From 0535899df1d1f404f16a303d4e37f74c97cee29d Mon Sep 17 00:00:00 2001
From: Xiao Gui <xgui3783@gmail.com>
Date: Tue, 4 Feb 2020 16:37:41 +0100
Subject: [PATCH] bugfix: on selecting multi regions, region list does not show
chore: implemented test to avoid regression
---
package.json | 1 +
spec/karma.conf.js | 22 +-
spec/util.ts | 14084 ++++++++++++++++
.../atlasViewer.constantService.service.ts | 20 +-
src/res/css/extra_styles.css | 16 +-
.../databrowserModule/databrowser.service.ts | 29 +-
.../searchSideNav.component.spec.ts | 93 +
src/ui/searchSideNav/searchSideNav.style.css | 8 -
.../searchSideNav/searchSideNav.template.html | 10 +-
webpack.common.js | 3 +-
10 files changed, 14247 insertions(+), 39 deletions(-)
create mode 100644 spec/util.ts
create mode 100644 src/ui/searchSideNav/searchSideNav.component.spec.ts
diff --git a/package.json b/package.json
index 25d3a3cae..fcaa8dff7 100644
--- a/package.json
+++ b/package.json
@@ -47,6 +47,7 @@
"@typescript-eslint/eslint-plugin": "^2.12.0",
"@typescript-eslint/parser": "^2.12.0",
"angular2-template-loader": "^0.6.2",
+ "bootstrap": "^4.4.1",
"codelyzer": "^5.0.1",
"core-js": "^3.0.1",
"css-loader": "^3.2.0",
diff --git a/spec/karma.conf.js b/spec/karma.conf.js
index ee4345013..4f4eb985a 100644
--- a/spec/karma.conf.js
+++ b/spec/karma.conf.js
@@ -25,7 +25,27 @@ module.exports = function(config) {
// list of files / patterns to load in the browser
files: [
- './spec/test.ts'
+ './spec/test.ts',
+ {
+ pattern: 'node_modules/bootstrap/dist/css/bootstrap.min.css',
+ served: true,
+ included: true
+ },
+ {
+ pattern: 'node_modules/@angular/material/prebuilt-themes/indigo-pink.css',
+ served: true,
+ included: true
+ },
+ {
+ pattern: './src/util/worker.js',
+ served: true,
+ included: false
+ },
+ {
+ pattern: './src/res/css/extra_styles.css',
+ served: true,
+ included: true
+ }
],
diff --git a/spec/util.ts b/spec/util.ts
new file mode 100644
index 000000000..9925589fe
--- /dev/null
+++ b/spec/util.ts
@@ -0,0 +1,14084 @@
+import { HttpInterceptor, HttpEvent, HttpHandler, HttpRequest, HttpResponse, HttpHeaders } from '@angular/common/http'
+import { Injectable } from '@angular/core';
+import { Observable, of } from 'rxjs';
+
+@Injectable()
+export class HttpMockRequestInterceptor implements HttpInterceptor{
+
+ intercept(request:HttpRequest<any>, next:HttpHandler):Observable<HttpEvent<any>> {
+ const test = /\/datasets/.test(request.url)
+ if (test) {
+
+ const headers = new HttpHeaders()
+ headers.set('content-type', 'application/json')
+
+ return of(new HttpResponse({
+ status: 200,
+ body: [],
+ headers
+ }))
+ }
+ return next.handle(request)
+ }
+}
+
+export const JUBRAIN_COLIN_CH123_LEFT = {
+ "name": "Ch 123 (Basal Forebrain) - left hemisphere",
+ "rgb": [
+ 124,
+ 233,
+ 167
+ ],
+ "labelIndex": 286,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP",
+ "position": [
+ -2339339,
+ 4405405,
+ -8804805
+ ]
+}
+
+export const JUBRAIN_COLIN_CH123_RIGHT = {
+ "name": "Ch 123 (Basal Forebrain) - right hemisphere",
+ "rgb": [
+ 124,
+ 233,
+ 167
+ ],
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 286,
+ "children": [],
+ "status": "publicP",
+ "position": [
+ 3240000,
+ 5153846,
+ -8347692
+ ]
+}
+
+export const COLIN = {
+ "name": "MNI Colin 27",
+ "fullId": "minds/core/referencespace/v1.0.0/7f39f7be-445b-47c0-9791-e971c0b6d992",
+ "type": "template",
+ "species": "Human",
+ "useTheme": "dark",
+ "ngId": "colin",
+ "nehubaConfigURL": "nehubaConfig/colinNehubaConfig",
+ "parcellations": [
+ {
+ "name": "JuBrain Cytoarchitectonic Atlas",
+ "ngId": "jubrain colin v18 left",
+ "auxillaryMeshIndices": [
+ 65535
+ ],
+ "hasAdditionalViewMode": [
+ "connectivity"
+ ],
+ "originDatasets": [
+ {
+ "kgSchema": "minds/core/dataset/v1.0.0",
+ "kgId": "4ac9f0bc-560d-47e0-8916-7b24da9bb0ce"
+ }
+ ],
+ "properties": {
+ "version": "1.0",
+ "description": "This dataset contains the whole-brain parcellation of the JuBrain Cytoarchitectonic Atlas (Amunts and Zilles, 2015) in the MNI Colin 27 as well as the MNI ICBM 152 2009c nonlinear asymmetric reference space. The parcellation is derived from the individual probability maps (PMs) of the cytoarchitectonic regions released in the JuBrain Atlas, that are further combined into a Maximum Probability Map (MPM). The MPM is calculated by considering for each voxel the probability of all cytoarchitectonic areas released in the atlas, and determining the most probable assignment (Eickhoff 2005). Note that methodological improvements and integration of new brain structures may lead to small deviations in earlier released datasets.",
+ "publications": [
+ {
+ "doi": "https://doi.org/10.1038/nrn2776",
+ "citation": "Zilles K, Amunts K (2010) Centenary of Brodmann’s map – conception and fate. Nature Reviews Neuroscience 11(2): 139-145 "
+ },
+ {
+ "doi": "https://doi.org/10.1016/j.neuroimage.2007.02.037",
+ "citation": "Amunts K, Schleicher A, Zilles K (2007) Cytoarchitecture of the cerebral cortex – more than localization. Neuroimage 37: 1061-1065"
+ },
+ {
+ "doi": "http://dx.doi.org/10.1016/B978-012693019-1/50023-X",
+ "citation": "Zilles K, Schleicher A, Palomero-Gallagher N, Amunts K (2002) Quantitative analysis of cyto- and receptor architecture of the human brain. In: /Brain Mapping: The Methods/, J. C. Mazziotta and A. Toga (eds.), USA: Elsevier, 2002, p. 573-602."
