@genspectrum/dashboard-components 1.1.0 → 1.3.0

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Files changed (109) hide show
  1. package/custom-elements.json +22 -3
  2. package/dist/{NumberRangeFilterChangedEvent-B64OQZjX.js → NumberRangeFilterChangedEvent-CQ32Qy8D.js} +2 -2
  3. package/dist/NumberRangeFilterChangedEvent-CQ32Qy8D.js.map +1 -0
  4. package/dist/assets/mutationOverTimeWorker-C7saVShx.js.map +1 -0
  5. package/dist/components.d.ts +33 -27
  6. package/dist/components.js +119 -127
  7. package/dist/components.js.map +1 -1
  8. package/dist/util.d.ts +27 -27
  9. package/dist/util.js +1 -1
  10. package/package.json +7 -3
  11. package/src/lapisApi/lapisApi.ts +31 -2
  12. package/src/lapisApi/lapisTypes.ts +35 -1
  13. package/src/operator/DivisionOperator.ts +4 -2
  14. package/src/operator/FetchDetailsOperator.ts +1 -1
  15. package/src/operator/RenameFieldOperator.ts +3 -3
  16. package/src/preact/aggregatedData/aggregate.tsx +0 -5
  17. package/src/preact/components/annotated-mutation.tsx +0 -1
  18. package/src/preact/components/clearable-select.stories.tsx +1 -1
  19. package/src/preact/components/confidence-interval-selector.tsx +1 -1
  20. package/src/preact/components/error-boundary.tsx +1 -5
  21. package/src/preact/components/error-display.tsx +1 -1
  22. package/src/preact/components/fullscreen.tsx +2 -5
  23. package/src/preact/components/info.stories.tsx +1 -1
  24. package/src/preact/components/min-max-range-slider.tsx +1 -1
  25. package/src/preact/components/proportion-selector.tsx +4 -4
  26. package/src/preact/components/select.tsx +1 -1
  27. package/src/preact/components/table.tsx +1 -1
  28. package/src/preact/components/tabs.tsx +1 -1
  29. package/src/preact/components/tooltip.stories.tsx +1 -1
  30. package/src/preact/components/tooltip.tsx +1 -1
  31. package/src/preact/genomeViewer/CDSPlot.tsx +3 -3
  32. package/src/preact/genomeViewer/loadGff3.ts +5 -8
  33. package/src/preact/lineageFilter/lineage-filter.tsx +1 -1
  34. package/src/preact/locationFilter/location-filter.tsx +4 -4
  35. package/src/preact/mutationComparison/getMutationComparisonTableData.ts +1 -3
  36. package/src/preact/mutationComparison/mutation-comparison-venn.tsx +1 -1
  37. package/src/preact/mutationComparison/mutation-comparison.tsx +0 -5
  38. package/src/preact/mutationFilter/mutation-filter-info.tsx +2 -2
  39. package/src/preact/mutationFilter/mutation-filter.tsx +1 -1
  40. package/src/preact/mutations/getMutationsGridData.ts +2 -6
  41. package/src/preact/mutations/getMutationsTableData.ts +1 -1
  42. package/src/preact/mutations/mutations-grid.tsx +1 -1
  43. package/src/preact/mutations/mutations.tsx +0 -5
  44. package/src/preact/mutationsOverTime/__mockData__/aminoAcidMutationsByDay.ts +1 -0
  45. package/src/preact/mutationsOverTime/__mockData__/byWeek.ts +1 -0
  46. package/src/preact/mutationsOverTime/__mockData__/defaultMockData.ts +1 -0
  47. package/src/preact/mutationsOverTime/__mockData__/noDataWhenNoMutationsAreInFilter.ts +1 -0
  48. package/src/preact/mutationsOverTime/__mockData__/noDataWhenThereAreNoDatesInFilter.ts +1 -0
  49. package/src/preact/mutationsOverTime/__mockData__/showsMessageWhenTooManyMutations.ts +1 -0
  50. package/src/preact/mutationsOverTime/mutations-over-time.stories.tsx +2 -0
  51. package/src/preact/mutationsOverTime/mutations-over-time.tsx +11 -11
  52. package/src/preact/numberRangeFilter/number-range-filter.tsx +4 -4
  53. package/src/preact/numberSequencesOverTime/getNumberOfSequencesOverTimeTableData.ts +1 -4
  54. package/src/preact/numberSequencesOverTime/number-sequences-over-time.tsx +0 -5
  55. package/src/preact/prevalenceOverTime/prevalence-over-time-bar-chart.tsx +1 -1
  56. package/src/preact/prevalenceOverTime/prevalence-over-time-bubble-chart.tsx +1 -1
