@genspectrum/dashboard-components 1.1.0 → 1.2.0
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- package/custom-elements.json +2 -2
- package/dist/{NumberRangeFilterChangedEvent-B64OQZjX.js → NumberRangeFilterChangedEvent-CQ32Qy8D.js} +2 -2
- package/dist/NumberRangeFilterChangedEvent-CQ32Qy8D.js.map +1 -0
- package/dist/assets/mutationOverTimeWorker-DpW4YOGl.js.map +1 -0
- package/dist/components.d.ts +31 -31
- package/dist/components.js +74 -120
- package/dist/components.js.map +1 -1
- package/dist/util.d.ts +31 -31
- package/dist/util.js +1 -1
- package/package.json +7 -3
- package/src/lapisApi/lapisApi.ts +2 -2
- package/src/operator/DivisionOperator.ts +4 -2
- package/src/operator/FetchDetailsOperator.ts +1 -1
- package/src/operator/RenameFieldOperator.ts +3 -3
- package/src/preact/aggregatedData/aggregate.tsx +0 -5
- package/src/preact/components/annotated-mutation.tsx +0 -1
- package/src/preact/components/clearable-select.stories.tsx +1 -1
- package/src/preact/components/confidence-interval-selector.tsx +1 -1
- package/src/preact/components/error-boundary.tsx +1 -5
- package/src/preact/components/error-display.tsx +1 -1
- package/src/preact/components/fullscreen.tsx +2 -5
- package/src/preact/components/info.stories.tsx +1 -1
- package/src/preact/components/min-max-range-slider.tsx +1 -1
- package/src/preact/components/proportion-selector.tsx +4 -4
- package/src/preact/components/select.tsx +1 -1
- package/src/preact/components/table.tsx +1 -1
- package/src/preact/components/tabs.tsx +1 -1
- package/src/preact/components/tooltip.stories.tsx +1 -1
- package/src/preact/components/tooltip.tsx +1 -1
- package/src/preact/genomeViewer/CDSPlot.tsx +3 -3
- package/src/preact/genomeViewer/loadGff3.ts +5 -8
- package/src/preact/lineageFilter/lineage-filter.tsx +1 -1
- package/src/preact/locationFilter/location-filter.tsx +4 -4
- package/src/preact/mutationComparison/getMutationComparisonTableData.ts +1 -3
- package/src/preact/mutationComparison/mutation-comparison-venn.tsx +1 -1
- package/src/preact/mutationComparison/mutation-comparison.tsx +0 -5
- package/src/preact/mutationFilter/mutation-filter-info.tsx +2 -2
- package/src/preact/mutationFilter/mutation-filter.tsx +1 -1
- package/src/preact/mutations/getMutationsGridData.ts +2 -6
- package/src/preact/mutations/getMutationsTableData.ts +1 -1
- package/src/preact/mutations/mutations-grid.tsx +1 -1
- package/src/preact/mutations/mutations.tsx +0 -5
- package/src/preact/mutationsOverTime/mutations-over-time.tsx +3 -9
- package/src/preact/numberRangeFilter/number-range-filter.tsx +4 -4
- package/src/preact/numberSequencesOverTime/getNumberOfSequencesOverTimeTableData.ts +1 -4
- package/src/preact/numberSequencesOverTime/number-sequences-over-time.tsx +0 -5
- package/src/preact/prevalenceOverTime/prevalence-over-time-bar-chart.tsx +1 -1
- package/src/preact/prevalenceOverTime/prevalence-over-time-bubble-chart.tsx +1 -1
- package/src/preact/prevalenceOverTime/prevalence-over-time-line-chart.tsx +1 -1
- package/src/preact/prevalenceOverTime/prevalence-over-time.tsx +1 -1
- package/src/preact/relativeGrowthAdvantage/relative-growth-advantage-chart.tsx +5 -5
- package/src/preact/relativeGrowthAdvantage/relative-growth-advantage.tsx +1 -4