+ }
+ ]
+ },
+ "regions": [
+ {
+ "name": "telencephalon",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "cerebral nuclei",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "basal forebrain",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "magnocellular group within septum",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "Ch 123 (Basal Forebrain)",
+ "arealabel": "Ch-123",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/7SEP-P2V",
+ "synonyms": [],
+ "rgb": [
+ 124,
+ 233,
+ 167
+ ],
+ "children": [
+ {
+ "name": "Ch 123 (Basal Forebrain) - left hemisphere",
+ "rgb": [
+ 124,
+ 233,
+ 167
+ ],
+ "labelIndex": 286,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP",
+ "position": [
+ -2339339,
+ 4405405,
+ -8804805
+ ]
+ },
+ {
+ "name": "Ch 123 (Basal Forebrain) - right hemisphere",
+ "rgb": [
+ 124,
+ 233,
+ 167
+ ],
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 286,
+ "children": [],
+ "status": "publicP",
+ "position": [
+ 3240000,
+ 5153846,
+ -8347692
+ ]
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "bb111a95-e04c-4987-8254-4af4ed8b0022"
+ }
+ },
+ "relatedAreas": []
+ }
+ ]
+ },
+ {
+ "name": "sublenticular part of basal forebrain",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "Ch 4 (Basal Forebrain)",
+ "arealabel": "Ch-4",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/VZJ5-8WJ",
+ "synonyms": [],
+ "rgb": [
+ 116,
+ 243,
+ 12
+ ],
+ "children": [
+ {
+ "name": "Ch 4 (Basal Forebrain) - left hemisphere",
+ "rgb": [
+ 116,
+ 243,
+ 12
+ ],
+ "labelIndex": 264,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP",
+ "position": [
+ -16053628,
+ -454259,
+ -12470032
+ ]
+ },
+ {
+ "name": "Ch 4 (Basal Forebrain) - right hemisphere",
+ "rgb": [
+ 116,
+ 243,
+ 12
+ ],
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 264,
+ "children": [],
+ "status": "publicP",
+ "position": [
+ 17655072,
+ 263768,
+ -11539130
+ ]
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "a5c9d95f-8e7c-4454-91b6-a790387370fc"
+ }
+ },
+ "relatedAreas": []
+ }
+ ]
+ },
+ {
+ "name": "magnocellular group within horizontal limb of diagnoal band",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "Ch 123 (Basal Forebrain)",
+ "arealabel": "Ch-123",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/7SEP-P2V",
+ "synonyms": [],
+ "rgb": [
+ 124,
+ 233,
+ 167
+ ],
+ "children": [
+ {
+ "name": "Ch 123 (Basal Forebrain) - left hemisphere",
+ "rgb": [
+ 124,
+ 233,
+ 167
+ ],
+ "labelIndex": 286,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP",
+ "position": [
+ -2339339,
+ 4405405,
+ -8804805
+ ]
+ },
+ {
+ "name": "Ch 123 (Basal Forebrain) - right hemisphere",
+ "rgb": [
+ 124,
+ 233,
+ 167
+ ],
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 286,
+ "children": [],
+ "status": "publicP",
+ "position": [
+ 3240000,
+ 5153846,
+ -8347692
+ ]
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "bb111a95-e04c-4987-8254-4af4ed8b0022"
+ }
+ },
+ "relatedAreas": []
+ }
+ ]
+ }
+ ]
+ },
+ {
+ "name": "amygdala",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "laterobasal group",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "LB (Amygdala)",
+ "arealabel": "LB",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/C3X0-NV3",
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "LB (Amygdala) - left hemisphere",
+ "rgb": null,
+ "labelIndex": 15,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP"
+ },
+ {
+ "name": "LB (Amygdala) - right hemisphere",
+ "rgb": null,
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 15,
+ "children": [],
+ "status": "publicP"
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "708df0fa-e9a4-4c23-bd85-8957f6d30faf"
+ }
+ },
+ "relatedAreas": []
+ },
+ {
+ "name": "LB (Amygdala)",
+ "arealabel": "LB",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/C3X0-NV3",
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "LB (Amygdala) - left hemisphere",
+ "rgb": null,
+ "labelIndex": 11,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP"
+ },
+ {
+ "name": "LB (Amygdala) - right hemisphere",
+ "rgb": null,
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 11,
+ "children": [],
+ "status": "publicP"
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "708df0fa-e9a4-4c23-bd85-8957f6d30faf"
+ }
+ },
+ "relatedAreas": []
+ },
+ {
+ "name": "LB (Amygdala)",
+ "arealabel": "LB",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/C3X0-NV3",
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "LB (Amygdala) - left hemisphere",
+ "rgb": null,
+ "labelIndex": 19,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP"
+ },
+ {
+ "name": "LB (Amygdala) - right hemisphere",
+ "rgb": null,
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 19,
+ "children": [],
+ "status": "publicP"
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "708df0fa-e9a4-4c23-bd85-8957f6d30faf"
+ }
+ },
+ "relatedAreas": []
+ },
+ {
+ "name": "LB (Amygdala)",
+ "arealabel": "LB",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/C3X0-NV3",
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "LB (Amygdala) - left hemisphere",
+ "rgb": null,
+ "labelIndex": 13,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP",
+ "position": [
+ -25304803,
+ -1696429,
+ -23766626
+ ]
+ },
+ {
+ "name": "LB (Amygdala) - right hemisphere",
+ "rgb": null,
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 13,
+ "children": [],
+ "status": "publicP",
+ "position": [
+ 28015494,
+ -81343,
+ -24045836
+ ]
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "708df0fa-e9a4-4c23-bd85-8957f6d30faf"
+ }
+ },
+ "relatedAreas": []
+ }
+ ]
+ },
+ {
+ "name": "superficial group",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "SF (Amygdala)",
+ "arealabel": "SF",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/WD31-SEA",
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "SF (Amygdala) - left hemisphere",
+ "rgb": null,
+ "labelIndex": 236,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP",
+ "position": [
+ -16044471,
+ 530048,
+ -20831731
+ ]
+ },
+ {
+ "name": "SF (Amygdala) - right hemisphere",
+ "rgb": null,
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 236,
+ "children": [],
+ "status": "publicP",
+ "position": [
+ 19382770,
+ 1539804,
+ -19413304
+ ]
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "48929163-bf7b-4471-9f14-991c5225eced"
+ }
+ },
+ "relatedAreas": []
+ },
+ {
+ "name": "SF (Amygdala)",
+ "arealabel": "SF",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/WD31-SEA",
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "SF (Amygdala) - left hemisphere",
