diff --git a/tmpFeatures/entry/entry.component.ts b/tmpFeatures/entry/entry.component.ts
deleted file mode 100644
index 691af83bd53ab4c5937c283fb3ea93056b917910..0000000000000000000000000000000000000000
--- a/tmpFeatures/entry/entry.component.ts
+++ /dev/null
@@ -1,181 +0,0 @@
-import { Component, Input, OnDestroy } from "@angular/core";
-import { Store } from "@ngrx/store";
-import { TNgAnnotationPoint } from "src/atlasComponents/annotations";
-import { SapiFeatureModel, SapiParcellationModel, SapiRegionModel, SapiSpaceModel, CLEANED_IEEG_DATASET_TYPE } from "src/atlasComponents/sapi";
-import { IeegOnFocusEvent, ContactPoint, Electrode, Session, IeegOnDefocusEvent } from "../ieeg";
-import { atlasSelection, annotation } from "src/state"
-
-@Component({
- selector: 'sxplr-sapiviews-features-entry',
- templateUrl: './entry.template.html',
- styleUrls: [
- './entry.style.css'
- ]
-})
-
-export class FeatureEntryCmp implements OnDestroy{
-
- /**
- * in future, hopefully feature detail can be queried with just id,
- * and atlas/space/parcellation/region are no longer necessary
- */
- @Input('sxplr-sapiviews-features-entry-atlas')
- atlas: SapiFeatureModel
-
- @Input('sxplr-sapiviews-features-entry-space')
- space: SapiSpaceModel
-
- @Input('sxplr-sapiviews-features-entry-parcellation')
- parcellation: SapiParcellationModel
-
- @Input('sxplr-sapiviews-features-entry-region')
- region: SapiRegionModel
-
- @Input('sxplr-sapiviews-features-entry-feature')
- feature: SapiFeatureModel
-
- featureType = {
- receptor: "siibra/features/receptor",
- ieeg: CLEANED_IEEG_DATASET_TYPE
- }
-
- private addedAnnotations: annotation.UnionAnnotation[] = []
-
- ieegOnFocus(ev: IeegOnFocusEvent){
- if (ev.contactPoint) {
- /**
- * navigate to the point
- */
- this.store.dispatch(
- atlasSelection.actions.navigateTo({
- navigation: {
- position: ev.contactPoint.point.coordinates.map(v => v.value * 1e6)
- },
- animation: true
- })
- )
- return
- }
- if (ev.session) {
- /**
- *
- */
- const allInRoiPoints: TNgAnnotationPoint[] = this.getPointsFromSession(ev.session, true)
- const allNonInRoiPoints: TNgAnnotationPoint[] = this.getPointsFromSession(ev.session, false)
- const annotationsToBeAdded: annotation.UnionAnnotation[] = []
- for (const pt of allInRoiPoints) {
- annotationsToBeAdded.push({
- "@id": pt.id,
- color: annotation.AnnotationColor.RED,
- openminds: {
- "@id": pt.id,
- "@type": "https://openminds.ebrains.eu/sands/CoordinatePoint",
- coordinateSpace: {
- "@id": this.space["@id"]
- },
- coordinates: pt.point.map(v => {
- return {
- value: v / 1e6
- }
- })
- },
- name: pt.description || "Untitled"
- })
- }
- for (const pt of allNonInRoiPoints) {
- annotationsToBeAdded.push({
- "@id": pt.id,
- color: annotation.AnnotationColor.WHITE,
- openminds: {
- "@id": pt.id,
- "@type": "https://openminds.ebrains.eu/sands/CoordinatePoint",
- coordinateSpace: {
- "@id": this.space["@id"]
- },
- coordinates: pt.point.map(v => {
- return {
- value: v / 1e6
- }
- })
- },
- name: pt.description || "Untitled"
- })
- }
- this.addedAnnotations = annotationsToBeAdded
- this.store.dispatch(
- annotation.actions.addAnnotations({
- annotations: annotationsToBeAdded
- })
- )
- }
- }
- ieegOnDefocus(ev: IeegOnDefocusEvent){
- if (ev.session) {
- const allInRoiPoints: TNgAnnotationPoint[] = this.getPointsFromSession(ev.session, true)
- const allNonInRoiPoints: TNgAnnotationPoint[] = this.getPointsFromSession(ev.session, false)
-
- this.store.dispatch(
- annotation.actions.rmAnnotations({
- annotations: [...allInRoiPoints, ...allNonInRoiPoints].map(p => {
- return { "@id": p.id }
- })
- })
- )
- }
- }
-
- ngOnDestroy(): void {
- this.store.dispatch(
- annotation.actions.rmAnnotations({
- annotations: this.addedAnnotations
- })
- )
- }
-
- constructor(
- private store: Store
- ){
-
- }
-
- private getPointsFromSession(session: Session<string>, inRoi: boolean):TNgAnnotationPoint[]{
- const allPoints: TNgAnnotationPoint[] = []
- for (const electrodeKey in session.electrodes) {
- const electrode = session.electrodes[electrodeKey]
- const points = this.getPointsFromElectrode(electrode, inRoi)
- allPoints.push(...points)
- }
- return allPoints.map(pt => {
- return {
- ...pt,
- id: `${session.sub_id}:${pt.id}`
- }
- })
- }
-
- private getPointsFromElectrode(electrode: Electrode<string>, inRoi: boolean): TNgAnnotationPoint[] {
- const allPoints: TNgAnnotationPoint[] = []
- for (const ctptKey in electrode.contact_points) {
- const ctpt = electrode.contact_points[ctptKey]
- if (!inRoi !== !ctpt.inRoi) {
- continue
- }
- const point = this.getPointFromCtPt(ctpt)
- allPoints.push(point)
- }
- return allPoints.map(pt => {
- return {
- ...pt,
- id: `${electrode.electrode_id}:${pt.id}`
- }
- })
- }
-
- private getPointFromCtPt(ctpt: ContactPoint<string>): TNgAnnotationPoint {
- return {
- id: ctpt.id,
- point: ctpt.point.coordinates.map(coord => coord.value * 1e6 ) as [number, number, number],
- type: 'point'
- }
- }
-}
diff --git a/tmpFeatures/entry/entry.style.css b/tmpFeatures/entry/entry.style.css
deleted file mode 100644
index e69de29bb2d1d6434b8b29ae775ad8c2e48c5391..0000000000000000000000000000000000000000
diff --git a/tmpFeatures/entry/entry.template.html b/tmpFeatures/entry/entry.template.html
deleted file mode 100644
index 38a00def6eba0d9546e5c729431e4d53a05292bb..0000000000000000000000000000000000000000
--- a/tmpFeatures/entry/entry.template.html
+++ /dev/null
@@ -1,22 +0,0 @@
-<div [ngSwitch]="feature?.['@type']">
- <sxplr-sapiviews-features-receptor-entry
- *ngSwitchCase="featureType.receptor"
- [sxplr-sapiviews-features-receptor-atlas]="atlas"
- [sxplr-sapiviews-features-receptor-parcellation]="parcellation"
- [sxplr-sapiviews-features-receptor-template]="space"
- [sxplr-sapiviews-features-receptor-region]="region"
- [sxplr-sapiviews-features-receptor-featureid]="feature['@id']">
- </sxplr-sapiviews-features-receptor-entry>
- <sxplr-sapiviews-features-ieeg-ieegdataset
- *ngSwitchCase="featureType.ieeg"
- [sxplr-sapiviews-features-ieeg-ieegdataset-atlas]="atlas"
- [sxplr-sapiviews-features-ieeg-ieegdataset-space]="space"
- [sxplr-sapiviews-features-ieeg-ieegdataset-parcellation]="parcellation"
- [sxplr-sapiviews-features-ieeg-ieegdataset-region]="region"
- [sxplr-sapiviews-features-ieeg-ieegdataset-feature]="feature"
- (sxplr-sapiviews-features-ieeg-ieegdataset-on-focus)="ieegOnFocus($event)"
- (sxplr-sapiviews-features-ieeg-ieegdataset-on-defocus)="ieegOnDefocus($event)"
- >
-
- </sxplr-sapiviews-features-ieeg-ieegdataset>
-</div>
diff --git a/tmpFeatures/entryListItem/entryListItem.component.ts b/tmpFeatures/entryListItem/entryListItem.component.ts
deleted file mode 100644
index 8008affe34a6b783fd1b93ed14ee527279e36d04..0000000000000000000000000000000000000000
--- a/tmpFeatures/entryListItem/entryListItem.component.ts
+++ /dev/null
@@ -1,45 +0,0 @@
-import { ChangeDetectionStrategy, Component, Input } from "@angular/core";
-import { SapiFeatureModel } from "src/atlasComponents/sapi";
-import { CleanedIeegDataset, CLEANED_IEEG_DATASET_TYPE, SapiDatasetModel, SapiParcellationFeatureMatrixModel, SapiRegionalFeatureReceptorModel, SapiSerializationErrorModel, SapiVOIDataResponse, SxplrCleanedFeatureModel } from "src/atlasComponents/sapi/type";
-
-@Component({
- selector: `sxplr-sapiviews-features-entry-list-item`,
- templateUrl: `./entryListItem.template.html`,
- styleUrls: [
- `./entryListItem.style.css`
- ],
- changeDetection: ChangeDetectionStrategy.OnPush,
-})
-
-export class SapiViewsFeaturesEntryListItem{
- @Input('sxplr-sapiviews-features-entry-list-item-feature')
- feature: SapiFeatureModel | SxplrCleanedFeatureModel
-
- @Input('sxplr-sapiviews-features-entry-list-item-ripple')
- ripple = true
-
- get label(): string{
- if (!this.feature) return null
- const { '@type': type } = this.feature
- if (
- type === "https://openminds.ebrains.eu/core/DatasetVersion" ||
- type === "siibra/features/cells" ||
- type === "siibra/features/receptor" ||
- type === "siibra/features/voi" ||
- type === CLEANED_IEEG_DATASET_TYPE
- ) {
- return (this.feature as (SapiDatasetModel | SapiRegionalFeatureReceptorModel | SapiVOIDataResponse | CleanedIeegDataset) ).metadata.fullName
- }
-
- if (
- type === "siibra/features/connectivity" ||
- type === "siibra/features/connectivity/streamlineCounts"
- ) {
- return (this.feature as SapiParcellationFeatureMatrixModel).name
- }
- if (type === "spy/serialization-error") {
- return (this.feature as SapiSerializationErrorModel).message
- }
- return "Unknown type"
- }
-}
diff --git a/tmpFeatures/entryListItem/entryListItem.style.css b/tmpFeatures/entryListItem/entryListItem.style.css
deleted file mode 100644
index 58f6c43f50f172f58c7933747209ca04ea5530a2..0000000000000000000000000000000000000000
--- a/tmpFeatures/entryListItem/entryListItem.style.css
+++ /dev/null
@@ -1,5 +0,0 @@
-:host span
-{
- overflow: hidden;
- white-space: nowrap;
-}
diff --git a/tmpFeatures/entryListItem/entryListItem.template.html b/tmpFeatures/entryListItem/entryListItem.template.html
deleted file mode 100644
index fc1ac7920b3599f52aafb071417eb6bb41c0d6e1..0000000000000000000000000000000000000000
--- a/tmpFeatures/entryListItem/entryListItem.template.html
+++ /dev/null
@@ -1,17 +0,0 @@
-<div matRipple [matRippleDisabled]="!ripple"
- class="sxplr-p-2">
-
- <mat-chip-list
- *ngIf="feature | featureBadgeFlag"
- class="sxplr-scale-80 transform-origin-left-center sxplr-pe-none">
- <mat-chip
- [color]="feature | featureBadgeColour"
- selected>
- {{ feature | featureBadgeName }}
- </mat-chip>
- </mat-chip-list>
-
- <span class="d-block mat-body">
- {{ label }}
- </span>
-</div>
diff --git a/tmpFeatures/entryListItem/entryListitem.stories.ts b/tmpFeatures/entryListItem/entryListitem.stories.ts
deleted file mode 100644
index a93cd9816a00d9f29567b8a55ecfe481030e8c31..0000000000000000000000000000000000000000
--- a/tmpFeatures/entryListItem/entryListitem.stories.ts
+++ /dev/null
@@ -1,88 +0,0 @@
-import { CommonModule } from "@angular/common"
-import { Meta, moduleMetadata, Story } from "@storybook/angular"
-import { SapiFeatureModel } from "src/atlasComponents/sapi"
-import { getHoc1RightFeatures, getHoc1RightSpatialFeatures, getJba29Features, provideDarkTheme } from "src/atlasComponents/sapi/stories.base"
-import { AngularMaterialModule } from "src/sharedModules"
-import { SapiViewsFeaturesEntryListItem } from "./entryListItem.component"
-import { Component, EventEmitter, Input, Output } from "@angular/core"
-import { SapiViewsFeaturesModule } from ".."