  57. package/src/preact/prevalenceOverTime/prevalence-over-time-line-chart.tsx +1 -1
  58. package/src/preact/prevalenceOverTime/prevalence-over-time.tsx +1 -1
  59. package/src/preact/relativeGrowthAdvantage/relative-growth-advantage-chart.tsx +5 -5
  60. package/src/preact/relativeGrowthAdvantage/relative-growth-advantage.tsx +1 -4
  61. package/src/preact/sequencesByLocation/loadMapSource.tsx +5 -2
  62. package/src/preact/shared/aspectRatio/AspectRatio.tsx +1 -1
  63. package/src/preact/shared/floating-ui/hooks.ts +2 -2
  64. package/src/preact/shared/sort/sortMutationPositions.ts +2 -2
  65. package/src/preact/shared/tanstackTable/pagination.tsx +2 -2
  66. package/src/preact/shared/tanstackTable/tanstackTable.tsx +1 -1
  67. package/src/preact/statistic/statistics.tsx +0 -5
  68. package/src/preact/textFilter/fetchStringAutocompleteList.ts +1 -10
  69. package/src/preact/textFilter/text-filter.tsx +1 -6
  70. package/src/preact/wastewater/mutationsOverTime/wastewater-mutations-over-time.tsx +1 -1
  71. package/src/preact/webWorkers/useWebWorker.ts +2 -1
  72. package/src/preact/webWorkers/workerFunction.ts +2 -2
  73. package/src/query/computeMapLocationData.ts +1 -1
  74. package/src/query/queryAggregatedDataOverTime.ts +3 -3
  75. package/src/query/queryMutationsOverTime.spec.ts +9 -9
  76. package/src/query/queryMutationsOverTime.ts +121 -37
  77. package/src/query/queryMutationsOverTimeNewEndpoint.spec.ts +935 -0
  78. package/src/query/queryRelativeGrowthAdvantage.ts +5 -9
  79. package/src/query/queryWastewaterMutationsOverTime.ts +1 -1
  80. package/src/types.ts +1 -1
  81. package/src/utils/mutations.ts +10 -10
  82. package/src/utils/type-utils.ts +1 -1
  83. package/src/utils/typeAssertions.spec.ts +1 -1
  84. package/src/web-components/gs-app.spec-d.ts +1 -1
  85. package/src/web-components/gs-app.stories.ts +1 -1
  86. package/src/web-components/input/gs-date-range-filter.tsx +2 -2
  87. package/src/web-components/input/gs-lineage-filter.tsx +2 -2
  88. package/src/web-components/input/gs-location-filter.tsx +3 -3
  89. package/src/web-components/input/gs-mutation-filter.tsx +2 -2
  90. package/src/web-components/input/gs-number-range-filter.spec.ts +1 -1
  91. package/src/web-components/input/gs-text-filter.tsx +2 -2
  92. package/src/web-components/visualization/gs-aggregate.tsx +2 -2
  93. package/src/web-components/visualization/gs-genome-data-viewer.spec-d.ts +1 -1
  94. package/src/web-components/visualization/gs-mutation-comparison.tsx +2 -2
  95. package/src/web-components/visualization/gs-mutations-over-time.spec-d.ts +3 -0
  96. package/src/web-components/visualization/gs-mutations-over-time.stories.ts +3 -0
  97. package/src/web-components/visualization/gs-mutations-over-time.tsx +9 -0
  98. package/src/web-components/visualization/gs-mutations.tsx +2 -2
  99. package/src/web-components/visualization/gs-number-sequences-over-time.tsx +2 -2
  100. package/src/web-components/visualization/gs-prevalence-over-time.tsx +2 -2
  101. package/src/web-components/visualization/gs-relative-growth-advantage.tsx +2 -2
  102. package/src/web-components/visualization/gs-sequences-by-location.tsx +2 -2
  103. package/src/web-components/visualization/gs-statistics.tsx +2 -2
  104. package/standalone-bundle/assets/mutationOverTimeWorker-DRRi3aMG.js.map +1 -0
  105. package/standalone-bundle/dashboard-components.js +4454 -4430
  106. package/standalone-bundle/dashboard-components.js.map +1 -1
  107. package/dist/NumberRangeFilterChangedEvent-B64OQZjX.js.map +0 -1
  108. package/dist/assets/mutationOverTimeWorker-DjH04AQB.js.map +0 -1
  109. package/standalone-bundle/assets/mutationOverTimeWorker-B6bf3R3j.js.map +0 -1
package/dist/util.d.ts CHANGED
@@ -164,7 +164,7 @@ declare type LapisLineageFilter = Record<string, string | undefined>;
164
164
 