+ "rgb": null,
+ "labelIndex": 17,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP"
+ },
+ {
+ "name": "SF (Amygdala) - right hemisphere",
+ "rgb": null,
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 17,
+ "children": [],
+ "status": "publicP"
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "48929163-bf7b-4471-9f14-991c5225eced"
+ }
+ },
+ "relatedAreas": []
+ },
+ {
+ "name": "SF (Amygdala)",
+ "arealabel": "SF",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/WD31-SEA",
+ "synonyms": [],
+ "rgb": [
+ 18,
+ 168,
+ 22
+ ],
+ "children": [
+ {
+ "name": "SF (Amygdala) - left hemisphere",
+ "rgb": [
+ 18,
+ 168,
+ 22
+ ],
+ "labelIndex": 186,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP"
+ },
+ {
+ "name": "SF (Amygdala) - right hemisphere",
+ "rgb": [
+ 18,
+ 168,
+ 22
+ ],
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 186,
+ "children": [],
+ "status": "publicP"
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "48929163-bf7b-4471-9f14-991c5225eced"
+ }
+ },
+ "relatedAreas": []
+ },
+ {
+ "name": "CM (Amygdala)",
+ "arealabel": "CM",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/36FR-C95",
+ "synonyms": [],
+ "rgb": [
+ 102,
+ 180,
+ 202
+ ],
+ "children": [
+ {
+ "name": "CM (Amygdala) - left hemisphere",
+ "rgb": [
+ 102,
+ 180,
+ 202
+ ],
+ "labelIndex": 22,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP"
+ },
+ {
+ "name": "CM (Amygdala) - right hemisphere",
+ "rgb": [
+ 102,
+ 180,
+ 202
+ ],
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 22,
+ "children": [],
+ "status": "publicP"
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "7aba8aef-6430-4fa7-ab54-8ecac558faed"
+ }
+ },
+ "relatedAreas": []
+ }
+ ]
+ },
+ {
+ "name": "fiber masses",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "VTM (Amygdala)",
+ "arealabel": "VTM",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/99HN-XRE",
+ "synonyms": [],
+ "rgb": [
+ 89,
+ 178,
+ 185
+ ],
+ "children": [
+ {
+ "name": "VTM (Amygdala) - left hemisphere",
+ "rgb": [
+ 89,
+ 178,
+ 185
+ ],
+ "labelIndex": 228,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP",
+ "position": [
+ -23377907,
+ -9837209,
+ -14848837
+ ]
+ },
+ {
+ "name": "VTM (Amygdala) - right hemisphere",
+ "rgb": [
+ 89,
+ 178,
+ 185
+ ],
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 228,
+ "children": [],
+ "status": "publicP",
+ "position": [
+ 25513514,
+ -8881081,
+ -15551351
+ ]
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "a964e6e6-8014-41a2-b975-754d75cbb6f2"
+ }
+ },
+ "relatedAreas": []
+ },
+ {
+ "name": "IF (Amygdala)",
+ "arealabel": "IF",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/GWPR-G6K",
+ "synonyms": [],
+ "rgb": [
+ 120,
+ 190,
+ 129
+ ],
+ "children": [
+ {
+ "name": "IF (Amygdala) - left hemisphere",
+ "rgb": [
+ 120,
+ 190,
+ 129
+ ],
+ "labelIndex": 237,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP",
+ "position": [
+ -27588235,
+ -1431373,
+ -17460784
+ ]
+ },
+ {
+ "name": "IF (Amygdala) - right hemisphere",
+ "rgb": [
+ 120,
+ 190,
+ 129
+ ],
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 237,
+ "children": [],
+ "status": "publicP",
+ "position": [
+ 29372549,
+ -813725,
+ -16578431
+ ]
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "5a1391c8-6056-40e4-a19b-3774df42bd07"
+ }
+ },
+ "relatedAreas": []
+ },
+ {
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+ "children": [],
+ "status": "publicP",
+ "position": [
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+ -24801145,
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+ }
+ ],
+ "fullId": {
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+ "kgId": "a0d14d3e-bc30-41cf-8b28-540067897f80"
+ }
+ }
+ },
+ {
+ "name": "DG (Hippocampus)",
+ "arealabel": "DG",
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+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/M8JP-XQT",
+ "synonyms": [],
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+ "children": [
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+ "ngId": "jubrain colin v18 left",
+ "children": [],
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+ },
+ {
+ "name": "DG (Hippocampus) - right hemisphere",
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+ "ngId": "jubrain colin v18 right",
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+ "children": [],
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+ }
+ },
+ "relatedAreas": []
+ },
+ {
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+ "arealabel": "Subiculum",
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+ ]
+ },
+ {
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+ "ngId": "jubrain colin v18 right",
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+ "children": [],
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+ }
+ },
+ "relatedAreas": []
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+ ]
+ }
+ ]
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+ ]
+ }
+ ]
+ },
+ {
+ "name": "metencephalon",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "cerebellum",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "cerebellar nuclei",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "globose nucleus",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "Interposed Nucleus (Cerebellum)",
+ "arealabel": "Interposed-Nucleus",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/8PTB-JDH",
+ "synonyms": [],
+ "rgb": [
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+ "children": [
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+ "name": "Interposed Nucleus (Cerebellum) - left hemisphere",
+ "rgb": [
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+ ],
+ "labelIndex": 251,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP",
+ "position": [
+ -8457921,
+ -55262376,
+ -30235149
+ ]
+ },
+ {
+ "name": "Interposed Nucleus (Cerebellum) - right hemisphere",
+ "rgb": [
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+ ],
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 251,
+ "children": [],
+ "status": "publicP",
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+ }
+ },
+ "relatedAreas": []
+ }
+ ]
+ },
+ {
+ "name": "dentate nucleus",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "Dorsal Dentate Nucleus (Cerebellum)",
+ "arealabel": "Dorsal-Dentate-Nucleus",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/M5QG-SHH",
+ "synonyms": [],
+ "rgb": [
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+ ],
+ "children": [
+ {
+ "name": "Dorsal Dentate Nucleus (Cerebellum) - left hemisphere",
+ "rgb": [