- package/src/preact/sequencesByLocation/loadMapSource.tsx +5 -2
- package/src/preact/shared/aspectRatio/AspectRatio.tsx +1 -1
- package/src/preact/shared/floating-ui/hooks.ts +2 -2
- package/src/preact/shared/sort/sortMutationPositions.ts +2 -2
- package/src/preact/shared/tanstackTable/pagination.tsx +2 -2
- package/src/preact/shared/tanstackTable/tanstackTable.tsx +1 -1
- package/src/preact/statistic/statistics.tsx +0 -5
- package/src/preact/textFilter/fetchStringAutocompleteList.ts +1 -10
- package/src/preact/textFilter/text-filter.tsx +1 -6
- package/src/preact/wastewater/mutationsOverTime/wastewater-mutations-over-time.tsx +1 -1
- package/src/preact/webWorkers/useWebWorker.ts +2 -1
- package/src/preact/webWorkers/workerFunction.ts +2 -2
- package/src/query/computeMapLocationData.ts +1 -1
- package/src/query/queryAggregatedDataOverTime.ts +3 -3
- package/src/query/queryMutationsOverTime.spec.ts +9 -9
- package/src/query/queryMutationsOverTime.ts +22 -16
- package/src/query/queryRelativeGrowthAdvantage.ts +5 -9
- package/src/query/queryWastewaterMutationsOverTime.ts +1 -1
- package/src/types.ts +1 -1
- package/src/utils/mutations.ts +10 -10
- package/src/utils/type-utils.ts +1 -1
- package/src/utils/typeAssertions.spec.ts +1 -1
- package/src/web-components/gs-app.spec-d.ts +1 -1
- package/src/web-components/gs-app.stories.ts +1 -1
- package/src/web-components/input/gs-date-range-filter.tsx +2 -2
- package/src/web-components/input/gs-lineage-filter.tsx +2 -2
- package/src/web-components/input/gs-location-filter.tsx +3 -3
- package/src/web-components/input/gs-mutation-filter.tsx +2 -2
- package/src/web-components/input/gs-number-range-filter.spec.ts +1 -1
- package/src/web-components/input/gs-text-filter.tsx +2 -2
- package/src/web-components/visualization/gs-aggregate.tsx +2 -2
- package/src/web-components/visualization/gs-genome-data-viewer.spec-d.ts +1 -1
- package/src/web-components/visualization/gs-mutation-comparison.tsx +2 -2
- package/src/web-components/visualization/gs-mutations.tsx +2 -2
- package/src/web-components/visualization/gs-number-sequences-over-time.tsx +2 -2
- package/src/web-components/visualization/gs-prevalence-over-time.tsx +2 -2
- package/src/web-components/visualization/gs-relative-growth-advantage.tsx +2 -2
- package/src/web-components/visualization/gs-sequences-by-location.tsx +2 -2
- package/src/web-components/visualization/gs-statistics.tsx +2 -2
- package/standalone-bundle/assets/mutationOverTimeWorker-CZVvQBze.js.map +1 -0
- package/standalone-bundle/dashboard-components.js +1444 -1456
- package/standalone-bundle/dashboard-components.js.map +1 -1
- package/dist/NumberRangeFilterChangedEvent-B64OQZjX.js.map +0 -1
- package/dist/assets/mutationOverTimeWorker-DjH04AQB.js.map +0 -1
- package/standalone-bundle/assets/mutationOverTimeWorker-B6bf3R3j.js.map +0 -1
package/dist/util.d.ts
CHANGED
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@@ -164,7 +164,7 @@ declare type LapisLineageFilter = Record<string, string | undefined>;
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declare type LapisLocationFilter = default_2.infer<typeof lapisLocationFilterSchema>;