165
165
  declare type LapisLocationFilter = default_2.infer<typeof lapisLocationFilterSchema>;
166
166
 
167
- declare const lapisLocationFilterSchema: default_2.ZodRecord<default_2.ZodString, default_2.ZodUnion<[default_2.ZodString, default_2.ZodUndefined]>>;
167
+ declare const lapisLocationFilterSchema: default_2.ZodRecord<default_2.ZodString, default_2.ZodUnion<[default_2.ZodString, default_2.ZodUndefined, default_2.ZodNull]>>;
168
168
 
169
169
  export declare type LapisNumberFilter = Record<string, number | undefined>;
170
170
 
@@ -949,7 +949,7 @@ declare global {
949
949
 
950
950
  declare global {
951
951
  interface HTMLElementTagNameMap {
952
- 'gs-prevalence-over-time': PrevalenceOverTimeComponent;
952
+ 'gs-mutations': MutationsComponent;
953
953
  }
954
954
  }
955
955
 
@@ -957,7 +957,7 @@ declare global {
957
957
  declare global {
958
958
  namespace JSX {
959
959
  interface IntrinsicElements {
960
- 'gs-prevalence-over-time': DetailedHTMLProps<HTMLAttributes<HTMLElement>, HTMLElement>;
960
+ 'gs-mutations': DetailedHTMLProps<HTMLAttributes<HTMLElement>, HTMLElement>;
961
961
  }
962
962
  }
963
963
  }
@@ -965,7 +965,7 @@ declare global {
965
965
 
966
966
  declare global {
967
967
  interface HTMLElementTagNameMap {
968
- 'gs-mutations': MutationsComponent;
968
+ 'gs-relative-growth-advantage': RelativeGrowthAdvantageComponent;
969
969
  }
970
970
  }
971
971
 
@@ -973,7 +973,7 @@ declare global {
973
973
  declare global {
974
974
  namespace JSX {
975
975
  interface IntrinsicElements {
976
- 'gs-mutations': DetailedHTMLProps<HTMLAttributes<HTMLElement>, HTMLElement>;
976
+ 'gs-relative-growth-advantage': DetailedHTMLProps<HTMLAttributes<HTMLElement>, HTMLElement>;
977
977
  }
978
978
  }
979
979
  }
@@ -981,7 +981,7 @@ declare global {
981
981
 
982
982
  declare global {
983
983
  interface HTMLElementTagNameMap {
984
- 'gs-relative-growth-advantage': RelativeGrowthAdvantageComponent;
984
+ 'gs-aggregate': AggregateComponent;
985
985
  }
986
986
  }
987
987
 
@@ -989,7 +989,7 @@ declare global {
989
989
  declare global {
990
990
  namespace JSX {
991
991
  interface IntrinsicElements {
992
- 'gs-relative-growth-advantage': DetailedHTMLProps<HTMLAttributes<HTMLElement>, HTMLElement>;
992
+ 'gs-aggregate': DetailedHTMLProps<HTMLAttributes<HTMLElement>, HTMLElement>;
993
993
  }
994
994
  }
995
995
  }
@@ -997,7 +997,7 @@ declare global {
997
997
 
998
998
  declare global {
999
999
  interface HTMLElementTagNameMap {
1000
- 'gs-aggregate': AggregateComponent;
1000
+ 'gs-prevalence-over-time': PrevalenceOverTimeComponent;
1001
1001
  }
1002
1002
  }
1003
1003
 
@@ -1005,7 +1005,7 @@ declare global {
1005
1005
  declare global {
1006
1006
  namespace JSX {
1007
1007
  interface IntrinsicElements {
1008
- 'gs-aggregate': DetailedHTMLProps<HTMLAttributes<HTMLElement>, HTMLElement>;
1008
+ 'gs-prevalence-over-time': DetailedHTMLProps<HTMLAttributes<HTMLElement>, HTMLElement>;
1009
1009
  }
1010
1010
  }
1011
1011
  }
@@ -1013,7 +1013,7 @@ declare global {
1013
1013
 