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+ ],
+ "labelIndex": 240,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP",
+ "position": [
+ -16612782,
+ -56036341,
+ -36064536
+ ]
+ },
+ {
+ "name": "Dorsal Dentate Nucleus (Cerebellum) - right hemisphere",
+ "rgb": [
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+ 201,
+ 99
+ ],
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 240,
+ "children": [],
+ "status": "publicP",
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+ 15388967,
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+ ]
+ }
+ ],
+ "fullId": {
+ "kg": {
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+ "kgId": "58095aef-da69-43d4-887c-009c095cecce"
+ }
+ },
+ "relatedAreas": []
+ },
+ {
+ "name": "Ventral Dentate Nucleus (Cerebellum)",
+ "arealabel": "Ventral-Dentate-Nucleus",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/FQE5-5QR",
+ "synonyms": [],
+ "rgb": [
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+ ],
+ "children": [
+ {
+ "name": "Ventral Dentate Nucleus (Cerebellum) - left hemisphere",
+ "rgb": [
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+ ],
+ "labelIndex": 241,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP",
+ "position": [
+ -13112867,
+ -56176072,
+ -29957111
+ ]
+ },
+ {
+ "name": "Ventral Dentate Nucleus (Cerebellum) - right hemisphere",
+ "rgb": [
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+ ],
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 241,
+ "children": [],
+ "status": "publicP",
+ "position": [
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+ }
+ ],
+ "fullId": {
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+ }
+ },
+ "relatedAreas": []
+ }
+ ]
+ },
+ {
+ "name": "fastigial nucleus",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "Fastigial Nucleus (Cerebellum)",
+ "arealabel": "Fastigial-Nucleus",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/3YJ9-S6G",
+ "synonyms": [],
+ "rgb": [
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+ ],
+ "children": [
+ {
+ "name": "Fastigial Nucleus (Cerebellum) - left hemisphere",
+ "rgb": [
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+ ],
+ "labelIndex": 219,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP",
+ "position": [
+ -3828877,
+ -53149733,
+ -29013369
+ ]
+ },
+ {
+ "name": "Fastigial Nucleus (Cerebellum) - right hemisphere",
+ "rgb": [
+ 200,
+ 100,
+ 10
+ ],
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 219,
+ "children": [],
+ "status": "publicP",
+ "position": [
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+ -53069977,
+ -29040632
+ ]
+ }
+ ],
+ "fullId": {
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+ }
+ },
+ "relatedAreas": []
+ }
+ ]
+ },
+ {
+ "name": "emboliform nucleus",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "Interposed Nucleus (Cerebellum)",
+ "arealabel": "Interposed-Nucleus",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/8PTB-JDH",
+ "synonyms": [],
+ "rgb": [
+ 170,
+ 29,
+ 10
+ ],
+ "children": [
+ {
+ "name": "Interposed Nucleus (Cerebellum) - left hemisphere",
+ "rgb": [
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+ ],
+ "labelIndex": 251,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP",
+ "position": [
+ -8457921,
+ -55262376,
+ -30235149
+ ]
+ },
+ {
+ "name": "Interposed Nucleus (Cerebellum) - right hemisphere",
+ "rgb": [
+ 170,
+ 29,
+ 10
+ ],
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 251,
+ "children": [],
+ "status": "publicP",
+ "position": [
+ 7917989,
+ -54201058,
+ -31489418
+ ]
+ }
+ ],
+ "fullId": {
+ "kg": {
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+ "kgId": "85e7bb13-4b73-4f6f-8222-3adb7b800788"
+ }
+ },
+ "relatedAreas": []
+ }
+ ]
+ }
+ ]
+ }
+ ]
+ }
+ ]
+ }
+ ]
+ }
+ ],
+ "properties": {
+ "name": "MNI Colin 27",
+ "description": "A stereotaxic average of 27 T1-weighted MRI scans of the same individual. (Holmes et al., 1998), mapped to fit the MNI305 space. Although not capturing brain variability, it is well established in neuroscience due to its high definition. HBP provides the JuBrain probabilistic cytoarchitectonic atlas (Amunts et al.) in this space."
+ }
+}
+
+export const JUBRAIN_COLIN = {
+ "name": "JuBrain Cytoarchitectonic Atlas",
+ "ngId": "jubrain colin v18 left",
+ "auxillaryMeshIndices": [
+ 65535
+ ],
+ "hasAdditionalViewMode": [
+ "connectivity"
+ ],
+ "originDatasets": [
+ {
+ "kgSchema": "minds/core/dataset/v1.0.0",
+ "kgId": "4ac9f0bc-560d-47e0-8916-7b24da9bb0ce"
+ }
+ ],
+ "properties": {
+ "version": "1.0",
+ "description": "This dataset contains the whole-brain parcellation of the JuBrain Cytoarchitectonic Atlas (Amunts and Zilles, 2015) in the MNI Colin 27 as well as the MNI ICBM 152 2009c nonlinear asymmetric reference space. The parcellation is derived from the individual probability maps (PMs) of the cytoarchitectonic regions released in the JuBrain Atlas, that are further combined into a Maximum Probability Map (MPM). The MPM is calculated by considering for each voxel the probability of all cytoarchitectonic areas released in the atlas, and determining the most probable assignment (Eickhoff 2005). Note that methodological improvements and integration of new brain structures may lead to small deviations in earlier released datasets.",
+ "publications": [
+ {
+ "doi": "https://doi.org/10.1038/nrn2776",
+ "citation": "Zilles K, Amunts K (2010) Centenary of Brodmann’s map – conception and fate. Nature Reviews Neuroscience 11(2): 139-145 "
+ },
+ {
+ "doi": "https://doi.org/10.1016/j.neuroimage.2007.02.037",
+ "citation": "Amunts K, Schleicher A, Zilles K (2007) Cytoarchitecture of the cerebral cortex – more than localization. Neuroimage 37: 1061-1065"
+ },
+ {
+ "doi": "http://dx.doi.org/10.1016/B978-012693019-1/50023-X",
+ "citation": "Zilles K, Schleicher A, Palomero-Gallagher N, Amunts K (2002) Quantitative analysis of cyto- and receptor architecture of the human brain. In: /Brain Mapping: The Methods/, J. C. Mazziotta and A. Toga (eds.), USA: Elsevier, 2002, p. 573-602."
+ }
+ ]
+ },
+ "regions": [
+ {
+ "name": "telencephalon",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "cerebral nuclei",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "basal forebrain",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "magnocellular group within septum",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "Ch 123 (Basal Forebrain)",
+ "arealabel": "Ch-123",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/7SEP-P2V",
+ "synonyms": [],
+ "rgb": [
+ 124,
+ 233,
+ 167
+ ],
+ "children": [
+ {
