + // For connectivity input actions + action: function (action) { + console.log('action fired: ', action) + let facets = []; + facets.push( + ...action.labels.map(val => ({ + facet: capitalise(val), + term: "Anatomical structure", + facetPropPath: "anatomy.organ.category.name", + })) + ); + if (this.$refs.sideBar) { + console.log('openSearch', facets) + this.$refs.sideBar.openSearch(facets, ""); + } }, openSearch: function () { this.$refs.sideBar.openSearch( diff --git a/src/algolia/utils.js b/src/algolia/utils.js index f173cc13..bd532c22 100644 --- a/src/algolia/utils.js +++ b/src/algolia/utils.js @@ -93,7 +93,6 @@ export function getFilters(selectedFacetArray=undefined) { filters = filters.split('()AND ').join(''); // Handle case where there where no OR facets }); - console.log('filters about to be applied:', filters) return filters.substring(0, filters.lastIndexOf(" AND ")); } diff --git a/src/components.d.ts b/src/components.d.ts index ecc910aa..583bc660 100644 --- a/src/components.d.ts +++ b/src/components.d.ts @@ -8,6 +8,7 @@ export {} declare module 'vue' { export interface GlobalComponents { BadgesGroup: typeof import('./components/BadgesGroup.vue')['default'] + ConnectivityInfo: typeof import('./components/ConnectivityInfo.vue')['default'] DatasetCard: typeof import('./components/DatasetCard.vue')['default'] ElButton: typeof import('element-plus/es')['ElButton'] ElCard: typeof import('element-plus/es')['ElCard'] @@ -16,12 +17,14 @@ declare module 'vue' { ElIcon: typeof import('element-plus/es')['ElIcon'] ElIconArrowLeft: typeof import('@element-plus/icons-vue')['ArrowLeft'] ElIconArrowRight: typeof import('@element-plus/icons-vue')['ArrowRight'] + ElIconWarning: typeof import('@element-plus/icons-vue')['Warning'] ElInput: typeof import('element-plus/es')['ElInput'] ElOption: typeof import('element-plus/es')['ElOption'] ElPagination: typeof import('element-plus/es')['ElPagination'] ElPopover: typeof import('element-plus/es')['ElPopover'] ElSelect: typeof import('element-plus/es')['ElSelect'] ElTag: typeof import('element-plus/es')['ElTag'] + ExternalResourceCard: typeof import('./components/ExternalResourceCard.vue')['default'] ImageGallery: typeof import('./components/ImageGallery.vue')['default'] SearchFilters: typeof import('./components/SearchFilters.vue')['default'] SearchHistory: typeof import('./components/SearchHistory.vue')['default'] diff --git a/src/components/ConnectivityInfo.vue b/src/components/ConnectivityInfo.vue new file mode 100644 index 00000000..d4120bf8 --- /dev/null +++ b/src/components/ConnectivityInfo.vue @@ -0,0 +1,619 @@ + + + + + diff --git a/src/components/ExternalResourceCard.vue b/src/components/ExternalResourceCard.vue new file mode 100644 index 00000000..15ffe876 --- /dev/null +++ b/src/components/ExternalResourceCard.vue @@ -0,0 +1,113 @@ + + + + + diff --git a/src/components/SearchFilters.vue b/src/components/SearchFilters.vue index 48e58d98..d1778c44 100644 --- a/src/components/SearchFilters.vue +++ b/src/components/SearchFilters.vue @@ -118,6 +118,7 @@ import '@abi-software/svg-sprite/dist/style.css' import { AlgoliaClient } from '../algolia/algolia.js' import { facetPropPathMapping } from '../algolia/utils.js' +import EventBus from './EventBus.js' const capitalise = function (txt) { return txt.charAt(0).toUpperCase() + txt.slice(1) @@ -217,6 +218,7 @@ export default { .getAlgoliaFacets(facetPropPathMapping) .then((data) => { this.facets = data + EventBus.emit('available-facets', data) this.options = data // create top level of options in cascader @@ -793,10 +795,14 @@ export default { diff --git a/src/components/SidebarContent.vue b/src/components/SidebarContent.vue index 271e9203..3352cb91 100644 --- a/src/components/SidebarContent.vue +++ b/src/components/SidebarContent.vue @@ -504,6 +504,15 @@ export default { border: solid 1px #292b66; background-color: #292b66; text-align: left; + + .el-button { + &:hover, + &:focus { + background: $app-primary-color; + box-shadow: -3px 2px 4px #00000040; + color: #fff; + } + } } .pagination { @@ -532,16 +541,17 @@ export default { .content-card :deep(.el-card__header) { background-color: #292b66; - border: solid 1px #292b66; + padding: 1rem; } .content-card :deep(.el-card__body) { background-color: #f7faff; overflow-y: hidden; + padding: 1rem; } .content { - width: 515px; + // width: 515px; flex: 1 1 auto; box-shadow: 0 2px 12px 0 rgba(0, 0, 0, 0.06); border: solid 1px #e4e7ed; diff --git a/src/components/Tabs.vue b/src/components/Tabs.vue index d1430eb6..83cc9e89 100644 --- a/src/components/Tabs.vue +++ b/src/components/Tabs.vue @@ -1,15 +1,29 @@ @@ -30,28 +44,34 @@ export default { }, }, methods: { - titleClicked: function (id) { - this.