-
-@Component({
- selector: `feature-list-item-wrapper`,
- template: `
- <mat-card>
- <sxplr-sapiviews-features-entry-list-item
- *ngFor="let feat of features"
- (click)="clicked.emit(feat)"
- [sxplr-sapiviews-features-entry-list-item-feature]="feat"
- [sxplr-sapiviews-features-entry-list-item-ripple]="ripple">
- </sxplr-sapiviews-features-entry-list-item>
- </mat-card>
- `
-})
-
-class FeatureListItemWrapper {
- features: SapiFeatureModel[] = []
-
- @Input()
- ripple: boolean = true
-
- @Output()
- clicked = new EventEmitter()
-}
-
-export default {
- component: FeatureListItemWrapper,
- decorators: [
- moduleMetadata({
- imports: [
- CommonModule,
- AngularMaterialModule,
- SapiViewsFeaturesModule,
- ],
- declarations: [],
- providers: [
- ...provideDarkTheme,
- ],
- })
- ],
-
-} as Meta
-
-const Template: Story<SapiViewsFeaturesEntryListItem> = (args: SapiViewsFeaturesEntryListItem, { loaded }) => {
- const { features } = loaded
- return ({
- props: {
- ...args,
- features
- },
- })
-}
-
-
-export const RegionalFeatures = Template.bind({})
-RegionalFeatures.args = {
-
-}
-RegionalFeatures.loaders = [
- async () => {
- const features = [
- ...(await getHoc1RightSpatialFeatures()),
- ...(await getHoc1RightFeatures())
- ]
- return {
- features
- }
- }
-]
-
-export const ParcellationFeatures = Template.bind({})
-ParcellationFeatures.loaders = [
- async () => {
-
- const features = await getJba29Features()
- return {
- features
- }
- }
-]
\ No newline at end of file
diff --git a/tmpFeatures/featureBadgeColor.pipe.ts b/tmpFeatures/featureBadgeColor.pipe.ts
deleted file mode 100644
index 474d6a2adfe72257c35a406abde767ab7054f143..0000000000000000000000000000000000000000
--- a/tmpFeatures/featureBadgeColor.pipe.ts
+++ /dev/null
@@ -1,19 +0,0 @@
-import { Pipe, PipeTransform } from "@angular/core";
-import { SapiFeatureModel, SxplrCleanedFeatureModel, CLEANED_IEEG_DATASET_TYPE } from "src/atlasComponents/sapi";
-
-@Pipe({
- name: 'featureBadgeColour',
- pure: true
-})
-
-export class FeatureBadgeColourPipe implements PipeTransform{
- public transform(regionalFeature: SapiFeatureModel|SxplrCleanedFeatureModel) {
- if (regionalFeature['@type'] === "siibra/features/receptor") {
- return "accent"
- }
- if (regionalFeature['@type'] === CLEANED_IEEG_DATASET_TYPE) {
- return "primary"
- }
- return "default"
- }
-}
diff --git a/tmpFeatures/featureBadgeFlag.pipe.ts b/tmpFeatures/featureBadgeFlag.pipe.ts
deleted file mode 100644
index 986edffac941e522ee27d76dd3ab626aa40b993d..0000000000000000000000000000000000000000
--- a/tmpFeatures/featureBadgeFlag.pipe.ts
+++ /dev/null
@@ -1,14 +0,0 @@
-import { Pipe, PipeTransform } from "@angular/core";
-import { SapiFeatureModel, SxplrCleanedFeatureModel, CLEANED_IEEG_DATASET_TYPE } from "src/atlasComponents/sapi";
-
-@Pipe({
- name: 'featureBadgeFlag',
- pure: true
-})
-
-export class FeatureBadgeFlagPipe implements PipeTransform{
- public transform(regionalFeature: SapiFeatureModel|SxplrCleanedFeatureModel) {
- return regionalFeature['@type'] === "siibra/features/receptor"
- || regionalFeature['@type'] === CLEANED_IEEG_DATASET_TYPE
- }
-}
diff --git a/tmpFeatures/featureBadgeName.pipe.ts b/tmpFeatures/featureBadgeName.pipe.ts
deleted file mode 100644
index 33570440c6aa4c0f601d7171cac61cce7c42e712..0000000000000000000000000000000000000000
--- a/tmpFeatures/featureBadgeName.pipe.ts
+++ /dev/null
@@ -1,19 +0,0 @@
-import { Pipe, PipeTransform } from "@angular/core";
-import { SapiFeatureModel, SxplrCleanedFeatureModel, CLEANED_IEEG_DATASET_TYPE } from "src/atlasComponents/sapi";
-
-@Pipe({
- name: 'featureBadgeName',
- pure: true
-})
-
-export class FeatureBadgeNamePipe implements PipeTransform{
- public transform(regionalFeature: SapiFeatureModel|SxplrCleanedFeatureModel) {
- if (regionalFeature['@type'] === "siibra/features/receptor") {
- return "receptor density"
- }
- if (regionalFeature["@type"] === CLEANED_IEEG_DATASET_TYPE) {
- return "IEEG dataset"
- }
- return null
- }
-}
diff --git a/tmpFeatures/ieeg/ieegDataset/ieegDataset.component.ts b/tmpFeatures/ieeg/ieegDataset/ieegDataset.component.ts
deleted file mode 100644
index de23194ff366b475d57954b3050aa2cf94cfb256..0000000000000000000000000000000000000000
--- a/tmpFeatures/ieeg/ieegDataset/ieegDataset.component.ts
+++ /dev/null
@@ -1,113 +0,0 @@
-import { Component, EventEmitter, Input, OnChanges, OnDestroy, Output, SimpleChanges } from "@angular/core";
-import { BehaviorSubject, forkJoin } from "rxjs";
-import { SAPI } from "src/atlasComponents/sapi/sapi.service";
-import { CleanedIeegDataset, cleanIeegSessionDatasets, SapiAtlasModel, SapiIeegSessionModel, SapiParcellationModel, SapiRegionModel, SapiSpaceModel } from "src/atlasComponents/sapi/type";
-
-export type Session<SId extends string> = CleanedIeegDataset['sessions'][SId]
-export type Electrode<EId extends string> = Session<string>['electrodes'][EId]
-export type ContactPoint<CId extends string> = Electrode<string>['contact_points'][CId]
-
-export type IeegOnFocusEvent = {
- contactPoint: ContactPoint<string>
- electrode: Electrode<string>
- session: Session<string>
-}
-
-export type IeegOnDefocusEvent = {
- contactPoint: ContactPoint<string>
- electrode: Electrode<string>
- session: Session<string>
-}
-
-@Component({
- selector: `sxplr-sapiviews-features-ieeg-ieegdataset`,
- templateUrl: `./ieegDataset.template.html`,
- styleUrls: [
- `./ieegDataset.style.css`
- ]
-})
-
-export class IEEGDatasetCmp implements OnChanges{
-
- @Input('sxplr-sapiviews-features-ieeg-ieegdataset-atlas')
- public atlas: SapiAtlasModel
-
- @Input('sxplr-sapiviews-features-ieeg-ieegdataset-space')
- public space: SapiSpaceModel
-
- @Input('sxplr-sapiviews-features-ieeg-ieegdataset-parcellation')
- public parcellation: SapiParcellationModel
-
- @Input('sxplr-sapiviews-features-ieeg-ieegdataset-region')
- public region: SapiRegionModel
-
- /**
- * we must assume that the passed feature does not have the detail flag on
- * We need to fetch the
- */
- @Input('sxplr-sapiviews-features-ieeg-ieegdataset-feature')
- public feature: CleanedIeegDataset
- public detailedFeature: CleanedIeegDataset
-
- @Output('sxplr-sapiviews-features-ieeg-ieegdataset-on-focus')
- public onFocus = new EventEmitter<IeegOnFocusEvent>()
-
- @Output('sxplr-sapiviews-features-ieeg-ieegdataset-on-defocus')
- public onDefocus = new EventEmitter<IeegOnDefocusEvent>()
-
- public busy$ = new BehaviorSubject<boolean>(false)
-
- ngOnChanges(changes: SimpleChanges): void {
- if (!this.feature) {
- return
- }
- if (this.feature && this.feature["@type"] !== "sxplr/cleanedIeegDataset") {
- throw new Error(`expected @type to be sxplr-cleaned-ieeg-dataset, but is ${this.feature['@type']}.`)
- }
- this.busy$.next(true)
-
- forkJoin(
- Object.entries(this.feature.sessions).map(([ key, session ]) => {
- return this.sapi.getSpace(this.atlas["@id"], this.space["@id"]).getFeatureInstance(session["@id"], { parcellationId: this.parcellation["@id"], region: this.region.name })
- })
- ).subscribe(feats => {
-
- const ieegSessions: SapiIeegSessionModel[] = feats.filter(feat => feat["@type"] === "siibra/features/ieegSession")
- const features = cleanIeegSessionDatasets(ieegSessions)
- const foundFeat = features.find(f => f["@id"] === this.feature["@id"])
- if (foundFeat) {
- this.detailedFeature = foundFeat
- }
- this.busy$.next(false)
- })
- }
-
- public onContactPointClicked(cpt: ContactPoint<string>, ele: Electrode<string>, sess: Session<string>){
- this.onFocus.emit({
- contactPoint: cpt,
- electrode: ele,
- session: sess
- })
- }
-
- public onPanelOpen(session: Session<string>){
- this.onFocus.emit({
- contactPoint: null,
- electrode: null,
- session: session
- })
- }
-
- public onPanelClose(session: Session<string>){
- this.onDefocus.emit({
- contactPoint: null,
- electrode: null,
- session: session
- })
- }
-
- constructor(private sapi: SAPI){
-
- }
-
-}
diff --git a/tmpFeatures/ieeg/ieegDataset/ieegDataset.stories.ts b/tmpFeatures/ieeg/ieegDataset/ieegDataset.stories.ts
deleted file mode 100644
index c9f08880e4525ab8c2d9f550abee83bf60c876fc..0000000000000000000000000000000000000000
--- a/tmpFeatures/ieeg/ieegDataset/ieegDataset.stories.ts
+++ /dev/null
@@ -1,113 +0,0 @@
-import { Meta, moduleMetadata, Story } from "@storybook/angular"
-import { SAPI, SapiAtlasModel, SapiParcellationModel, SapiRegionModel, SapiSpaceModel } from "src/atlasComponents/sapi"
-import { getHoc1Right, getHumanAtlas, getJba29, getMni152, provideDarkTheme, getMni152SpatialFeatureHoc1Right } from "src/atlasComponents/sapi/stories.base"
-import { SxplrSapiViewsFeaturesIeegModule } from ".."