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declare const lapisLocationFilterSchema: default_2.ZodRecord<default_2.ZodString, default_2.ZodUnion<[default_2.ZodString, default_2.ZodUndefined]>>;
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declare const lapisLocationFilterSchema: default_2.ZodRecord<default_2.ZodString, default_2.ZodUnion<[default_2.ZodString, default_2.ZodUndefined, default_2.ZodNull]>>;
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export declare type LapisNumberFilter = Record<string, number | undefined>;
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declare global {
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interface HTMLElementTagNameMap {
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'gs-
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'gs-wastewater-mutations-over-time': WastewaterMutationsOverTimeComponent;
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}
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}
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declare global {
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namespace JSX {
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interface IntrinsicElements {
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'gs-
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'gs-wastewater-mutations-over-time': DetailedHTMLProps<HTMLAttributes<HTMLElement>, HTMLElement>;
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}
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declare global {
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interface HTMLElementTagNameMap {
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'gs-
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'gs-genome-data-viewer': GenomeDataViewerComponent;
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}
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}
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namespace JSX {
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interface IntrinsicElements {
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'gs-genome-data-viewer': DetailedHTMLProps<HTMLAttributes<HTMLElement>, HTMLElement>;
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declare global {
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interface HTMLElementTagNameMap {
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'gs-mutations': MutationsComponent;
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declare global {
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namespace JSX {
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'gs-mutations': DetailedHTMLProps<HTMLAttributes<HTMLElement>, HTMLElement>;
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'gs-relative-growth-advantage': RelativeGrowthAdvantageComponent;
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'gs-relative-growth-advantage': DetailedHTMLProps<HTMLAttributes<HTMLElement>, HTMLElement>;
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|
interface HTMLElementEventMap {
|
|
1137
|
-
[gsEventNames.
|
|
1138
|
-
[gsEventNames.dateRangeOptionChanged]: DateRangeOptionChangedEvent;
|
|
1138
|
+
[gsEventNames.textFilterChanged]: TextFilterChangedEvent;