+ "name": "Ch 123 (Basal Forebrain) - left hemisphere",
+ "rgb": [
+ 124,
+ 233,
+ 167
+ ],
+ "labelIndex": 286,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP",
+ "position": [
+ -2339339,
+ 4405405,
+ -8804805
+ ]
+ },
+ {
+ "name": "Ch 123 (Basal Forebrain) - right hemisphere",
+ "rgb": [
+ 124,
+ 233,
+ 167
+ ],
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 286,
+ "children": [],
+ "status": "publicP",
+ "position": [
+ 3240000,
+ 5153846,
+ -8347692
+ ]
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "bb111a95-e04c-4987-8254-4af4ed8b0022"
+ }
+ },
+ "relatedAreas": []
+ }
+ ]
+ },
+ {
+ "name": "sublenticular part of basal forebrain",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "Ch 4 (Basal Forebrain)",
+ "arealabel": "Ch-4",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/VZJ5-8WJ",
+ "synonyms": [],
+ "rgb": [
+ 116,
+ 243,
+ 12
+ ],
+ "children": [
+ {
+ "name": "Ch 4 (Basal Forebrain) - left hemisphere",
+ "rgb": [
+ 116,
+ 243,
+ 12
+ ],
+ "labelIndex": 264,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP",
+ "position": [
+ -16053628,
+ -454259,
+ -12470032
+ ]
+ },
+ {
+ "name": "Ch 4 (Basal Forebrain) - right hemisphere",
+ "rgb": [
+ 116,
+ 243,
+ 12
+ ],
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 264,
+ "children": [],
+ "status": "publicP",
+ "position": [
+ 17655072,
+ 263768,
+ -11539130
+ ]
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "a5c9d95f-8e7c-4454-91b6-a790387370fc"
+ }
+ },
+ "relatedAreas": []
+ }
+ ]
+ },
+ {
+ "name": "magnocellular group within horizontal limb of diagnoal band",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "Ch 123 (Basal Forebrain)",
+ "arealabel": "Ch-123",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/7SEP-P2V",
+ "synonyms": [],
+ "rgb": [
+ 124,
+ 233,
+ 167
+ ],
+ "children": [
+ {
+ "name": "Ch 123 (Basal Forebrain) - left hemisphere",
+ "rgb": [
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+ ],
+ "labelIndex": 286,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP",
+ "position": [
+ -2339339,
+ 4405405,
+ -8804805
+ ]
+ },
+ {
+ "name": "Ch 123 (Basal Forebrain) - right hemisphere",
+ "rgb": [
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+ ],
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 286,
+ "children": [],
+ "status": "publicP",
+ "position": [
+ 3240000,
+ 5153846,
+ -8347692
+ ]
+ }
+ ],
+ "fullId": {
+ "kg": {
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+ "kgId": "bb111a95-e04c-4987-8254-4af4ed8b0022"
+ }
+ },
+ "relatedAreas": []
+ }
+ ]
+ }
+ ]
+ },
+ {
+ "name": "amygdala",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "laterobasal group",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "LB (Amygdala)",
+ "arealabel": "LB",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/C3X0-NV3",
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "LB (Amygdala) - left hemisphere",
+ "rgb": null,
+ "labelIndex": 15,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP"
+ },
+ {
+ "name": "LB (Amygdala) - right hemisphere",
+ "rgb": null,
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 15,
+ "children": [],
+ "status": "publicP"
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "708df0fa-e9a4-4c23-bd85-8957f6d30faf"
+ }
+ },
+ "relatedAreas": []
+ },
+ {
+ "name": "LB (Amygdala)",
+ "arealabel": "LB",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/C3X0-NV3",
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "LB (Amygdala) - left hemisphere",
+ "rgb": null,
+ "labelIndex": 11,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP"
+ },
+ {
+ "name": "LB (Amygdala) - right hemisphere",
+ "rgb": null,
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 11,
+ "children": [],
+ "status": "publicP"
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "708df0fa-e9a4-4c23-bd85-8957f6d30faf"
+ }
+ },
+ "relatedAreas": []
+ },
+ {
+ "name": "LB (Amygdala)",
+ "arealabel": "LB",
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+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/C3X0-NV3",
+ "synonyms": [],
+ "rgb": null,
+ "children": [
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+ "rgb": null,
+ "labelIndex": 19,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP"
+ },
+ {
+ "name": "LB (Amygdala) - right hemisphere",
+ "rgb": null,
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 19,
+ "children": [],
+ "status": "publicP"
+ }
+ ],
+ "fullId": {
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+ "kgId": "708df0fa-e9a4-4c23-bd85-8957f6d30faf"
+ }
+ },
+ "relatedAreas": []
+ },
+ {
+ "name": "LB (Amygdala)",
+ "arealabel": "LB",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/C3X0-NV3",
+ "synonyms": [],
+ "rgb": null,
+ "children": [
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+ "rgb": null,
+ "labelIndex": 13,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP",
+ "position": [
+ -25304803,
+ -1696429,
+ -23766626
+ ]
+ },
+ {
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+ "rgb": null,
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 13,
+ "children": [],
+ "status": "publicP",
+ "position": [
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+ -81343,
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+ ]
+ }
+ ],
+ "fullId": {
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+ 51,
+ 57,
+ 245
+ ],
+ "children": [
+ {
+ "name": "Area 33 (ACC) - left hemisphere",
+ "rgb": [
+ 51,
+ 57,
+ 245
+ ],
+ "labelIndex": 39,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP",
+ "position": [
+ -4861218,
+ 14163048,
+ 15911877
+ ]
+ },
+ {
+ "name": "Area 33 (ACC) - right hemisphere",
+ "rgb": [
+ 51,
+ 57,
+ 245
+ ],
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 39,
+ "children": [],
+ "status": "publicP",
+ "position": [
+ 5087045,
+ 15562321,
+ 16125051
+ ]
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "b83a3330-b80e-42a0-b8d2-82f38784aa1d"
+ }
+ },
+ "relatedAreas": []
+ },
+ {
+ "name": "Area p32 (pACC)",
+ "arealabel": "Area-p32",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/3JX0-7E5",
+ "synonyms": [],
+ "rgb": [
+ 87,
+ 135,
+ 14
+ ],
+ "children": [
+ {
+ "name": "Area p32 (pACC) - left hemisphere",
+ "rgb": [
+ 87,
+ 135,
+ 14
+ ],
+ "labelIndex": 47,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP",
+ "position": [
+ -6122937,
+ 49256108,
+ 11929896
+ ]
+ },
+ {
+ "name": "Area p32 (pACC) - right hemisphere",
+ "rgb": [
+ 87,
+ 135,
+ 14
+ ],
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 47,
+ "children": [],
+ "status": "publicP",
+ "position": [
+ 7759613,
+ 48520792,
+ 12436058
+ ]