$emit('titleClicked', id) + titleClicked: function (id, type) { + this.$emit('titleClicked', {id, type}) + }, + tabClose: function (id) { + this.$emit('tab-close', id); }, }, } diff --git a/src/exampleConnectivityInput.js b/src/exampleConnectivityInput.js new file mode 100644 index 00000000..6d73e2bb --- /dev/null +++ b/src/exampleConnectivityInput.js @@ -0,0 +1,292 @@ +export default { + "destinations": [ + "Fifth thoracic ganglion", + "ventricular intrinsic cardiac ganglion", + "Sixth thoracic ganglion", + "superior cervical ganglion", + "T1 sympathetic ganglion", + "Second thoracic ganglion", + "Third thoracic ganglion", + "mediastinal ganglion", + "Fourth thoracic ganglion", + "inferior cervical ganglion", + "middle cervical ganglion", + "Atrial intrinsic cardiac ganglion" + ], + "origins": [ + "lamina VII of gray matter of spinal cord, first thoracic spinal cord segment", + "lamina VII of gray matter of spinal cord, fourth thoracic spinal cord segment", + "lamina VII of gray matter of spinal cord, sixth thoracic spinal cord segment", + "lamina VII of gray matter of spinal cord, C8 segment of cervical spinal cord", + "lamina VII of gray matter of spinal cord, third thoracic spinal cord segment", + "lamina VII of gray matter of spinal cord, second thoracic spinal cord segment", + "lamina VII of gray matter of spinal cord, fifth thoracic spinal cord segment" + ], + "components": [ + "third thoracic spinal cord segment", + "ansa subclavia", + "T3 - T4 Interganglionic segment", + "vago-sympathetic trunk", + "T1 - T2 Interganglionic segment", + "epicardial fat, heart", + "White communicating ramus of sixth thoracic anterior ramus", + "C8 segment of cervical spinal cord", + "ventral nerve root of cervical spinal cord", + "T2 - T3 Interganglionic segment", + "Anterior root of third thoracic nerve", + "White communicating ramus of third thoracic anterior ramus", + "White communicating ramus of fourth thoracic anterior ramus", + "Anterior root of sixth thoracic nerve", + "Anterior root of fourth thoracic nerve", + "fourth thoracic spinal cord segment", + "Interganglionic branch of inferior cervical ganglion to vertebral ganglion", + "T4 - T5 Interganglionic segment", + "T5 - T6 Interganglionic segment", + "second thoracic spinal cord segment", + "Anterior root of second thoracic nerve", + "fifth thoracic spinal cord segment", + "Anterior root of fifth sacral nerve", + "Interganglionic branch of inferior cervical ganglion to middle cervical ganglion", + "sixth thoracic spinal cord segment", + "Interganglionic branch of inferior cervical ganglion to first thoracic ganglion", + "Anterior root of first thoracic nerve", + "Anterior root of fifth thoracic nerve", + "White communicating ramus of second thoracic anterior ramus", + "White communicating ramus of fifth thoracic anterior ramus", + "first thoracic spinal cord segment" + ], + "destinationsWithDatasets": [ + { + "id": "ILX:0774266", + "name": "T1 sympathetic ganglion" + }, + { + "id": "ILX:0786141", + "name": "Fifth thoracic ganglion" + }, + { + "id": "ILX:0786228", + "name": "Second thoracic ganglion" + }, + { + "id": "ILX:0786272", + "name": "Fourth thoracic ganglion" + }, + { + "id": "ILX:0786722", + "name": "Third thoracic ganglion" + }, + { + "id": "ILX:0789947", + "name": "Sixth thoracic ganglion" + }, + { + "id": "ILX:0793550", + "name": "mediastinal ganglion" + }, + { + "id": "ILX:0793555", + "name": "Atrial intrinsic cardiac ganglion" + }, + { + "id": "ILX:0793556", + "name": "ventricular intrinsic cardiac ganglion" + }, + { + "id": "UBERON:0001989", + "name": "superior