-import { Component } from "@angular/core"
-import { cleanIeegSessionDatasets, SapiSpatialFeatureModel } from "src/atlasComponents/sapi/type"
-import { action } from "@storybook/addon-actions"
-
-@Component({
- selector: 'ieeg-entry-wrapper-cmp',
- template: `
- <sxplr-sapiviews-features-ieeg-ieegdataset
- [sxplr-sapiviews-features-ieeg-ieegdataset-atlas]="atlas"
- [sxplr-sapiviews-features-ieeg-ieegdataset-space]="template"
- [sxplr-sapiviews-features-ieeg-ieegdataset-parcellation]="parcellation"
- [sxplr-sapiviews-features-ieeg-ieegdataset-region]="region"
- [sxplr-sapiviews-features-ieeg-ieegdataset-feature]="feature"
- (sxplr-sapiviews-features-ieeg-ieegdataset-on-focus)="handleCtptClick($event)"
- (sxplr-sapiviews-features-ieeg-ieegdataset-on-defocus)="handleOnDeFocus($event)"
- >
- </sxplr-sapiviews-features-ieeg-ieegdataset>
- `,
- styles: [
- `
- :host
- {
- display: block;
- width: 20rem;
- }
- `
- ]
-})
-class EntryWrappercls {
- atlas: SapiAtlasModel
- template: SapiSpaceModel
- feature: SapiSpatialFeatureModel
- parcellation: SapiParcellationModel
- region: SapiRegionModel
-
- handleOnFocus(cpt: unknown){}
- handleOnDeFocus(cpt: unknown) {}
-}
-
-export default {
- component: EntryWrappercls,
- decorators: [
- moduleMetadata({
- imports: [
- SxplrSapiViewsFeaturesIeegModule,
- ],
- providers: [
- SAPI,
- ...provideDarkTheme,
- ],
- declarations: [
- EntryWrappercls
- ]
- })
- ],
-} as Meta
-
-const Template: Story<EntryWrappercls> = (args: EntryWrappercls, { loaded }) => {
- const { atlas, parc, space, region, feature } = loaded
- return ({
- props: {
- ...args,
- atlas: atlas,
- parcellation: parc,
- template: space,
- region: region,
- feature,
- handleOnFocus: action('handleOnFocus'),
- handleOnDeFocus: action('handleOnDeFocus')
- },
- })
-}
-
-const loadFeat = async () => {
- const atlas = await getHumanAtlas()
- const space = await getMni152()
- const parc = await getJba29()
- const region = await getHoc1Right()
-
- const features = await getMni152SpatialFeatureHoc1Right()
- const spatialFeats = features.filter(f => f["@type"] === "siibra/features/ieegSession")
- const feature = cleanIeegSessionDatasets(spatialFeats)[0]
- return {
- atlas,
- space,
- parc,
- region,
- feature
- }
-}
-
-export const Default = Template.bind({})
-Default.args = {
-
-}
-Default.loaders = [
- async () => {
- const {
- atlas,
- space,
- feature,
- parc,
- region,
- } = await loadFeat()
- return {
- atlas, space, feature, parc, region
- }
- }
-]
diff --git a/tmpFeatures/ieeg/ieegDataset/ieegDataset.style.css b/tmpFeatures/ieeg/ieegDataset/ieegDataset.style.css
deleted file mode 100644
index 1c554eef70e8adae01cba4530c534a389ce6c93a..0000000000000000000000000000000000000000
--- a/tmpFeatures/ieeg/ieegDataset/ieegDataset.style.css
+++ /dev/null
@@ -1,4 +0,0 @@
-mat-form-field
-{
- width: 100%;
-}
diff --git a/tmpFeatures/ieeg/ieegDataset/ieegDataset.template.html b/tmpFeatures/ieeg/ieegDataset/ieegDataset.template.html
deleted file mode 100644
index af7464f5e24b254d42985ef55766f755696c4909..0000000000000000000000000000000000000000
--- a/tmpFeatures/ieeg/ieegDataset/ieegDataset.template.html
+++ /dev/null
@@ -1,112 +0,0 @@
-<spinner-cmp *ngIf="busy$ | async; else resultTmpl">
-</spinner-cmp>
-
-<ng-template #resultTmpl>
-
- <mat-accordion *ngIf="!!detailedFeature">
- <ng-template
- ngFor
- [ngForOf]="detailedFeature.sessions | keyvalue"
- let-sessionKeyVal>
-
- <ng-template
- [ngIf]="sessionKeyVal.value.inRoi"
- [ngTemplateOutlet]="sessionTmpl"
- [ngTemplateOutletContext]="{
- $implicit: sessionKeyVal.value
- }">
-
- </ng-template>
-
- </ng-template>
- </mat-accordion>
-
-</ng-template>
-
-<!-- session template -->
-<ng-template #sessionTmpl let-session>
- <mat-expansion-panel
- (opened)="onPanelOpen(session)"
- (closed)="onPanelClose(session)">
- <mat-expansion-panel-header>
- SessionID: {{ session.sub_id }}
- </mat-expansion-panel-header>
-
- <ng-template matExpansionPanelContent>
- <ng-template
- ngFor
- [ngForOf]="session.electrodes | keyvalue | inRoi"
- let-electrodeKeyVal>
- <ng-template
- [ngTemplateOutlet]="electrodeTmpl"
- [ngTemplateOutletContext]="{
- electrode: electrodeKeyVal.value,
- session: session
- }">
-
- </ng-template>
- </ng-template>
-
- <mat-divider></mat-divider>
- <ng-template
- ngFor
- [ngForOf]="session.electrodes | keyvalue | inRoi : false"
- let-electrodeKeyVal>
- <div class="sxplr-very-muted">
- <ng-template
- [ngTemplateOutlet]="electrodeTmpl"
- [ngTemplateOutletContext]="{
- electrode: electrodeKeyVal.value,
- session: session
- }">
-
- </ng-template>
- </div>
- </ng-template>
- </ng-template>
- </mat-expansion-panel>
-</ng-template>
-
-<!-- electrode template -->
-<ng-template
- #electrodeTmpl
- let-electrode="electrode"
- let-session="session">
- <mat-form-field appearance="fill">
- <mat-label>
- ElectrodeID: {{ electrode.electrode_id }}
- </mat-label>
- <mat-chip-list>
- <ng-template
- ngFor
- [ngForOf]="electrode.contact_points | keyvalue"
- let-contactPointKeyVal>
-
- <ng-template
- [ngTemplateOutlet]="contactPointTmpl"
- [ngTemplateOutletContext]="{
- contactPointKey: contactPointKeyVal.key,
- contactPoint: contactPointKeyVal.value,
- electrode: electrode,
- session: session
- }">
- </ng-template>
- </ng-template>
- </mat-chip-list>
- </mat-form-field>
-</ng-template>
-
-<!-- contact point template -->
-<ng-template
- #contactPointTmpl
- let-contactPoint="contactPoint"
- let-key="contactPointKey"
- let-electrode="electrode"
- let-session="session">
- <mat-chip
- (click)="onContactPointClicked(contactPoint, electrode, session)"
- [color]="contactPoint.inRoi ? 'primary' : 'default'"
- selected>
- {{ key }}
- </mat-chip>
-</ng-template>
\ No newline at end of file
diff --git a/tmpFeatures/ieeg/inRoi.pipe.ts b/tmpFeatures/ieeg/inRoi.pipe.ts
deleted file mode 100644
index 4f215c8ccd96ff7af503abc521e3c6558383c234..0000000000000000000000000000000000000000
--- a/tmpFeatures/ieeg/inRoi.pipe.ts
+++ /dev/null
@@ -1,19 +0,0 @@
-import { Pipe, PipeTransform } from "@angular/core";
-
-interface InRoi {
- key: string
- value: {
- inRoi: boolean
- }
-}
-
-@Pipe({
- name: 'inRoi',
- pure: true
-})
-
-export class InRoiPipe implements PipeTransform{
- public transform(list: InRoi[], inroi=true): InRoi[] {
- return list.filter(it => it.value.inRoi === inroi)
- }
-}
diff --git a/tmpFeatures/ieeg/index.ts b/tmpFeatures/ieeg/index.ts
deleted file mode 100644
index 757808e777ca4f96b83bba521ab6c71d3903cfaa..0000000000000000000000000000000000000000
--- a/tmpFeatures/ieeg/index.ts
+++ /dev/null
@@ -1,2 +0,0 @@
-export { IEEGDatasetCmp, IeegOnFocusEvent, IeegOnDefocusEvent, ContactPoint, Electrode, Session } from "./ieegDataset/ieegDataset.component"
-export { SxplrSapiViewsFeaturesIeegModule } from "./module"
\ No newline at end of file
diff --git a/tmpFeatures/ieeg/module.ts b/tmpFeatures/ieeg/module.ts
deleted file mode 100644
index c91161eac8e261121aaa58e583265961b324c007..0000000000000000000000000000000000000000
--- a/tmpFeatures/ieeg/module.ts
+++ /dev/null
@@ -1,33 +0,0 @@
-import { CommonModule } from "@angular/common";
-import { NgModule } from "@angular/core";
-import { MatChipsModule } from "@angular/material/chips";
-import { MatDividerModule } from "@angular/material/divider";
-import { MatExpansionModule } from "@angular/material/expansion";
-import { MatFormFieldModule } from "@angular/material/form-field";
-import { BrowserAnimationsModule } from "@angular/platform-browser/animations";
-import { SAPIModule } from "src/atlasComponents/sapi/module";
-import { SpinnerModule } from "src/components/spinner";
-import { IEEGDatasetCmp } from "./ieegDataset/ieegDataset.component";
-import { InRoiPipe } from "./inRoi.pipe";
-
-@NgModule({
- imports: [
- CommonModule,
- MatExpansionModule,
- MatChipsModule,
- MatFormFieldModule,
- MatDividerModule,
- BrowserAnimationsModule,
- SpinnerModule,
- SAPIModule,
- ],
- declarations: [
- IEEGDatasetCmp,
- InRoiPipe,
- ],
- exports: [
- IEEGDatasetCmp,
- ]
-})
-
-export class SxplrSapiViewsFeaturesIeegModule{}
\ No newline at end of file
diff --git a/tmpFeatures/index.ts b/tmpFeatures/index.ts
deleted file mode 100644
index 89e1fafbad8108576c708d401326b2d5f4137f6d..0000000000000000000000000000000000000000
--- a/tmpFeatures/index.ts
+++ /dev/null
@@ -1,7 +0,0 @@
-export {
- SapiViewsFeaturesModule
-} from "./module"
-
-export {
- SapiViewsFeaturesVoiQuery
-} from "./voi"
diff --git a/tmpFeatures/module.ts b/tmpFeatures/module.ts
deleted file mode 100644
index 54651dc2803d82c80fb2f025d45dc3a0cbe11fda..0000000000000000000000000000000000000000
--- a/tmpFeatures/module.ts
+++ /dev/null
@@ -1,53 +0,0 @@
-import { CommonModule, DOCUMENT } from "@angular/common"
-import { NgModule } from "@angular/core"
-import { AngularMaterialModule } from "src/sharedModules"