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "b09aaa77-f41b-4008-b8b9-f984b0417cf3"
+ }
+ },
+ "relatedAreas": []
+ },
+ {
+ "name": "Area s24 (sACC)",
+ "arealabel": "Area-s24",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/HXWM-NRX",
+ "synonyms": [],
+ "rgb": [
+ 133,
+ 34,
+ 201
+ ],
+ "children": [
+ {
+ "name": "Area s24 (sACC) - left hemisphere",
+ "rgb": [
+ 133,
+ 34,
+ 201
+ ],
+ "labelIndex": 183,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP",
+ "position": [
+ -3247887,
+ 24596479,
+ -9615493
+ ]
+ },
+ {
+ "name": "Area s24 (sACC) - right hemisphere",
+ "rgb": [
+ 133,
+ 34,
+ 201
+ ],
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 183,
+ "children": [],
+ "status": "publicP",
+ "position": [
+ 3259899,
+ 23813535,
+ -9257019
+ ]
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "d4ea6cc5-1e1d-4212-966f-81fed01eb648"
+ }
+ },
+ "relatedAreas": []
+ }
+ ]
+ },
+ {
+ "name": "hippocampal formation",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "HATA (Hippocampus)",
+ "arealabel": "HATA",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/M1XP-VSQ",
+ "synonyms": [],
+ "rgb": [
+ 137,
+ 12,
+ 73
+ ],
+ "children": [
+ {
+ "name": "HATA (Hippocampus) - left hemisphere",
+ "rgb": [
+ 137,
+ 12,
+ 73
+ ],
+ "labelIndex": 68,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP",
+ "position": [
+ -13947917,
+ -9576389,
+ -18975694
+ ]
+ },
+ {
+ "name": "HATA (Hippocampus) - right hemisphere",
+ "rgb": [
+ 137,
+ 12,
+ 73
+ ],
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 68,
+ "children": [],
+ "status": "publicP",
+ "position": [
+ 15080586,
+ -8358974,
+ -17871795
+ ]
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "9ec4a423-70fa-43cd-90b3-fbc26a3cbc6c"
+ }
+ },
+ "relatedAreas": []
+ },
+ {
+ "name": "Entorhinal Cortex",
+ "arealabel": "Entorhinal-Cortex",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/KNXY-B1Z",
+ "synonyms": [],
+ "rgb": [
+ 35,
+ 159,
+ 214
+ ],
+ "children": [
+ {
+ "name": "Entorhinal Cortex - left hemisphere",
+ "rgb": [
+ 35,
+ 159,
+ 214
+ ],
+ "labelIndex": 60,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP",
+ "position": [
+ -20926052,
+ -6082765,
+ -33357509
+ ]
+ },
+ {
+ "name": "Entorhinal Cortex - right hemisphere",
+ "rgb": [
+ 35,
+ 159,
+ 214
+ ],
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 60,
+ "children": [],
+ "status": "publicP",
+ "position": [
+ 22877203,
+ -3501469,
+ -32577556
+ ]
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "030827d4-e0d1-4406-b71f-3f58dc2f9cca"
+ }
+ },
+ "relatedAreas": []
+ },
+ {
+ "name": "CA (Hippocampus)",
+ "arealabel": "CA",
+ "status": "publicP",
+ "labelIndex": null,
+ "relatedAreas": [
+ {
+ "name": "CA1 (Hippocampus)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "bfc0beb7-310c-4c57-b810-2adc464bd02c"
+ }
+ }
+ }
+ ],
+ "doi": "https://doi.org/10.25493/B85T-D88",
+ "synonyms": [],
+ "rgb": [
+ 250,
+ 191,
+ 217
+ ],
+ "children": [
+ {
+ "name": "CA (Hippocampus) - left hemisphere",
+ "rgb": [
+ 250,
+ 191,
+ 217
+ ],
+ "labelIndex": 191,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP",
+ "position": [
+ -27476326,
+ -26068931,
+ -11082817
+ ]
+ },
+ {
+ "name": "CA (Hippocampus) - right hemisphere",
+ "rgb": [
+ 250,
+ 191,
+ 217
+ ],
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 191,
+ "children": [],
+ "status": "publicP",
+ "position": [
+ 29426785,
+ -24801145,
+ -11142814
+ ]
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "a0d14d3e-bc30-41cf-8b28-540067897f80"
+ }
+ }
+ },
+ {
+ "name": "DG (Hippocampus)",
+ "arealabel": "DG",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/M8JP-XQT",
+ "synonyms": [],
+ "rgb": [
+ 149,
+ 55,
+ 120
+ ],
+ "children": [
+ {
+ "name": "DG (Hippocampus) - left hemisphere",
+ "rgb": [
+ 149,
+ 55,
+ 120
+ ],
+ "labelIndex": 61,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP",
+ "position": [
+ -26946498,
+ -26708171,
+ -9589494
+ ]
+ },
+ {
+ "name": "DG (Hippocampus) - right hemisphere",
+ "rgb": [
+ 149,
+ 55,
+ 120
+ ],
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 61,
+ "children": [],
+ "status": "publicP",
+ "position": [
+ 28316456,
+ -24674684,
+ -10596203
+ ]
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "0bea7e03-bfb2-4907-9d45-db9071ce627d"
+ }
+ },
+ "relatedAreas": []
+ },
+ {
+ "name": "Subiculum (Hippocampus)",
+ "arealabel": "Subiculum",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/QKJH-F45",
+ "synonyms": [],
+ "rgb": [
+ 111,
+ 125,
+ 219
+ ],
+ "children": [
+ {
+ "name": "Subiculum (Hippocampus) - left hemisphere",
+ "rgb": [
+ 111,
+ 125,
+ 219
+ ],
+ "labelIndex": 192,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP",
+ "position": [
+ -20352171,
+ -24057796,
+ -16326997
+ ]
+ },
+ {
+ "name": "Subiculum (Hippocampus) - right hemisphere",
+ "rgb": [
+ 111,
+ 125,
+ 219
+ ],
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 192,
+ "children": [],
+ "status": "publicP",
+ "position": [
+ 22543982,
+ -23195614,
+ -15923499
+ ]
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "7e2dab4c-a140-440d-a322-c1679adef2d4"
+ }
+ },
+ "relatedAreas": []
+ }
+ ]
+ }
+ ]
+ }
+ ]
+ }
+ ]
+ },
+ {
+ "name": "metencephalon",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "cerebellum",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "cerebellar nuclei",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "globose nucleus",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "Interposed Nucleus (Cerebellum)",
+ "arealabel": "Interposed-Nucleus",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/8PTB-JDH",
+ "synonyms": [],
+ "rgb": [
+ 170,
+ 29,
+ 10
+ ],
+ "children": [
+ {
+ "name": "Interposed Nucleus (Cerebellum) - left hemisphere",
+ "rgb": [
+ 170,
+ 29,
+ 10
+ ],
+ "labelIndex": 251,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP",
+ "position": [
+ -8457921,
+ -55262376,
+ -30235149
+ ]
+ },
+ {
+ "name": "Interposed Nucleus (Cerebellum) - right hemisphere",
+ "rgb": [
+ 170,
+ 29,
+ 10
+ ],
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 251,
+ "children": [],
+ "status": "publicP",
+ "position": [
+ 7917989,
+ -54201058,
+ -31489418
+ ]
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "85e7bb13-4b73-4f6f-8222-3adb7b800788"
+ }
+ },
+ "relatedAreas": []
+ }
+ ]
+ },
+ {
+ "name": "dentate nucleus",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "Dorsal Dentate Nucleus (Cerebellum)",
+ "arealabel": "Dorsal-Dentate-Nucleus",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/M5QG-SHH",
+ "synonyms": [],
+ "rgb": [
+ 89,
+ 201,
+ 99
+ ],