|
|
1139
1139
|
}
|
|
1140
1140
|
}
|
|
1141
1141
|
|
|
@@ -1143,7 +1143,7 @@ declare global {
|
|
|
1143
1143
|
declare global {
|
|
1144
1144
|
namespace JSX {
|
|
1145
1145
|
interface IntrinsicElements {
|
|
1146
|
-
'gs-
|
|
1146
|
+
'gs-text-filter': DetailedHTMLProps<HTMLAttributes<HTMLElement>, HTMLElement>;
|
|
1147
1147
|
}
|
|
1148
1148
|
}
|
|
1149
1149
|
}
|
package/dist/util.js
CHANGED
package/package.json
CHANGED
|
@@ -1,6 +1,6 @@
|
|
|
1
1
|
{
|
|
2
2
|
"name": "@genspectrum/dashboard-components",
|
|
3
|
-
"version": "1.
|
|
3
|
+
"version": "1.2.0",
|
|
4
4
|
"description": "GenSpectrum web components for building dashboards",
|
|
5
5
|
"type": "module",
|
|
6
6
|
"license": "AGPL-3.0-only",
|
|
@@ -99,6 +99,7 @@
|
|
|
99
99
|
},
|
|
100
100
|
"devDependencies": {
|
|
101
101
|
"@custom-elements-manifest/analyzer": "^0.10.2",
|
|
102
|
+
"@eslint/js": "^9.31.0",
|
|
102
103
|
"@iconify-json/mdi": "^1.1.67",
|
|
103
104
|
"@iconify-json/mdi-light": "^1.1.10",
|
|
104
105
|
"@iconify/tailwind4": "^1.0.6",
|
|
@@ -127,11 +128,13 @@
|
|
|
127
128
|
"autoprefixer": "^10.4.19",
|
|
128
129
|
"daisyui": "^5.0.0",
|
|
129
130
|
"depcheck": "^1.4.7",
|
|
130
|
-
"eslint": "^
|
|
131
|
-
"eslint-config-preact": "^1.3.0",
|
|
131
|
+
"eslint": "^9.31.0",
|
|
132
132
|
"eslint-plugin-import": "^2.29.1",
|
|
133
133
|
"eslint-plugin-jest": "^28.2.0",
|
|
134
|
+
"eslint-plugin-react": "^7.37.5",
|
|
135
|
+
"eslint-plugin-react-hooks": "^5.2.0",
|
|
134
136
|
"eslint-plugin-storybook": "^0.12.0",
|
|
137
|
+
"globals": "^16.3.0",
|
|
135
138
|
"happy-dom": "^17.1.1",
|
|
136
139
|
"http-server": "^14.1.1",
|
|
137
140
|
"lit-analyzer": "^2.0.3",
|
|
@@ -143,6 +146,7 @@
|
|
|
143
146
|
"storybook-addon-fetch-mock": "^2.0.0",
|
|
144
147
|
"tailwindcss": "^4.0.9",
|
|
145
148
|
"typescript": "^5.8.2",
|
|
149
|
+
"typescript-eslint": "^8.36.0",
|
|
146
150
|
"vite": "^6.0.3",
|
|
147
151
|
"vite-plugin-dts": "4.5.0",
|
|
148
152
|
"vitest": "^3.0.2"
|
package/src/lapisApi/lapisApi.ts
CHANGED
|
@@ -176,7 +176,7 @@ const handleErrors = async (response: Response, requestedData: string) => {
|
|
|
176
176
|
const lapisErrorResult = lapisError.safeParse(json);
|
|
177
177
|
if (lapisErrorResult.success) {
|
|
178
178
|
throw new LapisError(
|
|
179
|
-
response.statusText + lapisErrorResult.data.error.detail,
|
|
179
|
+
response.statusText + (lapisErrorResult.data.error.detail ?? ''),
|
|
180
180
|
response.status,
|
|
181
181
|
lapisErrorResult.data.error,
|
|
182
182
|
requestedData,
|
|
@@ -186,7 +186,7 @@ const handleErrors = async (response: Response, requestedData: string) => {
|
|
|
186
186
|
const problemDetailResult = problemDetail.safeParse(json);
|
|
187
187
|
if (problemDetailResult.success) {
|
|
188
188
|
throw new LapisError(
|
|
189
|
-
response.statusText + problemDetailResult.data.detail,
|
|
189
|
+
response.statusText + (problemDetailResult.data.detail ?? ''),
|
|
190
190
|
response.status,
|
|
191
191
|
problemDetailResult.data,
|
|
192
192
|
requestedData,
|
|
@@ -8,7 +8,8 @@ export type DivisionOperatorResult<
|
|
|
8
8
|
ResultField extends string,
|
|
9
9
|
NumeratorField extends string,
|
|
10
10
|