-import { appendScriptFactory, APPEND_SCRIPT_TOKEN } from "src/util/constants"
-import { FeatureEntryCmp } from "./entry/entry.component"
-import { SapiViewsFeaturesEntryListItem } from "./entryListItem/entryListItem.component"
-import { FeatureBadgeColourPipe } from "./featureBadgeColor.pipe"
-import { FeatureBadgeFlagPipe } from "./featureBadgeFlag.pipe"
-import { FeatureBadgeNamePipe } from "./featureBadgeName.pipe"
-import * as ieeg from "./ieeg"
-import * as receptor from "./receptors"
-import * as voi from "./voi"
-import { OrderFilterFeaturesPipe } from "./orderFilterFeatureList.pipe"
-
-const {
- SxplrSapiViewsFeaturesIeegModule
-} = ieeg
-const {
- ReceptorViewModule
-} = receptor
-const { SapiViewsFeaturesVoiModule } = voi
-
-@NgModule({
- imports: [
- CommonModule,
- ReceptorViewModule,
- SxplrSapiViewsFeaturesIeegModule,
- AngularMaterialModule,
- SapiViewsFeaturesVoiModule,
- ],
- declarations: [
- FeatureEntryCmp,
- FeatureBadgeNamePipe,
- FeatureBadgeColourPipe,
- FeatureBadgeFlagPipe,
- SapiViewsFeaturesEntryListItem,
- OrderFilterFeaturesPipe,
- ],
- providers: [
- {
- provide: APPEND_SCRIPT_TOKEN,
- useFactory: appendScriptFactory,
- deps: [ DOCUMENT ]
- }
- ],
- exports: [
- FeatureEntryCmp,
- SapiViewsFeaturesEntryListItem,
- SapiViewsFeaturesVoiModule,
- OrderFilterFeaturesPipe,
- ]
-})
-export class SapiViewsFeaturesModule{}
diff --git a/tmpFeatures/orderFilterFeatureList.pipe.ts b/tmpFeatures/orderFilterFeatureList.pipe.ts
deleted file mode 100644
index 382862b0300f4bdaffadce20aeb4e28274a8bef6..0000000000000000000000000000000000000000
--- a/tmpFeatures/orderFilterFeatureList.pipe.ts
+++ /dev/null
@@ -1,37 +0,0 @@
-import { Pipe, PipeTransform } from "@angular/core";
-import { CLEANED_IEEG_DATASET_TYPE, SapiFeatureModel, SxplrCleanedFeatureModel } from "src/atlasComponents/sapi/type";
-import { environment } from "src/environments/environment"
-
-type PipableFeatureType = SapiFeatureModel | SxplrCleanedFeatureModel
-
-type ArrayOperation<T extends boolean | number> = (input: PipableFeatureType) => T
-
-const FILTER_FN: ArrayOperation<boolean> = feature => {
- return feature["@type"] !== "siibra/features/cells"
-}
-
-const ORDER_LIST: ArrayOperation<number> = feature => {
- if (feature["@type"] === "siibra/features/receptor") return -4
- if (feature["@type"] === CLEANED_IEEG_DATASET_TYPE) return -3
- if (feature['@type'] === "https://openminds.ebrains.eu/core/DatasetVersion") return 2
- return 0
-}
-
-@Pipe({
- name: 'orderFilterFeatures',
- pure: true
-})
-
-export class OrderFilterFeaturesPipe implements PipeTransform{
- public transform(inputFeatures: PipableFeatureType[]): PipableFeatureType[] {
- return inputFeatures
- .filter(f => {
- /**
- * if experimental flag is set, do not filter out anything
- */
- if (environment.EXPERIMENTAL_FEATURE_FLAG) return true
- return FILTER_FN(f)
- })
- .sort((a, b) => ORDER_LIST(a) - ORDER_LIST(b))
- }
-}
diff --git a/tmpFeatures/receptors/autoradiography/autoradiograph.stories.ts b/tmpFeatures/receptors/autoradiography/autoradiograph.stories.ts
deleted file mode 100644
index 093ec6a110eaca060b0bf3e48204026ee5ed1946..0000000000000000000000000000000000000000
--- a/tmpFeatures/receptors/autoradiography/autoradiograph.stories.ts
+++ /dev/null
@@ -1,146 +0,0 @@
-import { CommonModule } from "@angular/common"
-import { HttpClientModule } from "@angular/common/http"
-import { Component, ViewChild } from "@angular/core"
-import { FormsModule } from "@angular/forms"
-import { BrowserAnimationsModule } from "@angular/platform-browser/animations"
-import { Meta, moduleMetadata, Story } from "@storybook/angular"
-import { SAPI, SapiAtlasModel, SapiParcellationModel, SapiRegionModel, SapiSpaceModel } from "src/atlasComponents/sapi"
-import { getHoc1RightFeatureDetail, getHoc1RightFeatures, getHoc1Right, getHumanAtlas, getJba29, getMni152 } from "src/atlasComponents/sapi/stories.base"
-import { SapiRegionalFeatureReceptorModel } from "src/atlasComponents/sapi/type"
-import { AngularMaterialModule } from "src/sharedModules"
-import { Autoradiography } from "./autoradiography.component"
-
-@Component({
- selector: 'autoradiograph-wrapper-cmp',
- template: `
- <mat-form-field appearance="fill">
- <mat-select [(ngModel)]="selectedSymbol">
- <mat-option value="" disabled>
- --select--
- </mat-option>
-
- <mat-option [value]="option"
- *ngFor="let option of options">
- {{ option }}
- </mat-option>
- </mat-select>
- </mat-form-field>
- <sxplr-sapiviews-features-receptor-autoradiograph
- class="d-inline-block w-100 h-100"
- [sxplr-sapiviews-features-receptor-atlas]="atlas"
- [sxplr-sapiviews-features-receptor-parcellation]="parcellation"
- [sxplr-sapiviews-features-receptor-template]="template"
- [sxplr-sapiviews-features-receptor-region]="region"
- [sxplr-sapiviews-features-receptor-featureid]="featureId"
- [sxplr-sapiviews-features-receptor-data]="feature"
- [sxplr-sapiviews-features-receptor-autoradiograph-selected-symbol]="selectedSymbol"
- >
- </sxplr-sapiviews-features-receptor-autoradiograph>
- `,
- styles: [
- `
- :host
- {
- display: block;
- max-width: 24rem;
- max-height: 24rem;
- }
- `
- ]
-})
-class AutoRadiographWrapperCls {
- atlas: SapiAtlasModel
- parcellation: SapiParcellationModel
- template: SapiSpaceModel
- region: SapiRegionModel
-
- feature: SapiRegionalFeatureReceptorModel
- featureId: string
-
- @ViewChild(Autoradiography)
- ar: Autoradiography
-
- selectedSymbol: string
-
- get options(){
- return Object.keys(this.feature?.data?.autoradiographs || this.ar?.receptorData?.data?.autoradiographs || {})
- }
-}
-
-export default {
- component: AutoRadiographWrapperCls,
- decorators: [
- moduleMetadata({
- imports: [
- CommonModule,
- AngularMaterialModule,
- HttpClientModule,
- BrowserAnimationsModule,
- FormsModule,
- ],
- providers: [
- SAPI
- ],
- declarations: [
- Autoradiography
- ]
- })
- ],
-} as Meta
-
-const Template: Story<AutoRadiographWrapperCls> = (args: AutoRadiographWrapperCls, { loaded }) => {
- const { atlas, parc, space, region, featureId, feature } = loaded
- return ({
- props: {
- ...args,
- atlas: atlas,
- parcellation: parc,
- template: space,
- region: region,
- feature,
- featureId,
- },
- })
-}
-
-const loadFeat = async () => {
- const atlas = await getHumanAtlas()
- const parc = await getJba29()
- const region = await getHoc1Right()
- const space = await getMni152()
- const features = await getHoc1RightFeatures()
- const receptorfeat = features.find(f => f['@type'] === "siibra/features/receptor")
- const feature = await getHoc1RightFeatureDetail(receptorfeat["@id"])
- return {
- atlas,
- parc,
- space,
- region,
- featureId: receptorfeat["@id"],
- feature
- }
-}
-
-export const Default = Template.bind({})
-Default.args = {
-
-}
-Default.loaders = [
- async () => {
- const { atlas, parc, space, region, featureId } = await loadFeat()
- return {
- atlas, parc, space, region, featureId
- }
- }
-]
-
-export const LoadViaDirectlyInjectData = Template.bind({})
-LoadViaDirectlyInjectData.loaders = [
- async () => {
-
- const { feature } = await loadFeat()
- return {
- feature
- }
- }
-]
\ No newline at end of file
diff --git a/tmpFeatures/receptors/autoradiography/autoradiography.component.ts b/tmpFeatures/receptors/autoradiography/autoradiography.component.ts
deleted file mode 100644
index ecd059f0a8fd1411e9a5c7b211c7aac78cff91ae..0000000000000000000000000000000000000000
--- a/tmpFeatures/receptors/autoradiography/autoradiography.component.ts
+++ /dev/null
@@ -1,82 +0,0 @@
-import { AfterViewInit, Component, ElementRef, Input, OnChanges, SimpleChanges } from "@angular/core";
-import { SAPI } from "src/atlasComponents/sapi";
-import { PARSE_TYPEDARRAY } from "src/atlasComponents/sapi/sapi.service";
-import { BaseReceptor } from "../base";
-
-@Component({
- selector: `sxplr-sapiviews-features-receptor-autoradiograph`,
- templateUrl: './autoradiography.template.html',
- styleUrls: [
- './autoradiography.style.css'
- ],
- exportAs: 'sxplrSapiViewsFeaturesReceptorAR'
-})
-
-export class Autoradiography extends BaseReceptor implements OnChanges, AfterViewInit{
-
- @Input('sxplr-sapiviews-features-receptor-autoradiograph-selected-symbol')
- selectedSymbol: string
-
- private pleaseRender = false
-
- width: number
- height: number
- renderBuffer: Uint8ClampedArray
-
- async ngOnChanges(simpleChanges: SimpleChanges) {
- await super.ngOnChanges(simpleChanges)
- if (!this.receptorData) {
- return
- }
- if (this.selectedSymbol) {
- const fp = this.receptorData.data.autoradiographs[this.selectedSymbol]
- if (!fp) {
- this.error = `selectedSymbol ${this.selectedSymbol} cannot be found. Valid symbols are ${Object.keys(this.receptorData.data.autoradiographs)}`
- return
- }
- const { "x-width": width, "x-height": height } = fp
-
- this.width = width
- this.height = height
-