+ "children": [
+ {
+ "name": "Dorsal Dentate Nucleus (Cerebellum) - left hemisphere",
+ "rgb": [
+ 89,
+ 201,
+ 99
+ ],
+ "labelIndex": 240,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP",
+ "position": [
+ -16612782,
+ -56036341,
+ -36064536
+ ]
+ },
+ {
+ "name": "Dorsal Dentate Nucleus (Cerebellum) - right hemisphere",
+ "rgb": [
+ 89,
+ 201,
+ 99
+ ],
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 240,
+ "children": [],
+ "status": "publicP",
+ "position": [
+ 15388967,
+ -58303395,
+ -36586280
+ ]
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "58095aef-da69-43d4-887c-009c095cecce"
+ }
+ },
+ "relatedAreas": []
+ },
+ {
+ "name": "Ventral Dentate Nucleus (Cerebellum)",
+ "arealabel": "Ventral-Dentate-Nucleus",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/FQE5-5QR",
+ "synonyms": [],
+ "rgb": [
+ 39,
+ 129,
+ 9
+ ],
+ "children": [
+ {
+ "name": "Ventral Dentate Nucleus (Cerebellum) - left hemisphere",
+ "rgb": [
+ 39,
+ 129,
+ 9
+ ],
+ "labelIndex": 241,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP",
+ "position": [
+ -13112867,
+ -56176072,
+ -29957111
+ ]
+ },
+ {
+ "name": "Ventral Dentate Nucleus (Cerebellum) - right hemisphere",
+ "rgb": [
+ 39,
+ 129,
+ 9
+ ],
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 241,
+ "children": [],
+ "status": "publicP",
+ "position": [
+ 12107011,
+ -55974170,
+ -31385609
+ ]
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "57282342-5a75-4e07-bcdc-2d368c517b71"
+ }
+ },
+ "relatedAreas": []
+ }
+ ]
+ },
+ {
+ "name": "fastigial nucleus",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "Fastigial Nucleus (Cerebellum)",
+ "arealabel": "Fastigial-Nucleus",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/3YJ9-S6G",
+ "synonyms": [],
+ "rgb": [
+ 200,
+ 100,
+ 10
+ ],
+ "children": [
+ {
+ "name": "Fastigial Nucleus (Cerebellum) - left hemisphere",
+ "rgb": [
+ 200,
+ 100,
+ 10
+ ],
+ "labelIndex": 219,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP",
+ "position": [
+ -3828877,
+ -53149733,
+ -29013369
+ ]
+ },
+ {
+ "name": "Fastigial Nucleus (Cerebellum) - right hemisphere",
+ "rgb": [
+ 200,
+ 100,
+ 10
+ ],
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 219,
+ "children": [],
+ "status": "publicP",
+ "position": [
+ 3011287,
+ -53069977,
+ -29040632
+ ]
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "e8abfe3d-8b64-45c2-8853-314d82873273"
+ }
+ },
+ "relatedAreas": []
+ }
+ ]
+ },
+ {
+ "name": "emboliform nucleus",
+ "status": null,
+ "labelIndex": null,
+ "synonyms": [],
+ "rgb": null,
+ "children": [
+ {
+ "name": "Interposed Nucleus (Cerebellum)",
+ "arealabel": "Interposed-Nucleus",
+ "status": "publicP",
+ "labelIndex": null,
+ "doi": "https://doi.org/10.25493/8PTB-JDH",
+ "synonyms": [],
+ "rgb": [
+ 170,
+ 29,
+ 10
+ ],
+ "children": [
+ {
+ "name": "Interposed Nucleus (Cerebellum) - left hemisphere",
+ "rgb": [
+ 170,
+ 29,
+ 10
+ ],
+ "labelIndex": 251,
+ "ngId": "jubrain colin v18 left",
+ "children": [],
+ "status": "publicP",
+ "position": [
+ -8457921,
+ -55262376,
+ -30235149
+ ]
+ },
+ {
+ "name": "Interposed Nucleus (Cerebellum) - right hemisphere",
+ "rgb": [
+ 170,
+ 29,
+ 10
+ ],
+ "ngId": "jubrain colin v18 right",
+ "labelIndex": 251,
+ "children": [],
+ "status": "publicP",
+ "position": [
+ 7917989,
+ -54201058,
+ -31489418
+ ]
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "85e7bb13-4b73-4f6f-8222-3adb7b800788"
+ }
+ },
+ "relatedAreas": []
+ }
+ ]
+ }
+ ]
+ }
+ ]
+ }
+ ]
+ }
+ ]
+}
diff --git a/src/atlasViewer/atlasViewer.constantService.service.ts b/src/atlasViewer/atlasViewer.constantService.service.ts
index afe18ac85..0f4302f2e 100644
--- a/src/atlasViewer/atlasViewer.constantService.service.ts
+++ b/src/atlasViewer/atlasViewer.constantService.service.ts
@@ -1,4 +1,4 @@
-import { HttpClient } from "@angular/common/http";
+import { HttpClient, HttpHeaders } from "@angular/common/http";
import { Injectable, OnDestroy } from "@angular/core";
import { select, Store } from "@ngrx/store";
import { merge, Observable, of, Subscription, throwError, fromEvent, forkJoin } from "rxjs";
@@ -121,18 +121,6 @@ export class AtlasViewerConstantsServices implements OnDestroy {
}),
)
- /* to be provided by KG in future */
- public templateUrlsPr: Promise<string[]> = new Promise((resolve, reject) => {
- fetch(`${this.backendUrl}templates`, this.getFetchOption())
- .then(res => res.json())
- .then(arr => {
- this.templateUrls = arr
- return arr
- })
- .then(resolve)
- .catch(reject)
- })
-
public templateUrls = Array(100)
/* to be provided by KG in future */
@@ -221,6 +209,12 @@ Interactive atlas viewer requires **webgl2.0**, and the \`EXT_color_buffer_float
return url.toString()
}
+ public getHttpHeader(): HttpHeaders {
+ const header = new HttpHeaders()
+ header.set('referrer', this.getScopedReferer())
+ return header
+ }
+
public getFetchOption(): RequestInit {
return {
referrer: this.getScopedReferer(),
diff --git a/src/res/css/extra_styles.css b/src/res/css/extra_styles.css
index 861ee385a..0639b9179 100644
--- a/src/res/css/extra_styles.css
+++ b/src/res/css/extra_styles.css
@@ -701,6 +701,18 @@ body::after
kg-dataset-previewer > img
{
- width: inherit;
- height: inherit;
+ max-width: 100%;
+ width: 100%;
+}
+
+/*
+ TODO, this really should be in searchSideNav.style.css. But karma tests does not seem to like to include style.css
+ figure out why
+*/
+/* exactly 1.5 line height */
+
+.h-117px
+{
+ min-height:117px!important;
+ flex-basis: 117px!important;
}
diff --git a/src/ui/databrowserModule/databrowser.service.ts b/src/ui/databrowserModule/databrowser.service.ts
index 533d5c7d0..b9e069839 100644
--- a/src/ui/databrowserModule/databrowser.service.ts
+++ b/src/ui/databrowserModule/databrowser.service.ts
@@ -224,6 +224,7 @@ export class DatabrowserService implements OnDestroy {
})
}
+ // TODO deprecate
public fetchPreviewData(datasetName: string) {
const encodedDatasetName = encodeURIComponent(datasetName)
return new Promise((resolve, reject) => {
@@ -246,19 +247,25 @@ export class DatabrowserService implements OnDestroy {
public fetchingFlag: boolean = false
private mostRecentFetchToken: any
- private lowLevelQuery(templateName: string, parcellationName: string) {
+ private lowLevelQuery(templateName: string, parcellationName: string): Promise<IDataEntry[]> {
const encodedTemplateName = encodeURIComponent(templateName)
const encodedParcellationName = encodeURIComponent(parcellationName)
- return fetch(`${this.constantService.backendUrl}datasets//templateNameParcellationName/${encodedTemplateName}/${encodedParcellationName}`, this.constantService.getFetchOption())