DenominatorField extends string,
|
|
11
|
-
> =
|
|
11
|
+
> = Record<KeyField, ValueObject[KeyField]> &
|
|
12
|
+
MappedNumber<ResultField> &
|
|
12
13
|
MappedNumber<NumeratorField> &
|
|
13
14
|
MappedNumber<DenominatorField>;
|
|
14
15
|
|
|
@@ -50,7 +51,8 @@ export class DivisionOperator<
|
|
|
50
51
|
[this.numeratorField]: numeratorValue as number,
|
|
51
52
|
[this.denominatorField]: row[this.valueField] as number,
|
|
52
53
|
[this.resultField]: (numeratorValue as number) / (row[this.valueField] as number),
|
|
53
|
-
} as
|
|
54
|
+
} as Record<KeyField, ValueObject[KeyField]> &
|
|
55
|
+
MappedNumber<ResultField> &
|
|
54
56
|
MappedNumber<NumeratorField> &
|
|
55
57
|
MappedNumber<DenominatorField>;
|
|
56
58
|
});
|
|
@@ -3,7 +3,7 @@ import { type Operator } from './Operator';
|
|
|
3
3
|
import { fetchDetails } from '../lapisApi/lapisApi';
|
|
4
4
|
import { type LapisFilter } from '../types';
|
|
5
5
|
|
|
6
|
-
type Details<Fields extends string> =
|
|
6
|
+
type Details<Fields extends string> = Record<Fields, string | number | boolean | null>;
|
|
7
7
|
|
|
8
8
|
export class FetchDetailsOperator<Fields extends string> implements Operator<Details<Fields>> {
|
|
9
9
|
constructor(
|
|
@@ -4,8 +4,8 @@ import type { Operator } from './Operator';
|
|
|
4
4
|
export class RenameFieldOperator<
|
|
5
5
|
OldFieldName extends string,
|
|
6
6
|
NewFieldName extends string,
|
|
7
|
-
Data extends
|
|
8
|
-
> extends MapOperator<Data, Data &
|
|
7
|
+
Data extends Record<OldFieldName, unknown>,
|
|
8
|
+
> extends MapOperator<Data, Data & Record<NewFieldName, Data[OldFieldName]>> {
|
|
9
9
|
constructor(child: Operator<Data>, oldFieldName: OldFieldName, newFieldName: NewFieldName) {
|
|
10
10
|
super(
|
|
11
11
|
child,
|
|
@@ -13,7 +13,7 @@ export class RenameFieldOperator<
|
|
|
13
13
|
({
|
|
14
14
|
...value,
|
|
15
15
|
[newFieldName]: value[oldFieldName],
|
|
16
|
-
}) as Data &
|
|
16
|
+
}) as Data & Record<NewFieldName, Data[OldFieldName]>,
|
|
17
17
|
);
|
|
18
18
|
}
|
|
19
19
|
}
|
|
@@ -11,7 +11,6 @@ import { ErrorBoundary } from '../components/error-boundary';
|
|
|
11
11
|
import { Fullscreen } from '../components/fullscreen';
|
|
12
12
|
import Info, { InfoComponentCode, InfoHeadline1, InfoParagraph } from '../components/info';
|
|
13
13
|
import { LoadingDisplay } from '../components/loading-display';
|
|
14
|
-
import { NoDataDisplay } from '../components/no-data-display';
|
|
15
14
|
import { ResizeContainer } from '../components/resize-container';
|
|
16
15
|
import Tabs from '../components/tabs';
|
|
17
16
|
import { useQuery } from '../useQuery';
|
|
@@ -63,10 +62,6 @@ export const AggregateInner: FunctionComponent<AggregateProps> = (componentProps
|
|
|
63
62
|
throw error;
|
|
64
63
|
}
|
|
65
64
|
|
|
66
|
-
if (data === null) {
|
|
67
|
-
return <NoDataDisplay />;
|
|
68
|
-
}
|
|
69
|
-
|
|
70
65
|
return <AggregatedDataTabs data={data} originalComponentProps={componentProps} />;
|
|
71
66
|
};
|
|
72
67
|
|
|
@@ -58,7 +58,6 @@ const AnnotatedMutationWithoutContext: FunctionComponent<AnnotatedMutationWithou
|
|
|
58
58
|
<Fragment key={annotation.name}>
|
|
59
59
|
<InfoHeadline2>{annotation.name}</InfoHeadline2>
|
|
60
60
|