- const { result } = await this.sapi.processNpArrayData<PARSE_TYPEDARRAY.CANVAS_FORTRAN_RGBA>(fp, PARSE_TYPEDARRAY.CANVAS_FORTRAN_RGBA)
- this.renderBuffer = result
- this.rerender()
- }
- }
- constructor(sapi: SAPI, private el: ElementRef){
- super(sapi)
- }
-
- ngAfterViewInit(): void {
- if (this.pleaseRender) this.rerender()
- }
-
- rerender(){
- this.dataBlobAvailable = false
- if (!this.el || !this.renderBuffer) {
- this.pleaseRender = true
- return
- }
-
- const arContainer = (this.el.nativeElement as HTMLElement)
- while (arContainer.firstChild) {
- arContainer.removeChild(arContainer.firstChild)
- }
-
- const canvas = document.createElement("canvas")
- canvas.height = this.height
- canvas.width = this.width
- arContainer.appendChild(canvas)
- const ctx = canvas.getContext("2d")
- const imgData = ctx.createImageData(this.width, this.height)
- imgData.data.set(this.renderBuffer)
- ctx.putImageData(imgData, 0, 0)
-
- canvas.toBlob(blob => {
- this.dataBlobAvailable = true
- this.dataBlob$.next(blob)
- })
- this.pleaseRender = false
- }
-}
diff --git a/tmpFeatures/receptors/autoradiography/autoradiography.style.css b/tmpFeatures/receptors/autoradiography/autoradiography.style.css
deleted file mode 100644
index e69de29bb2d1d6434b8b29ae775ad8c2e48c5391..0000000000000000000000000000000000000000
diff --git a/tmpFeatures/receptors/autoradiography/autoradiography.template.html b/tmpFeatures/receptors/autoradiography/autoradiography.template.html
deleted file mode 100644
index e69de29bb2d1d6434b8b29ae775ad8c2e48c5391..0000000000000000000000000000000000000000
diff --git a/tmpFeatures/receptors/base.ts b/tmpFeatures/receptors/base.ts
deleted file mode 100644
index b3107f4e9b25072fadc873eb71fe1a0c08a3c043..0000000000000000000000000000000000000000
--- a/tmpFeatures/receptors/base.ts
+++ /dev/null
@@ -1,100 +0,0 @@
-import { Directive, Input, SimpleChanges } from "@angular/core";
-import { BehaviorSubject } from "rxjs";
-import { SAPI, SapiAtlasModel, SapiParcellationModel, SapiRegionModel, SapiSpaceModel } from "src/atlasComponents/sapi";
-import { TabularFeature } from "src/atlasComponents/sapi/sxplrTypes"
-
-@Directive()
-export abstract class BaseReceptor{
-
- @Input('sxplr-sapiviews-features-receptor-atlas')
- atlas: SapiAtlasModel
-
- @Input('sxplr-sapiviews-features-receptor-parcellation')
- parcellation: SapiParcellationModel
-
- @Input('sxplr-sapiviews-features-receptor-template')
- template: SapiSpaceModel
-
- @Input('sxplr-sapiviews-features-receptor-region')
- region: SapiRegionModel
-
- @Input('sxplr-sapiviews-features-receptor-featureid')
- featureId: string
-
- @Input('sxplr-sapiviews-features-receptor-data')
- receptorData: TabularFeature<number>
-
- error: string
-
- async ngOnChanges(simpleChanges: SimpleChanges) {
- if (simpleChanges.receptorData?.currentValue) {
- this.rerender()
- return
- }
- if (this.canFetch) {
- this.receptorData = await this.fetchReceptorData()
- this.rerender()
- }
- }
-
- private get canFetch() {
- if (!this.atlas) {
- this.error = `atlas needs to be defined, but is not`
- return false
- }
- if (!this.parcellation) {
- this.error = `parcellation needs to be defined, but is not`
- return false
- }
- if (!this.region) {
- this.error = `region needs to be defined, but is not`
- return false
- }
- if (!this.featureId) {
- this.error = `featureId needs to be defined, but is not`
- return false
- }
- return true
- }
-
- protected async fetchReceptorData() {
- this.error = null
- if (!this.atlas) {
- this.error = `atlas needs to be defined, but is not`
- return
- }
- if (!this.parcellation) {
- this.error = `parcellation needs to be defined, but is not`
- return
- }
- if (!this.region) {
- this.error = `region needs to be defined, but is not`
- return
- }
- if (!this.featureId) {
- this.error = `featureId needs to be defined, but is not`
- return
- }
- const result = await this.sapi.getRegion(this.atlas["@id"], this.parcellation["@id"], this.region.name).getFeatureInstance(this.featureId, this.template["@id"]).toPromise()
- if (result["@type"] !== "siibra/features/receptor") {
- throw new Error(`BaseReceptor Error. Expected .type to be "siibra/features/receptor", but was "${result['@type']}"`)
- }
- return result
- }
-
- abstract rerender(): void
-
- /**
- * flag to indicate that getDataBlob() can be called.
- */
- dataBlobAvailable = false
- /**
- * blob object observable, representing the data of the component. This allows the data to be downloaded.
- */
- dataBlob$ = new BehaviorSubject<Blob>(null)
-
- constructor(
- protected sapi: SAPI
- ){
- }
-}
diff --git a/tmpFeatures/receptors/entry/entry.component.ts b/tmpFeatures/receptors/entry/entry.component.ts
deleted file mode 100644
index 3f6a756c1b26a15d26a93c4900347072cd79be27..0000000000000000000000000000000000000000
--- a/tmpFeatures/receptors/entry/entry.component.ts
+++ /dev/null
@@ -1,43 +0,0 @@
-import { ChangeDetectorRef, Component, OnChanges, SimpleChanges } from "@angular/core";
-import { SAPI } from "src/atlasComponents/sapi";
-import { BaseReceptor } from "../base";
-
-@Component({
- selector: 'sxplr-sapiviews-features-receptor-entry',
- templateUrl: `./entry.template.html`,
- styleUrls: [
- `./entry.style.css`
- ]
-})
-
-export class Entry extends BaseReceptor implements OnChanges {
- selectedSymbol: string
- symbolsOptions: string[] = []
-
- async ngOnChanges(simpleChanges: SimpleChanges): Promise<void> {
- await super.ngOnChanges(simpleChanges)
- }
-
- loading = true
- rerender(): void {
- if (this.receptorData.data.receptor_symbols) {
- this.loading = false
- this.symbolsOptions = Object.keys(this.receptorData.data.receptor_symbols)
- }
- this.cdr.detectChanges()
- }
- constructor(
- sapi: SAPI,
- private cdr: ChangeDetectorRef,
- ){
- super(sapi)
- }
-
- setSelectedSymbol(select: string){
- this.selectedSymbol = select
- }
-
- getDataBlob(): Promise<Blob> {
- throw new Error(`cannot get blob of entry component`)
- }
-}
diff --git a/tmpFeatures/receptors/entry/entry.stories.ts b/tmpFeatures/receptors/entry/entry.stories.ts
deleted file mode 100644
index 63f07ee1ef4f6dd57c402e07d08a4e9c5d742f01..0000000000000000000000000000000000000000
--- a/tmpFeatures/receptors/entry/entry.stories.ts
+++ /dev/null
@@ -1,127 +0,0 @@
-import { CommonModule, DOCUMENT } from "@angular/common"
-import { HttpClientModule } from "@angular/common/http"
-import { Meta, moduleMetadata, Story } from "@storybook/angular"
-import { SAPI, SapiAtlasModel, SapiParcellationModel, SapiRegionModel, SapiSpaceModel } from "src/atlasComponents/sapi"
-import { getHoc1RightFeatureDetail, getHoc1RightFeatures, getHoc1Right, getHumanAtlas, getJba29, getMni152, provideDarkTheme } from "src/atlasComponents/sapi/stories.base"
-import { AngularMaterialModule } from "src/sharedModules"
-import { Entry } from "./entry.component"
-import { ReceptorViewModule } from ".."
-import { appendScriptFactory, APPEND_SCRIPT_TOKEN } from "src/util/constants"
-import { Component, Output } from "@angular/core"
-import { SapiRegionalFeatureReceptorModel } from "src/atlasComponents/sapi/type"
-
-@Component({
- selector: 'entry-wrapper-cmp',
- template: `
- <sxplr-sapiviews-features-receptor-entry
- [sxplr-sapiviews-features-receptor-atlas]="atlas"
- [sxplr-sapiviews-features-receptor-parcellation]="parcellation"
- [sxplr-sapiviews-features-receptor-template]="template"
- [sxplr-sapiviews-features-receptor-region]="region"
- [sxplr-sapiviews-features-receptor-featureid]="featureId"
- [sxplr-sapiviews-features-receptor-data]="feature"
- >
- </sxplr-sapiviews-features-receptor-entry>
- `,
- styles: [
- `
- :host
- {
- display: block;
- width: 20rem;
- }
- `
- ]
-})
-class EntryWrappercls {
- atlas: SapiAtlasModel
- parcellation: SapiParcellationModel
- template: SapiSpaceModel
- region: SapiRegionModel
- feature: SapiRegionalFeatureReceptorModel
- featureId: string
-
-}
-
-export default {
- component: EntryWrappercls,
- decorators: [
- moduleMetadata({
- imports: [
- CommonModule,
- HttpClientModule,
- ReceptorViewModule,
- AngularMaterialModule,
- ],
- providers: [
- SAPI,
- {
- provide: APPEND_SCRIPT_TOKEN,
- useFactory: appendScriptFactory,
- deps: [ DOCUMENT ]
- },
- ...provideDarkTheme,
- ],
- declarations: [
- EntryWrappercls
- ]
- })
- ],
-} as Meta
-
-const Template: Story<Entry> = (args: Entry, { loaded }) => {
- const { atlas, parc, space, region, featureId, feature } = loaded
- return ({
- props: {
- ...args,
- atlas: atlas,
- parcellation: parc,
- template: space,
- region: region,
- feature,
- featureId,
- },
- })
-}
-
-const loadFeat = async () => {
- const atlas = await getHumanAtlas()
- const parc = await getJba29()
- const region = await getHoc1Right()
- const space = await getMni152()
- const features = await getHoc1RightFeatures()
- const receptorfeat = features.find(f => f['@type'] === "siibra/features/receptor")
