diff --git a/cypress/fixtures/test-canvas_hr.png b/cypress/fixtures/test-canvas_hr.png index 0bbb91e7..40297021 100644 Binary files a/cypress/fixtures/test-canvas_hr.png and b/cypress/fixtures/test-canvas_hr.png differ diff --git a/cypress/fixtures/test-canvas_lr.png b/cypress/fixtures/test-canvas_lr.png index 88b8f023..a74b9acf 100644 Binary files a/cypress/fixtures/test-canvas_lr.png and b/cypress/fixtures/test-canvas_lr.png differ diff --git a/package-lock.json b/package-lock.json index 715e2274..b07205d3 100644 --- a/package-lock.json +++ b/package-lock.json @@ -9,7 +9,7 @@ "version": "1.12.2", "license": "Apache-2.0", "dependencies": { - "@abi-software/map-utilities": "^1.7.6", + "@abi-software/map-utilities": "1.7.8-demo.4", "@abi-software/sparc-annotation": "0.3.2", "@abi-software/svg-sprite": "1.0.3", "@element-plus/icons-vue": "^2.3.1", @@ -46,9 +46,9 @@ } }, "node_modules/@abi-software/map-utilities": { - "version": "1.7.6", - "resolved": 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"dependencies": { - "debug": "^3.2.7" - }, - "engines": { - "node": ">=4" - }, - "peerDependenciesMeta": { - "eslint": { - "optional": true - } - } - }, - "node_modules/eslint-module-utils/node_modules/debug": { - "version": "3.2.7", - "license": "MIT", - "dependencies": { - "ms": "^2.1.1" - } - }, "node_modules/eslint-plugin-cypress": { "version": "2.15.2", "dev": true, @@ -3817,187 +3682,6 @@ "url": "https://github.com/sponsors/sindresorhus" } }, - "node_modules/eslint-plugin-es": { - "version": "4.1.0", - "license": "MIT", - "dependencies": { - "eslint-utils": "^2.0.0", - "regexpp": "^3.0.0" - }, - "engines": { - "node": ">=8.10.0" - }, - "funding": { - "url": "https://github.com/sponsors/mysticatea" - }, - "peerDependencies": { - "eslint": ">=4.19.1" - } - }, - "node_modules/eslint-plugin-es/node_modules/eslint-utils": { - "version": "2.1.0", - "license": "MIT", - "dependencies": { - "eslint-visitor-keys": "^1.1.0" - }, - "engines": { - "node": ">=6" - }, - "funding": { - "url": 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"license": "MIT", - "dependencies": { - "eslint-visitor-keys": "^2.0.0" - }, - "engines": { - "node": "^10.0.0 || ^12.0.0 || >= 14.0.0" - }, - "funding": { - "url": "https://github.com/sponsors/mysticatea" - }, - "peerDependencies": { - "eslint": ">=5" - } - }, - "node_modules/eslint-utils/node_modules/eslint-visitor-keys": { - "version": "2.1.0", - "license": "Apache-2.0", - "engines": { - "node": ">=10" - } - }, "node_modules/eslint-visitor-keys": { "version": "1.3.0", + "dev": true, "license": "Apache-2.0", "engines": { "node": ">=4" @@ -4090,6 +3753,7 @@ }, "node_modules/eslint/node_modules/ansi-styles": { "version": "4.3.0", + "dev": true, "license": "MIT", "dependencies": { "color-convert": "^2.0.1" @@ -4103,6 +3767,7 @@ }, "node_modules/eslint/node_modules/chalk": { "version": "4.1.2", + "dev": true, "license": "MIT", "dependencies": { "ansi-styles": "^4.1.0", @@ -4117,6 +3782,7 @@ }, "node_modules/eslint/node_modules/color-convert": { "version": "2.0.1", + "dev": true, "license": "MIT", "dependencies": { "color-name": "~1.1.4" @@ -4127,10 +3793,12 @@ }, "node_modules/eslint/node_modules/color-name": { "version": "1.1.4", + "dev": true, "license": "MIT" }, "node_modules/eslint/node_modules/escape-string-regexp": { "version": "4.0.0", + "dev": true, "license": "MIT", "engines": { "node": ">=10" @@ -4141,6 +3809,7 @@ }, "node_modules/eslint/node_modules/eslint-visitor-keys": { "version": "3.4.3", + "dev": true, "license": "Apache-2.0", "engines": { "node": "^12.22.0 || ^14.17.0 || >=16.0.0" @@ -4151,6 +3820,7 @@ }, "node_modules/eslint/node_modules/find-up": { "version": "5.0.0", + "dev": true, "license": "MIT", "dependencies": { "locate-path": "^6.0.0", @@ -4165,6 +3835,7 @@ }, "node_modules/eslint/node_modules/glob-parent": { "version": "6.0.2", + "dev": true, "license": "ISC", "dependencies": { "is-glob": "^4.0.3" @@ -4175,6 +3846,7 @@ }, "node_modules/eslint/node_modules/globals": { "version": "13.24.0", + "dev": true, "license": "MIT", "dependencies": { "type-fest": "^0.20.2" @@ -4188,6 +3860,7 @@ }, "node_modules/eslint/node_modules/has-flag": { "version": "4.0.0", + "dev": true, "license": "MIT", "engines": { "node": ">=8" @@ -4195,6 +3868,7 @@ }, "node_modules/eslint/node_modules/locate-path": { "version": "6.0.0", + "dev": true, "license": "MIT", "dependencies": { "p-locate": "^5.0.0" @@ -4208,6 +3882,7 @@ }, "node_modules/eslint/node_modules/p-limit": { "version": "3.1.0", + "dev": true, "license": "MIT", "dependencies": { "yocto-queue": "^0.1.0" @@ -4221,6 +3896,7 @@ }, "node_modules/eslint/node_modules/p-locate": { "version": "5.0.0", + "dev": true, "license": "MIT", "dependencies": { "p-limit": "^3.0.2" @@ -4234,6 +3910,7 @@ }, "node_modules/eslint/node_modules/path-exists": { "version": "4.0.0", + "dev": true, "license": "MIT", "engines": { "node": ">=8" @@ -4241,6 +3918,7 @@ }, "node_modules/eslint/node_modules/supports-color": { "version": "7.2.0", + "dev": true, "license": "MIT", "dependencies": { "has-flag": "^4.0.0" @@ -4251,6 +3929,7 @@ }, "node_modules/eslint/node_modules/type-fest": { "version": "0.20.2", + "dev": true, "license": "(MIT OR CC0-1.0)", "engines": { "node": ">=10" @@ -4261,6 +3940,7 @@ }, "node_modules/eslint/node_modules/yocto-queue": { "version": "0.1.0", + "dev": true, "license": "MIT", "engines": { "node": ">=10" @@ -4276,6 +3956,7 @@ }, "node_modules/espree": { "version": "9.6.1", + "dev": true, "license": "BSD-2-Clause", "dependencies": { "acorn": "^8.9.0", @@ -4291,6 +3972,7 @@ }, "node_modules/espree/node_modules/eslint-visitor-keys": { "version": "3.4.3", + "dev": true, "license": "Apache-2.0", "engines": { "node": "^12.22.0 || ^14.17.0 || >=16.0.0" @@ -4313,6 +3995,7 @@ }, "node_modules/esquery": { "version": "1.5.0", + "dev": true, "license": "BSD-3-Clause", "dependencies": { "estraverse": "^5.1.0" @@ -4323,6 +4006,7 @@ }, "node_modules/esrecurse": { "version": "4.3.0", + "dev": true, "license": "BSD-2-Clause", "dependencies": { "estraverse": "^5.2.0" @@ -4333,6 +4017,7 @@ }, "node_modules/estraverse": { "version": "5.3.0", + "dev": true, "license": "BSD-2-Clause", "engines": { "node": ">=4.0" @@ -4344,6 +4029,7 @@ }, "node_modules/esutils": { "version": "2.0.3", + "dev": true, "license": "BSD-2-Clause", "engines": { "node": ">=0.10.0" @@ -4351,7 +4037,8 @@ }, "node_modules/event-target-shim": { "version": "5.0.1", - "license": "MIT", + "resolved": "https://registry.npmjs.org/event-target-shim/-/event-target-shim-5.0.1.tgz", + "integrity": "sha512-i/2XbnSz/uxRCU6+NdVJgKWDTM427+MqYbkQzD321DuCQJUqOuJKIA0IM2+W2xtYHdKOmZ4dR6fExsd4SXL+WQ==", "engines": { "node": ">=6" } @@ -4363,7 +4050,8 @@ }, "node_modules/events": { "version": "3.3.0", - "license": "MIT", + "resolved": "https://registry.npmjs.org/events/-/events-3.3.0.tgz", + "integrity": "sha512-mQw+2fkQbALzQ7V0MY0IqdnXNOeTtP4r0lN9z7AAawCXgqea7bDii20AYrIBrFd/Hx0M2Ocz6S111CaFkUcb0Q==", "engines": { "node": ">=0.8.x" } @@ -4436,6 +4124,7 @@ }, "node_modules/fast-deep-equal": { "version": "3.1.3", + "dev": true, "license": "MIT" }, "node_modules/fast-glob": { @@ -4454,10 +4143,12 @@ }, "node_modules/fast-json-stable-stringify": { "version": "2.1.0", + "dev": true, "license": "MIT" }, "node_modules/fast-levenshtein": { "version": "2.0.6", + "dev": true, "license": "MIT" }, "node_modules/fastq": { @@ -4475,27 +4166,6 @@ "pend": "~1.2.0" } }, - "node_modules/fetch-blob": { - "version": "3.2.0", - "funding": [ - { - "type": "github", - "url": "https://github.com/sponsors/jimmywarting" - }, - { - "type": "paypal", - "url": "https://paypal.me/jimmywarting" - } - ], - "license": "MIT", - "dependencies": { - "node-domexception": "^1.0.0", - "web-streams-polyfill": "^3.0.3" - }, - "engines": { - "node": "^12.20 || >= 14.13" - } - }, "node_modules/figures": { "version": "3.2.0", "dev": true, @@ -4512,6 +4182,7 @@ }, "node_modules/file-entry-cache": { "version": "6.0.1", + "dev": true, "license": "MIT", "dependencies": { "flat-cache": "^3.0.4" @@ -4541,6 +4212,7 @@ }, "node_modules/flat-cache": { "version": "3.2.0", + "dev": true, "license": "MIT", "dependencies": { "flatted": "^3.2.9", @@ -4552,8 +4224,10 @@ } }, "node_modules/flatted": { - "version": "3.3.1", - "license": "ISC" + "version": "3.4.1", + "resolved": "https://registry.npmjs.org/flatted/-/flatted-3.4.1.tgz", + "integrity": "sha512-IxfVbRFVlV8V/yRaGzk0UVIcsKKHMSfYw66T/u4nTwlWteQePsxe//LjudR1AMX4tZW3WFCh3Zqa/sjlqpbURQ==", + "dev": true }, "node_modules/focus-trap": { "version": "7.6.4", @@ -4563,20 +4237,6 @@ "tabbable": "^6.2.0" } }, - "node_modules/for-each": { - "version": "0.3.5", - "resolved": "https://registry.npmjs.org/for-each/-/for-each-0.3.5.tgz", - "integrity": "sha512-dKx12eRCVIzqCxFGplyFKJMPvLEWgmNtUrpTiJIR5u97zEhRG8ySrtboPHZXx7daLxQVrl643cTzbab2tkQjxg==", - "dependencies": { - "is-callable": "^1.2.7" - }, - "engines": { - "node": ">= 0.4" - }, - "funding": { - "url": "https://github.com/sponsors/ljharb" - } - }, "node_modules/foreground-child": { "version": "3.3.1", "dev": 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Please update. Support for old versions may be purchased (at exorbitant rates) by contacting i@izs.me", "dev": true, - "license": "ISC", "peer": true, "dependencies": { "foreground-child": "^3.1.0", @@ -4858,12 +4453,13 @@ } }, "node_modules/glob/node_modules/minimatch": { - "version": "9.0.5", + "version": "9.0.9", + "resolved": "https://registry.npmjs.org/minimatch/-/minimatch-9.0.9.tgz", + "integrity": "sha512-OBwBN9AL4dqmETlpS2zasx+vTeWclWzkblfZk7KTA5j3jeOONz/tRCnZomUyvNg83wL5Zv9Ss6HMJXAgL8R2Yg==", "dev": true, - "license": "ISC", "peer": true, "dependencies": { - "brace-expansion": "^2.0.1" + "brace-expansion": "^2.0.2" }, "engines": { "node": ">=16 || 14 >=14.17" @@ -4894,24 +4490,11 @@ "node": ">=4" } }, - "node_modules/globalthis": { - "version": "1.0.4", - "license": "MIT", - "dependencies": { - "define-properties": "^1.2.1", - "gopd": "^1.0.1" - }, - "engines": { - "node": ">= 0.4" - }, - "funding": { - "url": "https://github.com/sponsors/ljharb" - } - }, "node_modules/gopd": { "version": "1.2.0", "resolved": "https://registry.npmjs.org/gopd/-/gopd-1.2.0.tgz", "integrity": "sha512-ZUKRh6/kUFoAiTAtTYPZJ3hw9wNxx+BIBOijnlG9PnrJsCcSjs1wyyD6vJpaYtgnzDrKYRSqf3OO6Rfa93xsRg==", + "dev": true, "engines": { "node": ">= 0.4" }, @@ -4921,10 +4504,12 @@ }, "node_modules/graceful-fs": { "version": "4.2.11", + "dev": true, "license": "ISC" }, "node_modules/graphemer": { "version": "1.4.0", + "dev": true, "license": "MIT" }, "node_modules/graphlib": { @@ -4955,13 +4540,6 @@ "uglify-js": "^3.1.4" } }, - 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"dependencies": { - "available-typed-arrays": "^1.0.7", - "call-bind": "^1.0.8", - "call-bound": "^1.0.4", - "for-each": "^0.3.5", - "get-proto": "^1.0.1", - "gopd": "^1.2.0", - "has-tostringtag": "^1.0.2" - }, - "engines": { - "node": ">= 0.4" - }, - "funding": { - "url": "https://github.com/sponsors/ljharb" - } - }, "node_modules/with": { "version": "7.0.2", "dev": true, @@ -9565,6 +8101,7 @@ }, "node_modules/word-wrap": { "version": "1.2.5", + "dev": true, "license": "MIT", "engines": { "node": ">=0.10.0" @@ -9680,15 +8217,9 @@ }, "node_modules/wrappy": { "version": "1.0.2", + "dev": true, "license": "ISC" }, - "node_modules/xdg-basedir": { - "version": "4.0.0", - "license": "MIT", - "engines": { - "node": ">=8" - } - }, "node_modules/xml-name-validator": { "version": "4.0.0", "dev": true, @@ -9707,7 +8238,8 @@ }, "node_modules/yallist": { "version": "4.0.0", - "license": "ISC" + "resolved": "https://registry.npmjs.org/yallist/-/yallist-4.0.0.tgz", + "integrity": "sha512-3wdGidZyq5PB084XLES5TpOSRA3wjXAlIWMhum2kRcv/41Sn2emQ0dycQW4uZXLejwKvg6EsvbdlVL+FYEct7A==" }, "node_modules/yargs": { "version": "17.7.2", diff --git a/package.json b/package.json index e3b03e08..f70f03c3 100644 --- a/package.json +++ b/package.json @@ -44,7 +44,7 @@ "./src/*": "./src/*" }, "dependencies": { - "@abi-software/map-utilities": "^1.7.6", + "@abi-software/map-utilities": "1.7.8-demo.4", "@abi-software/sparc-annotation": "0.3.2", "@abi-software/svg-sprite": "1.0.3", "@element-plus/icons-vue": "^2.3.1", diff --git a/src/components/FlatmapVuer.vue b/src/components/FlatmapVuer.vue index ed75cfac..62c78302 100644 --- a/src/components/FlatmapVuer.vue +++ b/src/components/FlatmapVuer.vue @@ -1943,7 +1943,9 @@ export default { } // Emit error message for connectivity - this.emitConnectivityError(errorData); + if (errorData.length) { + this.emitConnectivityError(errorData); + } // highlight all available features const connectivityFeatures = featuresToHighlight.reduce((arr, path) => { diff --git a/src/services/flatmapQueries.js b/src/services/flatmapQueries.js index 59094d84..41b1c508 100644 --- a/src/services/flatmapQueries.js +++ b/src/services/flatmapQueries.js @@ -1,4 +1,6 @@ /* eslint-disable no-alert, no-console */ +import { querySingleConnectivityList } from '@abi-software/map-utilities'; + // remove duplicates by stringifying the objects const removeDuplicates = function (arrayOfAnything) { if (!arrayOfAnything) return [] @@ -99,6 +101,14 @@ let FlatmapQueries = function () { this.destinations = [] this.origins = [] this.components = [] + this.destinationsWithDatasets = [] + this.originsWithDatasets = [] + this.componentsWithDatasets = [] + this.destinationsCombinations = [] + this.originsCombinations = [] + this.componentsCombinations = [] + this.singleConnectivityList = [] + this.hasSingleConnectivityList = false this.rawURLs = [] this.controller = undefined this.uberons = [] @@ -140,6 +150,10 @@ let FlatmapQueries = function () { destinationsWithDatasets: this.destinationsWithDatasets, originsWithDatasets: this.originsWithDatasets, componentsWithDatasets: this.componentsWithDatasets, + destinationsCombinations: this.destinationsCombinations, + originsCombinations: this.originsCombinations, + componentsCombinations: this.componentsCombinations, + hasSingleConnectivityList: this.singleConnectivityList.length > 0, title: eventData.label, featureId: eventData.resource, hyperlinks: hyperlinks, @@ -160,6 +174,9 @@ let FlatmapQueries = function () { componentsWithDatasets: this.componentsWithDatasets, destinations: this.destinations, destinationsWithDatasets: this.destinationsWithDatasets, + destinationsCombinations: this.destinationsCombinations, + originsCombinations: this.originsCombinations, + componentsCombinations: this.componentsCombinations, connectivitySource: this.connectivitySource, noMapConnectivity: this.noMapConnectivity, }; @@ -285,25 +302,43 @@ let FlatmapQueries = function () { this.destinations = [] this.origins = [] this.components = [] + this.destinationsWithDatasets = [] + this.originsWithDatasets = [] + this.componentsWithDatasets = [] + this.destinationsCombinations = [] + this.originsCombinations = [] + this.componentsCombinations = [] + this.singleConnectivityList = [] this.rawURLs = [] if (!keastIds || keastIds.length === 0 || !keastIds[0]) return - let prom1 = this.queryForConnectivityNew(mapImp, keastIds[0]) // This on returns a promise so dont need 'await' + let prom1 = await this.queryForConnectivityNew(mapImp, keastIds[0]) // This on returns a promise so dont need 'await' let results = await Promise.all([prom1]) return results } - this.queryForConnectivityNew = function (mapImp, keastId, connectivitySource = 'map', processConnectivity = true) { - this.connectivitySource = connectivitySource + this.queryForConnectivityNew = async function (mapImp, keastId, connectivitySource = 'map', processConnectivity = true) { + // The new service, CQ27, is available for SCKAN knowledge sources from 2026 onward. + const sourceMatch = /^sckan-(\d{4})/.exec(mapImp.knowledgeSource || ''); + const sourceYear = sourceMatch ? Number(sourceMatch[1]) : 0; + const isCq27ServiceAvailable = sourceYear >= 2026; + const mapUUID = mapImp.mapMetadata.uuid; + const flatmapAPI = this.flatmapAPI; + this.connectivitySource = isCq27ServiceAvailable ? 