1014
1014
  declare global {
1015
1015
  interface HTMLElementTagNameMap {
1016
- 'gs-number-sequences-over-time': NumberSequencesOverTimeComponent;
1016
+ 'gs-mutations-over-time': MutationsOverTimeComponent;
1017
1017
  }
1018
1018
  }
1019
1019
 
@@ -1021,7 +1021,7 @@ declare global {
1021
1021
  declare global {
1022
1022
  namespace JSX {
1023
1023
  interface IntrinsicElements {
1024
- 'gs-number-sequences-over-time': DetailedHTMLProps<HTMLAttributes<HTMLElement>, HTMLElement>;
1024
+ 'gs-mutations-over-time': DetailedHTMLProps<HTMLAttributes<HTMLElement>, HTMLElement>;
1025
1025
  }
1026
1026
  }
1027
1027
  }
@@ -1029,7 +1029,7 @@ declare global {
1029
1029
 
1030
1030
  declare global {
1031
1031
  interface HTMLElementTagNameMap {
1032
- 'gs-mutations-over-time': MutationsOverTimeComponent;
1032
+ 'gs-number-sequences-over-time': NumberSequencesOverTimeComponent;
1033
1033
  }
1034
1034
  }
1035
1035
 
@@ -1037,7 +1037,7 @@ declare global {
1037
1037
  declare global {
1038
1038
  namespace JSX {
1039
1039
  interface IntrinsicElements {
1040
- 'gs-mutations-over-time': DetailedHTMLProps<HTMLAttributes<HTMLElement>, HTMLElement>;
1040
+ 'gs-number-sequences-over-time': DetailedHTMLProps<HTMLAttributes<HTMLElement>, HTMLElement>;
1041
1041
  }
1042
1042
  }
1043
1043
  }
@@ -1061,7 +1061,7 @@ declare global {
1061
1061
 
1062
1062
  declare global {
1063
1063
  interface HTMLElementTagNameMap {
1064
- 'gs-statistics': StatisticsComponent;
1064
+ 'gs-wastewater-mutations-over-time': WastewaterMutationsOverTimeComponent;
1065
1065
  }
1066
1066
  }
1067
1067
 
@@ -1069,7 +1069,7 @@ declare global {
1069
1069
  declare global {
1070
1070
  namespace JSX {
1071
1071
  interface IntrinsicElements {
1072
- 'gs-statistics': DetailedHTMLProps<HTMLAttributes<HTMLElement>, HTMLElement>;
1072
+ 'gs-wastewater-mutations-over-time': DetailedHTMLProps<HTMLAttributes<HTMLElement>, HTMLElement>;
1073
1073
  }
1074
1074
  }
1075
1075
  }
@@ -1077,7 +1077,7 @@ declare global {
1077
1077
 
1078
1078
  declare global {
1079
1079
  interface HTMLElementTagNameMap {
1080
- 'gs-wastewater-mutations-over-time': WastewaterMutationsOverTimeComponent;
1080
+ 'gs-statistics': StatisticsComponent;
1081
1081
  }
1082
1082
  }
1083
1083
 
@@ -1085,7 +1085,7 @@ declare global {
1085
1085
  declare global {
1086
1086
  namespace JSX {
1087
1087
  interface IntrinsicElements {
1088
- 'gs-wastewater-mutations-over-time': DetailedHTMLProps<HTMLAttributes<HTMLElement>, HTMLElement>;
1088
+ 'gs-statistics': DetailedHTMLProps<HTMLAttributes<HTMLElement>, HTMLElement>;
1089
1089
  }
1090
1090
  }
1091
1091
  }
@@ -1093,10 +1093,11 @@ declare global {
1093
1093
 
1094
1094
  declare global {
1095
1095
  interface HTMLElementTagNameMap {
1096
- 'gs-location-filter': LocationFilterComponent;
1096
+ 'gs-date-range-filter': DateRangeFilterComponent;
1097
1097
  }
1098
1098
  interface HTMLElementEventMap {
1099
- [gsEventNames.locationChanged]: LocationChangedEvent;
1099
+ [gsEventNames.dateRangeFilterChanged]: CustomEvent<Record<string, string>>;
1100
+ [gsEventNames.dateRangeOptionChanged]: DateRangeOptionChangedEvent;
1100
1101
  }
1101
1102
  }
1102
1103
 