- const feature = await getHoc1RightFeatureDetail(receptorfeat["@id"])
- return {
- atlas,
- parc,
- space,
- region,
- featureId: receptorfeat["@id"],
- feature
- }
-}
-
-export const Default = Template.bind({})
-Default.args = {
-
-}
-Default.loaders = [
- async () => {
- const { atlas, parc, space, region, featureId } = await loadFeat()
- return {
- atlas, parc, space, region, featureId
- }
- }
-]
-
-export const LoadViaDirectlyInjectData = Template.bind({})
-LoadViaDirectlyInjectData.loaders = [
- async () => {
-
- const { feature } = await loadFeat()
- return {
- feature
- }
- }
-]
\ No newline at end of file
diff --git a/tmpFeatures/receptors/entry/entry.style.css b/tmpFeatures/receptors/entry/entry.style.css
deleted file mode 100644
index 0645dc01a568740a2c3d2f51c486adcb7f111a02..0000000000000000000000000000000000000000
--- a/tmpFeatures/receptors/entry/entry.style.css
+++ /dev/null
@@ -1,4 +0,0 @@
-:host
-{
- display: block;
-}
\ No newline at end of file
diff --git a/tmpFeatures/receptors/entry/entry.template.html b/tmpFeatures/receptors/entry/entry.template.html
deleted file mode 100644
index e88ce49a8da4549d21f77e950af2c9a1361a4fb1..0000000000000000000000000000000000000000
--- a/tmpFeatures/receptors/entry/entry.template.html
+++ /dev/null
@@ -1,80 +0,0 @@
-<mat-card>
- <spinner-cmp *ngIf="loading"></spinner-cmp>
-
- <ng-template [ngTemplateOutlet]="downloadBtn"
- [ngTemplateOutletContext]="{
- label: 'fingerprint.tsv',
- filename: 'fingerprint.tsv',
- receptorCmp: fp
- }">
- </ng-template>
- <sxplr-sapiviews-features-receptor-fingerprint
- [sxplr-sapiviews-features-receptor-data]="receptorData"
- (sxplr-sapiviews-features-receptor-fingerprint-receptor-selected)="setSelectedSymbol($event)"
- #fp="sxplrSapiViewsFeaturesReceptorFP"
- >
- </sxplr-sapiviews-features-receptor-fingerprint>
-
- <mat-form-field appearance="fill" class="w-100">
- <mat-select [(ngModel)]="selectedSymbol">
- <mat-option value="null" disabled>
- --select--
- </mat-option>
-
- <mat-option [value]="option"
- *ngFor="let option of symbolsOptions">
- {{ option }}
- </mat-option>
- </mat-select>
- </mat-form-field>
-
- <ng-template [ngIf]="selectedSymbol">
-
- <ng-template [ngTemplateOutlet]="downloadBtn"
- [ngTemplateOutletContext]="{
- label: 'profile.tsv',
- filename: 'profile.tsv',
- receptorCmp: profile
- }">
- </ng-template>
- <sxplr-sapiviews-features-receptor-profile
- [sxplr-sapiviews-features-receptor-data]="receptorData"
- [sxplr-sapiviews-features-receptor-profile-selected-symbol]="selectedSymbol"
- #profile="sxplrSapiViewsFeaturesReceptorProfile">
- </sxplr-sapiviews-features-receptor-profile>
-
-
- <ng-template [ngTemplateOutlet]="downloadBtn"
- [ngTemplateOutletContext]="{
- label: 'autoradiograph.png',
- filename: 'autoradiograph.png',
- receptorCmp: ar
- }">
- </ng-template>
- <sxplr-sapiviews-features-receptor-autoradiograph
- [sxplr-sapiviews-features-receptor-data]="receptorData"
- [sxplr-sapiviews-features-receptor-autoradiograph-selected-symbol]="selectedSymbol"
- #ar="sxplrSapiViewsFeaturesReceptorAR"
- >
- </sxplr-sapiviews-features-receptor-autoradiograph>
- </ng-template>
-
-</mat-card>
-
-
-<!-- download data button template -->
-<ng-template #downloadBtn
- let-label="label"
- let-filename="filename"
- let-receptorCmp="receptorCmp">
- <button mat-button
- *ngIf="receptorCmp.dataBlobAvailable"
- single-file-output
- [single-file-output-blob]="receptorCmp.dataBlob$ | async"
- [single-file-output-filename]="filename">
- <i class="fas fa-download"></i>
- <span>
- {{ label }}
- </span>
- </button>
-</ng-template>
diff --git a/tmpFeatures/receptors/fingerprint/fingerprint.component.ts b/tmpFeatures/receptors/fingerprint/fingerprint.component.ts
deleted file mode 100644
index 9c77c20a1e57c4c2b37cbb789b35970454183b54..0000000000000000000000000000000000000000
--- a/tmpFeatures/receptors/fingerprint/fingerprint.component.ts
+++ /dev/null
@@ -1,133 +0,0 @@
-import { AfterViewInit, Component, ElementRef, EventEmitter, HostListener, Inject, OnChanges, OnDestroy, Output, SimpleChanges, ViewChild } from "@angular/core";
-import { fromEvent, Observable, Subscription } from "rxjs";
-import { distinctUntilChanged, map } from "rxjs/operators";
-import { SAPI } from "src/atlasComponents/sapi";
-import { TabularFeature } from "src/atlasComponents/sapi/sxplrTypes";
-import { DARKTHEME } from "src/util/injectionTokens";
-import { BaseReceptor } from "../base";
-
-/**
- * kg-dataset-dumb-radar requires input to be a different shape
- * once the the return signature
- */
-type RequiredType = {
- receptor: {
- label: string
- }
- density: {
- mean: number
- sd: number
- unit: string
- }
-}
-
-function transformRadar(input: TabularFeature<number>): RequiredType[]{
- const listRequired: RequiredType[] = []
- if (input.index.length !== input.data.length) {
- throw new Error(`Expecting index length: '${input.index.length}' to be the same as data length : '${input.data.length}'.`)
- }
- const rowLength = new Set([input.data.map(row => row.length)])
- if (rowLength.size !== 1) {
- throw new Error(`Expecting all row length to equal, but exists: ${JSON.stringify(Array.from(rowLength))}`)
- }
- input.index.forEach((label, idx) => {
- listRequired.push({
- receptor: {
- label
- },
- density: {
- mean: input.data[idx][0],
- sd: input.data[idx][1],
- unit: ''
- }
- })
- })
- return listRequired
-}
-
-@Component({
- selector: 'sxplr-sapiviews-features-receptor-fingerprint',
- templateUrl: './fingerprint.template.html',
- styleUrls: [
- './fingerprint.style.css'
- ],
- exportAs: "sxplrSapiViewsFeaturesReceptorFP"
-})
-
-export class Fingerprint extends BaseReceptor implements OnChanges, AfterViewInit, OnDestroy{
-
- @Output('sxplr-sapiviews-features-receptor-fingerprint-receptor-selected')
- selectReceptor = new EventEmitter<string>()
-
- @HostListener('click')
- onClick(){
- if (this.mouseOverReceptor) {
- this.selectReceptor.emit(this.mouseOverReceptor)
- }
- }
-
- async ngOnChanges(simpleChanges: SimpleChanges) {
- await super.ngOnChanges(simpleChanges)
- }
-
- constructor(sapi: SAPI, private el: ElementRef, @Inject(DARKTHEME) public darktheme$: Observable<boolean>){
- super(sapi)
- }
-
- get dumbRadarCmp(){
- return this.el?.nativeElement?.querySelector('kg-dataset-dumb-radar')
- }
-
- private setDumbRadarPlease = false
- private sub: Subscription[] = []
- private mouseOverReceptor: string
-
- ngOnDestroy(){
- while (this.sub.length > 0) this.sub.pop().unsubscribe()
- }
-
- ngAfterViewInit(){
- if (this.setDumbRadarPlease) {
- this.rerender()
- }
-
- this.sub.push(
- fromEvent<CustomEvent>(this.el.nativeElement, 'kg-ds-prv-regional-feature-mouseover').pipe(
- map(ev => ev.detail?.data?.receptor?.label),
- distinctUntilChanged(),
- ).subscribe(label => {
- this.mouseOverReceptor = label
- })
- )
- }
-
- rerender(): void {
-
- if (!this.dumbRadarCmp) {
- this.setDumbRadarPlease = true
- return
- }
-
- this.dumbRadarCmp.metaBs = this.receptorData.data.receptor_symbols
- this.dumbRadarCmp.radar= transformRadar(this.receptorData.data.fingerprints)
-
- this.dataBlob$.next(this.getDataBlob())
- this.dataBlobAvailable = true
- this.setDumbRadarPlease = false
- }
-
- private getDataBlob(): Blob {
- if (!this.receptorData?.data?.fingerprints) throw new Error(`raw data unavailable. Try again later.`)
- const fingerprints = this.receptorData.data.fingerprints
- const output: string[] = []
- output.push(
- ["name", "mean", "std"].join("\t")
- )
- for (const key in fingerprints) {
- output.push(
- [key, fingerprints[key].mean, fingerprints[key].std].join("\t")
- )
- }
- return new Blob([output.join("\n")], { type: 'text/tab-separated-values' })
- }
-}
diff --git a/tmpFeatures/receptors/fingerprint/fingerprint.stories.ts b/tmpFeatures/receptors/fingerprint/fingerprint.stories.ts
deleted file mode 100644
index 1c3327ac1470cc2a7d650aa3b5196f70958dbbe2..0000000000000000000000000000000000000000
--- a/tmpFeatures/receptors/fingerprint/fingerprint.stories.ts
+++ /dev/null
@@ -1,128 +0,0 @@
-import { CommonModule, DOCUMENT } from "@angular/common"
-import { HttpClientModule } from "@angular/common/http"
-import { Component, EventEmitter, Output } from "@angular/core"
-import { Meta, moduleMetadata, Story } from "@storybook/angular"
-import { SAPI, SapiAtlasModel, SapiParcellationModel, SapiRegionModel, SapiSpaceModel } from "src/atlasComponents/sapi"
-import { getHoc1RightFeatureDetail, getHoc1RightFeatures, getHoc1Right, getHumanAtlas, getJba29, getMni152, provideDarkTheme } from "src/atlasComponents/sapi/stories.base"
-import { SapiRegionalFeatureReceptorModel } from "src/atlasComponents/sapi/type"
-import { AngularMaterialModule } from "src/sharedModules"
-import { appendScriptFactory, APPEND_SCRIPT_TOKEN } from "src/util/constants"
-import { ReceptorViewModule } from ".."