<InfoParagraph>
|
|
61
|
-
{/* eslint-disable-next-line react/no-danger */}
|
|
62
61
|
<div dangerouslySetInnerHTML={{ __html: DOMPurify.sanitize(annotation.description) }} />
|
|
63
62
|
</InfoParagraph>
|
|
64
63
|
</Fragment>
|
|
@@ -33,7 +33,7 @@ export const ConfidenceIntervalSelector: FunctionComponent<ConfidenceIntervalSel
|
|
|
33
33
|
return (
|
|
34
34
|
<Select
|
|
35
35
|
items={items}
|
|
36
|
-
selected={confidenceIntervalMethod
|
|
36
|
+
selected={confidenceIntervalMethod}
|
|
37
37
|
onChange={(event: Event) => {
|
|
38
38
|
const select = event.target as HTMLSelectElement;
|
|
39
39
|
const value = select.value as ConfidenceIntervalMethod;
|
|
@@ -19,7 +19,7 @@ export const ErrorBoundary = <T extends Record<string, unknown>>({
|
|
|
19
19
|
schema,
|
|
20
20
|
children,
|
|
21
21
|
}: RenderableProps<ErrorBoundaryProps<T>>) => {
|
|
22
|
-
// eslint-disable-next-line @typescript-eslint/no-unsafe-assignment -- useErrorBoundary unfortunately
|
|
22
|
+
// eslint-disable-next-line @typescript-eslint/no-unsafe-assignment -- useErrorBoundary unfortunately returns `[any, ...]`
|
|
23
23
|
const [internalError, resetError] = useErrorBoundary();
|
|
24
24
|
const componentPropsParseError = useCheckComponentProps(schema, componentProps);
|
|
25
25
|
|
|
@@ -54,10 +54,6 @@ export const ErrorBoundary = <T extends Record<string, unknown>>({
|
|
|
54
54
|
|
|
55
55
|
function useCheckComponentProps<T extends Record<string, unknown>>(schema: ZodSchema<T>, componentProps: T) {
|
|
56
56
|
return useMemo(() => {
|
|
57
|
-
if (schema === undefined || componentProps === undefined) {
|
|
58
|
-
return undefined;
|
|
59
|
-
}
|
|
60
|
-
|
|
61
57
|
const parseResult = schema.safeParse(componentProps);
|
|
62
58
|
if (parseResult.success) {
|
|
63
59
|
return undefined;
|
|
@@ -151,7 +151,7 @@ function ZodErrorDetails({ error }: { error: InvalidPropsError }) {
|
|
|
151
151
|
</p>
|
|
152
152
|
)}
|
|
153
153
|
<p>This is a summary of the unexpected attribute values:</p>
|
|
154
|
-
<ul
|
|
154
|
+
<ul className='m-4 list-outside list-disc '>
|
|
155
155
|
{error.zodError.issues.map((issue, index) => {
|
|
156
156
|
const actual =
|
|
157
157
|
issue.path[0] in error.componentProps
|
|
@@ -33,14 +33,11 @@ function findComponentRoot(element: HTMLElement) {
|
|
|
33
33
|
}
|
|
34
34
|
|
|
35
35
|
function findShadowRoot(element: HTMLElement) {
|
|
36
|
-
let current: Node = element;
|
|
37
|
-
while (current) {
|
|
36
|
+
let current: Node | null = element;
|
|
37
|
+
while (current !== null) {
|
|
38
38
|
if (current instanceof ShadowRoot) {
|
|
39
39
|
return current;
|
|
40
40
|
}
|
|
41
|
-
if (current.parentNode === null) {
|
|
42
|
-
return null;
|
|
43
|
-
}
|
|
44
41
|
current = current.parentNode;
|
|
45
42
|
}
|
|
46
43
|
return null;
|
|
@@ -15,7 +15,7 @@ const tooltipText = 'This is a tooltip which shows some information.';
|
|
|
15
15
|
|
|
16
16
|
export const InfoStory: StoryObj = {
|
|
17
17
|
render: (args) => (
|
|
18
|
-
<div
|
|
18
|
+
<div className='flex justify-center px-4 py-16'>
|
|
19
19
|
<Info {...args}>{tooltipText}</Info>
|
|
20
20
|
</div>
|
|
21
21
|
),
|
|
@@ -60,21 +60,21 @@ export const ProportionSelector: FunctionComponent<ProportionSelectorProps> = ({