'sckan' : connectivitySource; + + if (isCq27ServiceAvailable) { + this.singleConnectivityList = await querySingleConnectivityList(flatmapAPI, mapUUID, keastId); + } + return new Promise((resolve) => { - const queryAPI = connectivitySource === 'map' + const queryAPI = this.connectivitySource === 'map' ? this.queryMapConnectivity(mapImp.mapMetadata.uuid, keastId) : mapImp.queryKnowledge(keastId); queryAPI .then((response) => { if (this.checkConnectivityExists(response)) { - if (connectivitySource === 'map') { + if (this.connectivitySource === 'map') { this.noMapConnectivity = false; } let connectivity = response; @@ -318,7 +353,7 @@ let FlatmapQueries = function () { }) } else resolve(connectivity) - } else if (connectivitySource === 'map') { + } else if (this.connectivitySource === 'map') { // switch to SCKAN // when there has no connectivity data from Map // and add the noMapConnectivity flag to disable the option @@ -485,6 +520,66 @@ let FlatmapQueries = function () { this.destinationsWithDatasets = this.uberons.filter( (ub) => axonsFlat.indexOf(ub.id) !== -1 ).sort(compareNames); + + // Get combinations of SCKAN and Map + if (this.singleConnectivityList.length > 0) { + this.singleConnectivityList.forEach((value) => { + const { sckanNodeId, sckanNodeLabel, mapNodeId, mapNodeLabel } = value; + + // The base ID is SCKAN ID + if (axons.find(axon => JSON.stringify(axon) === JSON.stringify(sckanNodeId))) { + this.destinationsCombinations.push({ + sckanId: sckanNodeId, + sckanLabel: sckanNodeLabel, + mapId: mapNodeId, + mapLabel: mapNodeLabel, + }) + mapNodeId.forEach((id, i) => { + const stringId = typeof id === 'string' ? id : id[0]; + if (stringId) { + this.destinationsWithDatasets.push({ + id: stringId, + name: mapNodeLabel.split(',')[i] + }); + } + }); + } + if (dendrites.find(dendrite => JSON.stringify(dendrite) === JSON.stringify(sckanNodeId))) { + this.originsCombinations.push({ + sckanId: sckanNodeId, + sckanLabel: sckanNodeLabel, + mapId: mapNodeId, + mapLabel: mapNodeLabel, + }) + mapNodeId.forEach((id, i) => { + const stringId = typeof id === 'string' ? id : id[0]; + if (stringId) { + this.originsWithDatasets.push({ + id: stringId, + name: mapNodeLabel.split(',')[i] + }); + } + }); + } + if (components.find(component => JSON.stringify(component) === JSON.stringify(sckanNodeId))) { + this.componentsCombinations.push({ + sckanId: sckanNodeId, + sckanLabel: sckanNodeLabel, + mapId: mapNodeId, + mapLabel: mapNodeLabel, + }) + mapNodeId.forEach((id, i) => { + const stringId = typeof id === 'string' ? id : id[0]; + if (stringId) { + this.componentsWithDatasets.push({ + id: stringId, + name: mapNodeLabel.split(',')[i] + }); + } + }); + } + }); + } } this.processConnectivity = function (mapImp, connectivity) { @@ -569,14 +664,14 @@ let FlatmapQueries = function () { } this.queryKnowledge = async (sql, params) => { - const url = `${this.flatmapAPI}/knowledge/query/`; + const url = `${this.flatmapAPI}knowledge/query/`; const query = { sql, params }; const response = await fetch(url, { - method: 'POST', - headers: { - "Accept": "application/json" - }, - body: JSON.stringify(query), + method: 'POST', + headers: { + "Accept": "application/json" + }, + body: JSON.stringify(query), }) if (!response.ok) { throw new Error(`Cannot access ${url}`);