-
-@Component({
- selector: 'fingerprint-wrapper-cmp',
- template: `
- <sxplr-sapiviews-features-receptor-fingerprint
- [sxplr-sapiviews-features-receptor-atlas]="atlas"
- [sxplr-sapiviews-features-receptor-parcellation]="parcellation"
- [sxplr-sapiviews-features-receptor-template]="template"
- [sxplr-sapiviews-features-receptor-region]="region"
- [sxplr-sapiviews-features-receptor-featureid]="featureId"
- [sxplr-sapiviews-features-receptor-data]="feature"
- (sxplr-sapiviews-features-receptor-fingerprint-receptor-selected)="selectReceptor.emit($event)"
- >
- </sxplr-sapiviews-features-receptor-fingerprint>
- `,
- styles: [
- `
- :host
- {
- display: block;
- width: 20rem;
- height: 20rem;
- }
- `
- ]
-})
-class FingerprintWrapperCls {
- atlas: SapiAtlasModel
- parcellation: SapiParcellationModel
- template: SapiSpaceModel
- region: SapiRegionModel
- feature: SapiRegionalFeatureReceptorModel
- featureId: string
-
- @Output()
- selectReceptor = new EventEmitter()
-}
-
-export default {
- component: FingerprintWrapperCls,
- decorators: [
- moduleMetadata({
- imports: [
- CommonModule,
- AngularMaterialModule,
- HttpClientModule,
- ReceptorViewModule,
- ],
- providers: [
- SAPI,
- {
- provide: APPEND_SCRIPT_TOKEN,
- useFactory: appendScriptFactory,
- deps: [ DOCUMENT ]
- },
- ...provideDarkTheme,
- ],
- declarations: []
- })
- ],
-} as Meta
-
-const Template: Story<FingerprintWrapperCls> = (args: FingerprintWrapperCls, { loaded }) => {
- const { atlas, parc, space, region, featureId, feature } = loaded
- return ({
- props: {
- ...args,
- atlas: atlas,
- parcellation: parc,
- template: space,
- region: region,
- feature,
- featureId,
- },
- })
-}
-
-const loadFeat = async () => {
- const atlas = await getHumanAtlas()
- const parc = await getJba29()
- const region = await getHoc1Right()
- const space = await getMni152()
- const features = await getHoc1RightFeatures()
- const receptorfeat = features.find(f => f['@type'] === "siibra/features/receptor")
- const feature = await getHoc1RightFeatureDetail(receptorfeat["@id"])
- return {
- atlas,
- parc,
- space,
- region,
- featureId: receptorfeat["@id"],
- feature
- }
-}
-
-export const Default = Template.bind({})
-Default.args = {
-
-}
-Default.loaders = [
- async () => {
- const { atlas, parc, space, region, featureId } = await loadFeat()
- return {
- atlas, parc, space, region, featureId
- }
- }
-]
-
-export const LoadViaDirectlyInjectData = Template.bind({})
-LoadViaDirectlyInjectData.loaders = [
- async () => {
-
- const { feature } = await loadFeat()
- return {
- feature
- }
- }
-]
diff --git a/tmpFeatures/receptors/fingerprint/fingerprint.style.css b/tmpFeatures/receptors/fingerprint/fingerprint.style.css
deleted file mode 100644
index e69de29bb2d1d6434b8b29ae775ad8c2e48c5391..0000000000000000000000000000000000000000
diff --git a/tmpFeatures/receptors/fingerprint/fingerprint.template.html b/tmpFeatures/receptors/fingerprint/fingerprint.template.html
deleted file mode 100644
index c315de7303ead0ebb5e0c2032fd4a647d381dd39..0000000000000000000000000000000000000000
--- a/tmpFeatures/receptors/fingerprint/fingerprint.template.html
+++ /dev/null
@@ -1,3 +0,0 @@
-<kg-dataset-dumb-radar
- [attr.kg-ds-prv-darkmode]="darktheme$ | async">
-</kg-dataset-dumb-radar>
\ No newline at end of file
diff --git a/tmpFeatures/receptors/index.ts b/tmpFeatures/receptors/index.ts
deleted file mode 100644
index 7ccaf9d94dbb4e164a98d600c701de5f419ed346..0000000000000000000000000000000000000000
--- a/tmpFeatures/receptors/index.ts
+++ /dev/null
@@ -1,4 +0,0 @@
-export { Autoradiography } from "./autoradiography/autoradiography.component";
-export { Fingerprint } from "./fingerprint/fingerprint.component"
-export { Profile } from "./profile/profile.component"
-export { ReceptorViewModule } from "./module"
diff --git a/tmpFeatures/receptors/module.ts b/tmpFeatures/receptors/module.ts
deleted file mode 100644
index 34f29d7f07be5b5df7ddfaad65d9f2c6423fbb04..0000000000000000000000000000000000000000
--- a/tmpFeatures/receptors/module.ts
+++ /dev/null
@@ -1,40 +0,0 @@
-import { CommonModule } from "@angular/common";
-import { APP_INITIALIZER, CUSTOM_ELEMENTS_SCHEMA, NgModule } from "@angular/core";
-import { FormsModule } from "@angular/forms";
-import { BrowserAnimationsModule } from "@angular/platform-browser/animations";
-import { SpinnerModule } from "src/components/spinner";
-import { AngularMaterialModule } from "src/sharedModules";
-import { APPEND_SCRIPT_TOKEN } from "src/util/constants";
-import { ZipFilesOutputModule } from "src/zipFilesOutput/module";
-import { Autoradiography } from "./autoradiography/autoradiography.component";
-import { Entry } from "./entry/entry.component";
-import { Fingerprint } from "./fingerprint/fingerprint.component"
-import { Profile } from "./profile/profile.component"
-
-@NgModule({
- imports: [
- CommonModule,
- AngularMaterialModule,
- FormsModule,
- BrowserAnimationsModule,
- SpinnerModule,
- ZipFilesOutputModule,
- ],
- declarations: [
- Autoradiography,
- Fingerprint,
- Profile,
- Entry,
- ],
- exports: [
- Autoradiography,
- Fingerprint,
- Profile,
- Entry,
- ],
- schemas: [
- CUSTOM_ELEMENTS_SCHEMA,
- ]
-})
-
-export class ReceptorViewModule{}
diff --git a/tmpFeatures/receptors/profile/profile.component.ts b/tmpFeatures/receptors/profile/profile.component.ts
deleted file mode 100644
index 864584597568df263ed93be923f757bcd585f125..0000000000000000000000000000000000000000
--- a/tmpFeatures/receptors/profile/profile.component.ts
+++ /dev/null
@@ -1,91 +0,0 @@
-import { AfterViewInit, Component, ElementRef, Inject, Input, OnChanges, SimpleChanges } from "@angular/core";
-import { Observable } from "rxjs";
-import { SAPI } from "src/atlasComponents/sapi";
-import { PARSE_TYPEDARRAY } from "src/atlasComponents/sapi/sapi.service";
-import { DARKTHEME } from "src/util/injectionTokens";
-import { BaseReceptor } from "../base";
-
-@Component({
- selector: `sxplr-sapiviews-features-receptor-profile`,
- templateUrl: './profile.template.html',
- styleUrls: [
- './profile.style.css'
- ],
- exportAs: "sxplrSapiViewsFeaturesReceptorProfile"
-})
-
-export class Profile extends BaseReceptor implements AfterViewInit, OnChanges{
-
- @Input('sxplr-sapiviews-features-receptor-profile-selected-symbol')
- selectedSymbol: string
-
- private pleaseRender = false
- dumbLineData: Record<number, number>
-
- constructor(sapi: SAPI, private el: ElementRef, @Inject(DARKTHEME) public darktheme$: Observable<boolean> ){
- super(sapi)
- }
-
- async ngOnChanges(simpleChanges: SimpleChanges) {
- await super.ngOnChanges(simpleChanges)
- if (!this.receptorData) {
- return
- }
- if (this.selectedSymbol) {
- this.rerender()
- }
- }
-
- ngAfterViewInit(): void {
- if (this.pleaseRender) {
- this.rerender()
- }
- }
-
- get dumbLineCmp(){
- return this.el?.nativeElement?.querySelector('kg-dataset-dumb-line')
- }
-
- async rerender() {
- this.dataBlobAvailable = false
- if (!this.dumbLineCmp) {
- this.pleaseRender = true
- return
- }
- this.pleaseRender = false
- this.dumbLineData = null
-
- if (this.receptorData?.data?.profiles?.[this.selectedSymbol]) {
- const { rawArray } = await this.sapi.processNpArrayData<PARSE_TYPEDARRAY.RAW_ARRAY>(
- this.receptorData.data.profiles[this.selectedSymbol].density,
- PARSE_TYPEDARRAY.RAW_ARRAY
- )
- if (rawArray.length !== 1) {
- this.error = `expected rawArray.length to be 1, but is ${rawArray.length} instead`
- return
- }
- const prof = rawArray[0]
- this.dumbLineData = {}
- for (const idx in prof) {
- this.dumbLineData[idx] = prof[idx]
- }
- this.dataBlob$.next(this.getDataBlob())
- this.dataBlobAvailable = true
- this.dumbLineCmp.profileBs = this.dumbLineData
- }
- }
-
- private getDataBlob(): Blob {
- if (!this.dumbLineData) throw new Error(`data has not been populated. Perhaps wait until render finishes?`)
- const output: string[] = []
- output.push(
- ["cortical depth (%)", "receptor density (fmol/mg)"].join("\t")
- )
- for (const key in this.dumbLineData) {
- output.push(
- [key, this.dumbLineData[key]].join("\t")
- )
- }
- return new Blob([output.join("\n")], { type: 'text/tab-separated-values' })
- }
-}
diff --git a/tmpFeatures/receptors/profile/profile.stories.ts b/tmpFeatures/receptors/profile/profile.stories.ts
deleted file mode 100644
index 83d309f52d008d14183329f0539cf179c0354867..0000000000000000000000000000000000000000
--- a/tmpFeatures/receptors/profile/profile.stories.ts
+++ /dev/null
@@ -1,155 +0,0 @@
-import { CommonModule, DOCUMENT } from "@angular/common"
-import { HttpClientModule } from "@angular/common/http"
-import { Component, NgZone, ViewChild } from "@angular/core"
-import { FormsModule } from "@angular/forms"
-import { BrowserAnimationsModule } from "@angular/platform-browser/animations"
-import { Meta, moduleMetadata, Story } from "@storybook/angular"
-import { BehaviorSubject, Subject } from "rxjs"
-import { SAPI, SapiAtlasModel, SapiParcellationModel, SapiRegionModel, SapiSpaceModel } from "src/atlasComponents/sapi"
-import { addAddonEventListener, getHoc1RightFeatureDetail, getHoc1RightFeatures, getHoc1Right, getHumanAtlas, getJba29, getMni152, provideDarkTheme } from "src/atlasComponents/sapi/stories.base"
-import { SapiRegionalFeatureReceptorModel } from "src/atlasComponents/sapi/type"
-import { AngularMaterialModule } from "src/sharedModules"
-import { appendScriptFactory, APPEND_SCRIPT_TOKEN } from "src/util/constants"
-import { DARKTHEME } from "src/util/injectionTokens"
-import { ReceptorViewModule } from ".."