|
|
|
60
60
|
const indicateError = internalMinProportion > internalMaxProportion;
|
|
61
61
|
|
|
62
62
|
return (
|
|
63
|
-
<div
|
|
64
|
-
<div
|
|
63
|
+
<div className='flex flex-col w-64 mb-2'>
|
|
64
|
+
<div className='flex items-center '>
|
|
65
65
|
<PercentInput
|
|
66
66
|
percentage={internalMinProportion * 100}
|
|
67
67
|
setPercentage={updateMinPercentage}
|
|
68
68
|
indicateError={indicateError}
|
|
69
69
|
/>
|
|
70
|
-
<div
|
|
70
|
+
<div className='m-2'>-</div>
|
|
71
71
|
<PercentInput
|
|
72
72
|
percentage={internalMaxProportion * 100}
|
|
73
73
|
setPercentage={updateMaxPercentage}
|
|
74
74
|
indicateError={indicateError}
|
|
75
75
|
/>
|
|
76
76
|
</div>
|
|
77
|
-
<div
|
|
77
|
+
<div className='my-1'>
|
|
78
78
|
<MinMaxRangeSlider
|
|
79
79
|
min={internalMinProportion * 100}
|
|
80
80
|
max={internalMaxProportion * 100}
|
|
@@ -10,7 +10,7 @@ export interface SelectProps {
|
|
|
10
10
|
|
|
11
11
|
export const Select: FunctionComponent<SelectProps> = ({ items, selected, onChange, selectStyle }) => {
|
|
12
12
|
return (
|
|
13
|
-
<select
|
|
13
|
+
<select className={`select ${selectStyle} w-fit`} value={selected} onChange={onChange}>
|
|
14
14
|
{items.map((item) => (
|
|
15
15
|
<option key={item.value} value={item.value} disabled={item.disabled}>
|
|
16
16
|
{item.label}
|
|
@@ -29,7 +29,7 @@ export interface TableProps {
|
|
|
29
29
|
export const Table = ({ data, columns, pageSize }: TableProps) => {
|
|
30
30
|
const pagination = typeof pageSize === 'number' ? { limit: pageSize } : pageSize;
|
|
31
31
|
|
|
32
|
-
const wrapper = useRef(null);
|
|
32
|
+
const wrapper = useRef<HTMLDivElement>(null);
|
|
33
33
|
|
|
34
34
|
useEffect(() => {
|
|
35
35
|
if (wrapper.current === null) {
|
|
@@ -40,7 +40,7 @@ const Tabs = forwardRef<HTMLDivElement, ComponentTabsProps>(({ tabs, toolbar },
|
|
|
40
40
|
const toolbarElement = typeof toolbar === 'function' ? toolbar(activeTab) : toolbar;
|
|
41
41
|
|
|
42
42
|
return (
|
|
43
|
-
<div ref={ref} className='h-full w-full flex flex-col'>
|
|
43
|
+
<div ref={ref} className='h-full w-full flex flex-col bg-white'>
|
|
44
44
|
<div className='flex flex-row justify-between flex-wrap'>
|
|
45
45
|
{tabElements}
|
|
46
46
|
{toolbar && <div className='py-2 flex flex-wrap gap-y-1'>{toolbarElement}</div>}
|
|
@@ -24,7 +24,7 @@ const tooltipContent = 'This is some content.';
|
|
|
24
24
|
|
|
25
25
|
export const TooltipStory: StoryObj<TooltipProps> = {
|
|
26
26
|
render: (args) => (
|
|
27
|
-
<div
|
|
27
|
+
<div className='flex justify-center px-4 py-16'>
|
|
28
28
|
<Tooltip {...args}>
|
|
29
29
|
<div className='bg-red-200'>Hover me</div>
|
|
30
30
|
</Tooltip>
|
|
@@ -47,7 +47,7 @@ const Tooltip: FunctionComponent<TooltipProps> = ({ children, content, position
|
|
|
47
47
|
<div>{children}</div>
|
|
48
48
|
<div
|
|
49
49
|
className={`absolute z-10 w-max bg-white p-4 border border-gray-200 rounded-md invisible group-hover:visible ${getPositionCss(position)}`}
|
|
50
|
-
style={
|
|
50
|
+
style={tooltipStyle}
|
|
51
51
|
>
|
|
52
52
|
{content}
|
|
53
53
|
</div>
|
|
@@ -72,7 +72,7 @@ const XAxis: FunctionComponent<XAxisProps> = (componentProps) => {