- .then(res => res.json())
- /**
- * remove duplicates
- */
- .then(arr => arr.reduce((acc, item) => {
- const newMap = new Map(acc)
- return newMap.set(item.name, item)
- }, new Map()))
- .then(map => Array.from(map.values() as IDataEntry[]))
+
+ return this.http.get(
+ `${this.constantService.backendUrl}datasets//templateNameParcellationName/${encodedTemplateName}/${encodedParcellationName}`,
+ {
+ headers: this.constantService.getHttpHeader(),
+ responseType: 'json'
+ }
+ ).pipe(
+ map((arr: any[]) => {
+ const map = arr.reduce((acc, item) => {
+ const newMap = new Map(acc)
+ return newMap.set(item.name, item)
+ }, new Map())
+ return Array.from(map.values() as IDataEntry[])
+ })
+ ).toPromise()
}
private fetchData(templateName: string, parcellationName: string) {
diff --git a/src/ui/searchSideNav/searchSideNav.component.spec.ts b/src/ui/searchSideNav/searchSideNav.component.spec.ts
new file mode 100644
index 000000000..d080ecbcb
--- /dev/null
+++ b/src/ui/searchSideNav/searchSideNav.component.spec.ts
@@ -0,0 +1,93 @@
+import { async, TestBed } from '@angular/core/testing'
+import {} from 'jasmine'
+import { AngularMaterialModule } from '../../ui/sharedModules/angularMaterial.module'
+import { UIModule } from '../ui.module'
+import { SearchSideNav } from './searchSideNav.component'
+import { provideMockStore } from '@ngrx/store/testing'
+import { defaultRootState } from 'src/services/stateStore.service'
+import { By } from '@angular/platform-browser'
+import { CdkFixedSizeVirtualScroll } from '@angular/cdk/scrolling'
+import { COLIN, JUBRAIN_COLIN_CH123_LEFT, JUBRAIN_COLIN_CH123_RIGHT, JUBRAIN_COLIN, HttpMockRequestInterceptor } from 'spec/util'
+import { HTTP_INTERCEPTORS } from '@angular/common/http'
+import { ViewerStateController } from '../viewerStateController/viewerStateCFull/viewerState.component'
+
+describe('SearchSideNav component', () => {
+ beforeEach(async(() => {
+ TestBed.configureTestingModule({
+ imports: [
+ AngularMaterialModule,
+ UIModule
+ ],
+ providers: [
+ provideMockStore({ initialState: {
+ ...defaultRootState,
+ uiState: {
+ ...defaultRootState.uiState,
+ sidePanelExploreCurrentViewIsOpen: true
+ },
+ viewerState: {
+ ...defaultRootState.viewerState,
+ templateSelected: COLIN,
+ parcellationSelected: JUBRAIN_COLIN,
+ regionsSelected:[ JUBRAIN_COLIN_CH123_LEFT, JUBRAIN_COLIN_CH123_RIGHT ]
+ }
+ }}),
+ {
+ provide: HTTP_INTERCEPTORS,
+ useClass: HttpMockRequestInterceptor,
+ multi: true
+ }
+
+ ]
+ }).compileComponents()
+ }))
+ it('should create component', () => {
+
+ const fixture = TestBed.createComponent(SearchSideNav);
+ const app = fixture.debugElement.componentInstance;
+
+ expect(app).toBeTruthy();
+
+ })
+
+ it('viewerStateController should be visible', async () => {
+
+ const fixture = TestBed.createComponent(SearchSideNav);
+
+ const vsController = fixture.debugElement.query(By.directive(ViewerStateController))
+ expect(vsController).toBeTruthy();
+ })
+
+ it('when parent size is defined, child component should be of the same size', () => {
+ const fixture = TestBed.createComponent(SearchSideNav)
+
+ fixture.nativeElement.style.width = '1000px'
+ fixture.nativeElement.style.height = '1000px'
+
+ fixture.debugElement.nativeElement.classList.add('h-100', 'w-100', 'd-block', 'overflow-visible')
+
+ fixture.detectChanges()
+
+ expect(fixture.debugElement.nativeElement.style.width).toEqual('1000px')
+ expect(fixture.debugElement.nativeElement.style.height).toEqual('1000px')
+ })
+
+ it('when multiple regions are selected, cdk should be visible', () => {
+
+ const fixture = TestBed.createComponent(SearchSideNav);
+ fixture.nativeElement.style.width = '1000px'
+ fixture.nativeElement.style.height = '1000px'
+
+ fixture.debugElement.nativeElement.classList.add('h-100', 'd-block', 'overflow-visible')
+ fixture.detectChanges()
+
+ expect(fixture.debugElement.nativeElement.clientWidth).toBeGreaterThan(100)
+ expect(fixture.debugElement.nativeElement.clientHeight).toBeGreaterThan(100)
+
+ const cdkViewPort = fixture.debugElement.query(By.directive(CdkFixedSizeVirtualScroll))
+ expect(cdkViewPort).toBeTruthy()
+
+ expect(cdkViewPort.nativeElement.clientWidth).toBeGreaterThan(80)
+ expect(cdkViewPort.nativeElement.clientHeight).toBeGreaterThan(80)
+ })
+})
diff --git a/src/ui/searchSideNav/searchSideNav.style.css b/src/ui/searchSideNav/searchSideNav.style.css
index f8d38603b..402871160 100644
--- a/src/ui/searchSideNav/searchSideNav.style.css
+++ b/src/ui/searchSideNav/searchSideNav.style.css
@@ -3,14 +3,6 @@
height: 55px;
}
-/* exactly 1.5 line height */
-
-.h-117px
-{
- min-height:117px!important;
- flex-basis: 117px!important;
-}
-
.mat-divider-full-width
{
margin-right:-1.5rem;
diff --git a/src/ui/searchSideNav/searchSideNav.template.html b/src/ui/searchSideNav/searchSideNav.template.html
index c2d7ecd59..223de4c5c 100644
--- a/src/ui/searchSideNav/searchSideNav.template.html
+++ b/src/ui/searchSideNav/searchSideNav.template.html
@@ -86,7 +86,7 @@
</div>
<!-- show when regions are selected -->
- <div *ngIf="regionsSelected.length > 0" class="h-100 d-flex flex-column">
+ <div *ngIf="regionsSelected.length > 0" class="flex-grow-1 d-flex flex-column">
<!-- header -->
<div class="flex-grow-0 flex-shrink-0">
@@ -95,7 +95,7 @@
</div>
<!-- body (region descriptor or multi region list) -->
- <div class="flex-grow-1 flex-shrink-1">
+ <div class="flex-grow-1 flex-shrink-1 d-flex flex-column">
<ng-container *ngTemplateOutlet="body">
</ng-container>
</div>
@@ -125,6 +125,9 @@
</ng-template>
<ng-template #body>
+
+ <!-- TODO bug in browser? unless using d-flex here and flex-grow-1 in child, child cannot fille parent, even with h-100 -->
+
<!-- single region -->
<ng-template [ngIf]="regionsSelected.length === 1" [ngIfElse]="multiRegionTemplate">
@@ -139,9 +142,10 @@
</region-list-simple-view>
</ng-template>
+
<!-- multi region -->
<ng-template #multiRegionTemplate>
- <div class="h-100 d-flex flex-column">
+ <div class="flex-grow-1 d-flex flex-row">
<cdk-virtual-scroll-viewport
class="flex-grow-1 flex-shrink-1"
diff --git a/webpack.common.js b/webpack.common.js
index b432b1d51..52e987bdd 100644
--- a/webpack.common.js
+++ b/webpack.common.js
@@ -32,7 +32,8 @@ module.exports = {
alias : {
"third_party" : path.resolve(__dirname,'third_party'),
"src" : path.resolve(__dirname,'src'),
- "common": path.resolve(__dirname, 'common')
+ "common": path.resolve(__dirname, 'common'),
+ "spec": path.resolve(__dirname, 'spec')
}
},
}
\ No newline at end of file
--
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