-import { Profile } from "./profile.component"
-
-@Component({
- selector: 'autoradiograph-wrapper-cmp',
- template: `
- <mat-form-field appearance="fill">
- <mat-select [(ngModel)]="selectedSymbol">
- <mat-option value="" disabled>
- --select--
- </mat-option>
-
- <mat-option [value]="option"
- *ngFor="let option of options">
- {{ option }}
- </mat-option>
- </mat-select>
- </mat-form-field>
- <sxplr-sapiviews-features-receptor-profile
- class="d-inline-block w-100 h-100"
- [sxplr-sapiviews-features-receptor-atlas]="atlas"
- [sxplr-sapiviews-features-receptor-parcellation]="parcellation"
- [sxplr-sapiviews-features-receptor-template]="template"
- [sxplr-sapiviews-features-receptor-region]="region"
- [sxplr-sapiviews-features-receptor-featureid]="featureId"
- [sxplr-sapiviews-features-receptor-data]="feature"
- [sxplr-sapiviews-features-receptor-profile-selected-symbol]="selectedSymbol"
- >
- </sxplr-sapiviews-features-receptor-profile>
- `,
- styles: [
- `
- :host
- {
- display: block;
- max-width: 24rem;
- max-height: 24rem;
- }
- `
- ]
-})
-class ProfileWrapperCls {
- atlas: SapiAtlasModel
- parcellation: SapiParcellationModel
- template: SapiSpaceModel
- region: SapiRegionModel
-
- feature: SapiRegionalFeatureReceptorModel
- featureId: string
-
- @ViewChild(Profile)
- profile: Profile
-
- selectedSymbol: string
-
- get options(){
- return Object.keys(this.feature?.data?.profiles || this.profile?.receptorData?.data?.profiles || {})
- }
-}
-
-export default {
- component: ProfileWrapperCls,
- decorators: [
- moduleMetadata({
- imports: [
- CommonModule,
- AngularMaterialModule,
- HttpClientModule,
- BrowserAnimationsModule,
- FormsModule,
- ReceptorViewModule,
- ],
- providers: [
- SAPI,
- {
- provide: APPEND_SCRIPT_TOKEN,
- useFactory: appendScriptFactory,
- deps: [ DOCUMENT ]
- },
- ...provideDarkTheme,
- ],
- declarations: []
- })
- ],
-} as Meta
-
-const Template: Story<ProfileWrapperCls> = (args: ProfileWrapperCls, { loaded }) => {
- const { atlas, parc, space, region, featureId, feature } = loaded
- return ({
- props: {
- ...args,
- atlas: atlas,
- parcellation: parc,
- template: space,
- region: region,
- feature,
- featureId,
- },
- })
-}
-
-const loadFeat = async () => {
- const atlas = await getHumanAtlas()
- const parc = await getJba29()
- const region = await getHoc1Right()
- const space = await getMni152()
- const features = await getHoc1RightFeatures()
- const receptorfeat = features.find(f => f['@type'] === "siibra/features/receptor")
- const feature = await getHoc1RightFeatureDetail(receptorfeat["@id"])
- return {
- atlas,
- parc,
- space,
- region,
- featureId: receptorfeat["@id"],
- feature
- }
-}
-
-export const Default = Template.bind({})
-Default.args = {
-
-}
-Default.loaders = [
- async () => {
- const { atlas, parc, space, region, featureId } = await loadFeat()
- return {
- atlas, parc, space, region, featureId
- }
- }
-]
-
-export const LoadViaDirectlyInjectData = Template.bind({})
-LoadViaDirectlyInjectData.loaders = [
- async () => {
-
- const { feature } = await loadFeat()
- return {
- feature
- }
- }
-]
diff --git a/tmpFeatures/receptors/profile/profile.style.css b/tmpFeatures/receptors/profile/profile.style.css
deleted file mode 100644
index e69de29bb2d1d6434b8b29ae775ad8c2e48c5391..0000000000000000000000000000000000000000
diff --git a/tmpFeatures/receptors/profile/profile.template.html b/tmpFeatures/receptors/profile/profile.template.html
deleted file mode 100644
index 182db6578a311b5661b8a571c927ab11d6c149ae..0000000000000000000000000000000000000000
--- a/tmpFeatures/receptors/profile/profile.template.html
+++ /dev/null
@@ -1,3 +0,0 @@
-<kg-dataset-dumb-line
- [attr.kg-ds-prv-darkmode]="darktheme$ | async">
-</kg-dataset-dumb-line>
\ No newline at end of file
diff --git a/tmpFeatures/voi/index.ts b/tmpFeatures/voi/index.ts
deleted file mode 100644
index 55b2fbc01ff6805ae01ef334e88d52db40ded951..0000000000000000000000000000000000000000
--- a/tmpFeatures/voi/index.ts
+++ /dev/null
@@ -1,2 +0,0 @@
-export { SapiViewsFeaturesVoiModule } from "./module"
-export { SapiViewsFeaturesVoiQuery } from "./voiQuery.directive"
diff --git a/tmpFeatures/voi/module.ts b/tmpFeatures/voi/module.ts
deleted file mode 100644
index e9817aacad60533082cbf4be70c62831d50727cd..0000000000000000000000000000000000000000
--- a/tmpFeatures/voi/module.ts
+++ /dev/null
@@ -1,19 +0,0 @@
-import { CommonModule } from "@angular/common";
-import { NgModule } from "@angular/core";
-import { SAPIModule } from "src/atlasComponents/sapi/module";
-import { SapiViewsFeaturesVoiQuery } from "./voiQuery.directive";
-
-@NgModule({
- imports: [
- CommonModule,
- SAPIModule,
- ],
- declarations: [
- SapiViewsFeaturesVoiQuery,
- ],
- exports: [
- SapiViewsFeaturesVoiQuery
- ]
-})
-
-export class SapiViewsFeaturesVoiModule{}
diff --git a/tmpFeatures/voi/voiQuery.directive.ts b/tmpFeatures/voi/voiQuery.directive.ts
deleted file mode 100644
index a9eaab487b18cd27edb0551426852fa948e53383..0000000000000000000000000000000000000000
--- a/tmpFeatures/voi/voiQuery.directive.ts
+++ /dev/null
@@ -1,187 +0,0 @@
-import { Directive, EventEmitter, Inject, Input, OnChanges, OnDestroy, Optional, Output, SimpleChanges } from "@angular/core";
-import { interval, merge, Observable, of, Subject, Subscription } from "rxjs";
-import { debounce, debounceTime, distinctUntilChanged, filter, pairwise, shareReplay, startWith, switchMap, take, tap } from "rxjs/operators";
-import { AnnotationLayer, TNgAnnotationPoint, TNgAnnotationAABBox } from "src/atlasComponents/annotations";
-import { SAPI } from "src/atlasComponents/sapi/sapi.service";
-import { BoundingBox, SxplrAtlas, SxplrTemplate, VoiFeature } from "src/atlasComponents/sapi/sxplrTypes";
-
-import { ClickInterceptor, CLICK_INTERCEPTOR_INJECTOR } from "src/util";
-import { arrayEqual } from "src/util/array";
-
-@Directive({
- selector: '[sxplr-sapiviews-features-voi-query]',
- exportAs: 'sxplrSapiViewsFeaturesVoiQuery'
-})
-
-export class SapiViewsFeaturesVoiQuery implements OnChanges, OnDestroy{
-
- static VOI_LAYER_NAME = 'voi-annotation-layer'
- static VOI_ANNOTATION_COLOR = "#ffff00"
- private voiQuerySpec = new Subject<{
- atlas: SxplrAtlas
- space: SxplrTemplate
- bbox: BoundingBox
- }>()
-
- private canFetchVoi(){
- return !!this.atlas && !!this.space && !!this.bbox
- }
-
- @Input('sxplr-sapiviews-features-voi-query-atlas')
- atlas: SxplrAtlas
-
- @Input('sxplr-sapiviews-features-voi-query-space')
- space: SxplrTemplate
-
- @Input('sxplr-sapiviews-features-voi-query-bbox')
- bbox: BoundingBox
-
- @Output('sxplr-sapiviews-features-voi-query-onhover')
- onhover = new EventEmitter<VoiFeature>()
-
- @Output('sxplr-sapiviews-features-voi-query-onclick')
- onclick = new EventEmitter<VoiFeature>()
-
- public busy$ = new EventEmitter<boolean>()
- public features$: Observable<VoiFeature[]> = this.voiQuerySpec.pipe(
- debounceTime(160),
- tap(() => this.busy$.emit(true)),
- switchMap(({ atlas, bbox, space }) => {
- if (!this.canFetchVoi()) {
- return of([])
- }
- return merge(
- of([]),
- this.sapi.getVoiFeatures(bbox)
- )
- }),
- startWith([]),
- shareReplay(1)
- )
-
- private hoveredFeat: VoiFeature
- private onDestroyCb: (() => void)[] = []
- private subscription: Subscription[] = []
- ngOnChanges(simpleChanges: SimpleChanges): void {
- if (simpleChanges.space) {
- this.voiBBoxSvc = null
- }
- const {
- atlas,
- space,
- bbox
- } = this
- this.voiQuerySpec.next({ atlas, space, bbox })
- }
- ngOnDestroy(): void {
- if (this.voiBBoxSvc) this.voiBBoxSvc.dispose()
- while (this.subscription.length > 0) this.subscription.pop().unsubscribe()
- while (this.voiSubs.length > 0) this.voiSubs.pop().unsubscribe()
- while(this.onDestroyCb.length > 0) this.onDestroyCb.pop()()
- }
-
- handleOnHoverFeature({ id }: { id?: string }){
- const ann = this.annotationIdToFeature.get(id)
- this.hoveredFeat = ann
- this.onhover.emit(ann)
- }
-
- private voiSubs: Subscription[] = []
- private _voiBBoxSvc: AnnotationLayer
- get voiBBoxSvc(): AnnotationLayer {
- if (this._voiBBoxSvc) return this._voiBBoxSvc
- try {
- const layer = AnnotationLayer.Get(
- SapiViewsFeaturesVoiQuery.VOI_LAYER_NAME,
- SapiViewsFeaturesVoiQuery.VOI_ANNOTATION_COLOR
- )
- this._voiBBoxSvc = layer
- this.voiSubs.push(
- layer.onHover.subscribe(val => this.handleOnHoverFeature(val || {}))
- )
- return layer
- } catch (e) {
- return null
- }
- }
- set voiBBoxSvc(val) {
- if (!!val) {
- throw new Error(`cannot set voiBBoxSvc directly`)
- }
- while (this.voiSubs.length > 0) this.voiSubs.pop().unsubscribe()
- this._voiBBoxSvc && this._voiBBoxSvc.dispose()
- this._voiBBoxSvc = null
- }
-
- constructor(
- private sapi: SAPI,
- @Optional() @Inject(CLICK_INTERCEPTOR_INJECTOR) clickInterceptor: ClickInterceptor,
- ){
- const handle = () => {
- if (!this.hoveredFeat) return true
- this.onclick.emit(this.hoveredFeat)
- return false
- }
- this.onDestroyCb.push(
- () => clickInterceptor.deregister(handle)
- )
- clickInterceptor.register(handle)
- this.subscription.push(
- this.features$.pipe(
- startWith([] as VoiFeature[]),
- distinctUntilChanged(arrayEqual((o, n) => o["@id"] === n["@id"])),
- pairwise(),
- debounce(() =>
- interval(16).pipe(
- filter(() => !!this.voiBBoxSvc),
- take(1),
- )
- ),
- ).subscribe(([ prev, curr ]) => {
- for (const v of prev) {
- const box = this.pointsToAABB(v.bbox.maxpoint, v.bbox.minpoint)
- const point = this.pointToPoint(v.bbox.center)
- this.annotationIdToFeature.delete(box.id)
- this.annotationIdToFeature.delete(point.id)
- if (!this.voiBBoxSvc) continue
- for (const ann of [box, point]) {
- this.voiBBoxSvc.removeAnnotation({
- id: ann.id
- })
- }
- }
- for (const v of curr) {
- const box = this.pointsToAABB(v.bbox.maxpoint, v.bbox.minpoint)
- const point = this.pointToPoint(v.bbox.center)
- this.annotationIdToFeature.set(box.id, v)
- this.annotationIdToFeature.set(point.id, v)
- if (!this.voiBBoxSvc) {
- throw new Error(`annotation is expected to be added, but annotation layer cannot be instantiated.`)
- }
- for (const ann of [box, point]) {
- this.voiBBoxSvc.updateAnnotation(ann)
- }
- }
- if (this.voiBBoxSvc) this.voiBBoxSvc.setVisible(true)
- })
- )
- }
-
- private annotationIdToFeature = new Map<string, VoiFeature>()
-
- private pointsToAABB(pointA: [number, number, number], pointB: [number, number, number]): TNgAnnotationAABBox{
- return {
- id: `${SapiViewsFeaturesVoiQuery.VOI_LAYER_NAME}:${pointA["@id"]}:${pointB["@id"]}`,
- pointA: pointA.map(v => v * 1e6) as [number, number, number],
- pointB: pointB.map(v => v * 1e6) as [number, number, number],
- type: "aabbox"
- }
- }
- private pointToPoint(point: [number, number, number]): TNgAnnotationPoint {
- return {
- id: `${SapiViewsFeaturesVoiQuery.VOI_LAYER_NAME}:${JSON.stringify(point)}}`,
- point: point.map(v => v * 1e6) as [number, number, number],
- type: "point"
- }
- }
-}