cervical ganglion" + }, + { + "id": "UBERON:0001990", + "name": "middle cervical ganglion" + }, + { + "id": "UBERON:0002440", + "name": "inferior cervical ganglion" + } + ], + "originsWithDatasets": [ + { + "id": "UBERON:0006452", + "name": "fourth thoracic spinal cord segment" + }, + { + "id": "UBERON:0006453", + "name": "fifth thoracic spinal cord segment" + }, + { + "id": "UBERON:0006454", + "name": "sixth thoracic spinal cord segment" + }, + { + "id": "UBERON:0006457", + "name": "first thoracic spinal cord segment" + }, + { + "id": "UBERON:0006458", + "name": "second thoracic spinal cord segment" + }, + { + "id": "UBERON:0006459", + "name": "third thoracic spinal cord segment" + }, + { + "id": "UBERON:0006470", + "name": "C8 segment of cervical spinal cord" + }, + { + "id": "UBERON:0016578", + "name": "lamina VII of gray matter of spinal cord" + } + ], + "componentsWithDatasets": [ + { + "id": "ILX:0739241", + "name": "ansa subclavia" + }, + { + "id": "ILX:0777094", + "name": "T1 - T2 Interganglionic segment" + }, + { + "id": "ILX:0777095", + "name": "T2 - T3 Interganglionic segment" + }, + { + "id": "ILX:0777096", + "name": "T3 - T4 Interganglionic segment" + }, + { + "id": "ILX:0777097", + "name": "T4 - T5 Interganglionic segment" + }, + { + "id": "ILX:0777098", + "name": "T5 - T6 Interganglionic segment" + }, + { + "id": "ILX:0784804", + "name": "Anterior root of third thoracic nerve" + }, + { + "id": "ILX:0785971", + "name": "Anterior root of fifth sacral nerve" + }, + { + "id": "ILX:0787722", + "name": "Anterior root of first thoracic nerve" + }, + { + "id": "ILX:0789894", + "name": "Anterior root of second thoracic nerve" + }, + { + "id": "ILX:0790146", + "name": "Anterior root of fifth thoracic nerve" + }, + { + "id": "ILX:0791062", + "name": "Anterior root of sixth thoracic nerve" + }, + { + "id": "ILX:0792838", + "name": "Anterior root of fourth thoracic nerve" + }, + { + "id": "ILX:0793208", + "name": "White communicating ramus of second thoracic anterior ramus" + }, + { + "id": "ILX:0793209", + "name": "White communicating ramus of third thoracic anterior ramus" + }, + { + "id": "ILX:0793210", + "name": "White communicating ramus of fourth thoracic anterior ramus" + }, + { + "id": "ILX:0793211", + "name": "White communicating ramus of fifth thoracic anterior ramus" + }, + { + "id": "ILX:0793212", + "name": "White communicating ramus of sixth thoracic anterior ramus" + }, + { + "id": "ILX:0793233", + "name": "Interganglionic branch of inferior cervical ganglion to first thoracic ganglion" + }, + { + "id": "ILX:0793234", + "name": "Interganglionic branch of inferior cervical ganglion to middle cervical ganglion" + }, + { + "id": "ILX:0793363", + "name": "Interganglionic branch of inferior cervical ganglion to vertebral ganglion" + }, + { + "id": "UBERON:0000948", + "name": "heart" + }, + { + "id": "UBERON:0006452", + "name": "fourth thoracic spinal cord segment" + }, + { + "id": "UBERON:0006453", + "name": "fifth thoracic spinal cord segment" + }, + { + "id": "UBERON:0006454", + "name": "sixth thoracic spinal cord segment" + }, + { + "id": "UBERON:0006457", + "name": "first thoracic spinal cord segment" + }, + { + "id": "UBERON:0006458", + "name": "second thoracic spinal cord segment" + }, + { + "id": "UBERON:0006459", + "name": "third thoracic spinal cord segment" + }, + { + "id": "UBERON:0006470", + "name": "C8 segment of cervical spinal cord" + }, + { + "id": "UBERON:0014634", + "name": "ventral nerve root of cervical spinal cord" + }, + { + "id": "UBERON:0015129", + "name": "epicardial fat" + }, + { + "id": "ilxtr:vago-sympathetic-trunk", + "name": "vago-sympathetic trunk" + } + ], + "title": "neuron type aacar 5", + "featureId": [ + "ilxtr:neuron-type-aacar-5" + ], + "hyperlinks": [ + { + "url": "https://pubmed.ncbi.nlm.nih.gov/?term=%2F%2Fwww.ncbi.nlm.nih.gov%2Fpubmed%2F27783854", + "id": "pubmed" + } + ], + "provenanceTaxonomy": [ + "NCBITaxon:9606", + "NCBITaxon:9615", + "NCBITaxon:9825" + ], + "provenanceTaxonomyLabel": [ + "Homo sapiens", + "Canis lupus familiaris", + "Domestic Pig" + ] +} \ No newline at end of file