|
|
|
72
72
|
return (
|
|
73
73
|
<div
|
|
74
74
|
key={idx}
|
|
75
|
-
|
|
75
|
+
className='absolute text-xs text-black px-1 hover:opacity-80 border-l border-r border-gray-400 border-t'
|
|
76
76
|
style={{
|
|
77
77
|
left: `calc(${leftPercent}% - 1px)`,
|
|
78
78
|
width: `calc(${widthPercent}% - 1px)`,
|
|
@@ -200,10 +200,10 @@ const CDSPlot: FunctionComponent<CDSProps> = (componentProps) => {
|
|
|
200
200
|
};
|
|
201
201
|
|
|
202
202
|
return (
|
|
203
|
-
<div ref={ref}
|
|
203
|
+
<div ref={ref} className='p-4'>
|
|
204
204
|
<CDSBars gffData={gffData} zoomStart={zoomStart} zoomEnd={zoomEnd} />
|
|
205
205
|
<XAxis zoomStart={zoomStart} zoomEnd={zoomEnd} fullWidth={width} />
|
|
206
|
-
<div
|
|
206
|
+
<div className='relative w-full h-5'>
|
|
207
207
|
<MinMaxRangeSlider
|
|
208
208
|
min={zoomStart}
|
|
209
209
|
max={zoomEnd}
|
|
@@ -12,9 +12,7 @@ type Position = {
|
|
|
12
12
|
end: number;
|
|
13
13
|
};
|
|
14
14
|
|
|
15
|
-
type CDSMap = {
|
|
16
|
-
[id: string]: { positions: Position[]; label: string };
|
|
17
|
-
};
|
|
15
|
+
type CDSMap = Record<string, { positions: Position[]; label: string }>;
|
|
18
16
|
|
|
19
17
|
export async function loadGff3(gff3Source: string, genomeLength: number | undefined) {
|
|
20
18
|
try {
|
|
@@ -25,9 +23,7 @@ export async function loadGff3(gff3Source: string, genomeLength: number | undefi
|
|
|
25
23
|
|
|
26
24
|
const response = await fetch(gff3Source);
|
|
27
25
|
const content = await response.text();
|
|
28
|
-
|
|
29
|
-
genomeLength = loadGenomeLength(content);
|
|
30
|
-
}
|
|
26
|
+
genomeLength ??= loadGenomeLength(content);
|
|
31
27
|
return { features: parseGFF3(content), length: genomeLength };
|
|
32
28
|
}
|
|
33
29
|
|
|
@@ -89,7 +85,7 @@ function getCDSMap(lines: string[], genome_type: string, geneMap: CDSMap): CDSMa
|
|
|
89
85
|
}
|
|
90
86
|
|
|
91
87
|
const attrPairs = getAttributes(attributes);
|
|
92
|
-
const labelAttribute = attrPairs.get('Name')
|
|
88
|
+
const labelAttribute = attrPairs.get('Name') ?? attrPairs.get('gene') ?? attrPairs.get('gene_name');
|
|
93
89
|
if (!labelAttribute) {
|
|
94
90
|
throw new UserFacingError(
|
|
95
91
|
'Invalid gff3 source',
|
|
@@ -97,11 +93,12 @@ function getCDSMap(lines: string[], genome_type: string, geneMap: CDSMap): CDSMa
|
|
|
97
93
|
);
|
|
98
94
|
}
|
|
99
95
|
const label = removeQuotes(labelAttribute);
|
|
100
|
-
const id = removeQuotes(attrPairs.get('ID')
|
|
96
|
+
const id = removeQuotes(attrPairs.get('ID') ?? labelAttribute);
|
|
101
97
|
const parentAttribute = attrPairs.get('Parent');
|
|
102
98
|
if (parentAttribute) {
|
|
103
99
|
const parent = removeQuotes(parentAttribute);
|
|
104
100
|
if (parent && parent in geneMap) {
|
|
101
|
+
// eslint-disable-next-line @typescript-eslint/no-dynamic-delete
|
|
105
102
|
delete geneMap[parent];
|
|
106
103
|
}
|
|
107
104
|
}
|
|
@@ -99,5 +99,5 @@ function filterByInputValue(item: LineageItem, inputValue: string | null) {
|
|
|
99
99
|
if (inputValue === null || inputValue === '') {
|
|
100
100
|
return true;
|
|
101
101
|
}
|
|
102
|
-
return item.lineage
|
|
102
|
+
return item.lineage.toLowerCase().includes(inputValue.toLowerCase() || '');
|
|
103
103
|
}
|