@@ -1104,7 +1105,7 @@ declare global {
1104
1105
  declare global {
1105
1106
  namespace JSX {
1106
1107
  interface IntrinsicElements {
1107
- 'gs-location-filter': DetailedHTMLProps<HTMLAttributes<HTMLElement>, HTMLElement>;
1108
+ 'gs-date-range-filter': DetailedHTMLProps<HTMLAttributes<HTMLElement>, HTMLElement>;
1108
1109
  }
1109
1110
  }
1110
1111
  }
@@ -1112,10 +1113,10 @@ declare global {
1112
1113
 
1113
1114
  declare global {
1114
1115
  interface HTMLElementTagNameMap {
1115
- 'gs-text-filter': TextFilterComponent;
1116
+ 'gs-location-filter': LocationFilterComponent;
1116
1117
  }
1117
1118
  interface HTMLElementEventMap {
1118
- [gsEventNames.textFilterChanged]: TextFilterChangedEvent;
1119
+ [gsEventNames.locationChanged]: LocationChangedEvent;
1119
1120
  }
1120
1121
  }
1121
1122
 
@@ -1123,7 +1124,7 @@ declare global {
1123
1124
  declare global {
1124
1125
  namespace JSX {
1125
1126
  interface IntrinsicElements {
1126
- 'gs-text-filter': DetailedHTMLProps<HTMLAttributes<HTMLElement>, HTMLElement>;
1127
+ 'gs-location-filter': DetailedHTMLProps<HTMLAttributes<HTMLElement>, HTMLElement>;
1127
1128
  }
1128
1129
  }
1129
1130
  }
@@ -1131,11 +1132,10 @@ declare global {
1131
1132
 
1132
1133
  declare global {
1133
1134
  interface HTMLElementTagNameMap {
1134
- 'gs-date-range-filter': DateRangeFilterComponent;
1135
+ 'gs-text-filter': TextFilterComponent;
1135
1136
  }
1136
1137
  interface HTMLElementEventMap {
1137
- [gsEventNames.dateRangeFilterChanged]: CustomEvent<Record<string, string>>;
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-date-range-filter': DetailedHTMLProps<HTMLAttributes<HTMLElement>, HTMLElement>;
1146
+ 'gs-text-filter': DetailedHTMLProps<HTMLAttributes<HTMLElement>, HTMLElement>;
1147
1147
  }
1148
1148
  }
1149
1149
  }
package/dist/util.js CHANGED
@@ -1,4 +1,4 @@
1
- import { D, a, L, N, b, T, d, g, v } from "./NumberRangeFilterChangedEvent-B64OQZjX.js";
1
+ import { D, a, L, N, b, T, d, g, v } from "./NumberRangeFilterChangedEvent-CQ32Qy8D.js";
2
2
  export {
3
3
  D as DateRangeOptionChangedEvent,
4
4
  a as LineageFilterChangedEvent,
package/package.json CHANGED
@@ -1,6 +1,6 @@
1
1
  {
2
2
  "name": "@genspectrum/dashboard-components",
3
- "version": "1.1.0",
3
+ "version": "1.3.0",
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": "^8.57.0",
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"
@@ -9,6 +9,8 @@ import {
9
9
  mutationsResponse,
10
10
  problemDetail,
11
11
  type ProblemDetail,
12
+ type MutationsOverTimeRequest,
13
+ mutationsOverTimeResponse,
12
14
  } from './lapisTypes';
13
15
  import { type SequenceType } from '../types';
14
16
  import { lineageDefinitionResponseSchema } from './LineageDefinition';
@@ -112,6 +114,28 @@ export async function fetchSubstitutionsOrDeletions(
112
114
  return mutationsResponse.parse(await response.json());
113
115
  }
114
116
 
117
+ export async function fetchMutationsOverTime(
118
+ lapisUrl: string,
119
+ body: MutationsOverTimeRequest,
120
+ sequenceType: SequenceType,
121
+ signal?: AbortSignal,
122
+ ) {
123
+ const response = await callLapis(
124
+ mutationsOverTimeEndpoint(lapisUrl, sequenceType),
125
+ {
126
+ method: 'POST',
127
+ headers: {
128
+ 'Content-Type': 'application/json',
129
+ },
130
+ body: JSON.stringify(body),
131
+ signal,
132
+ },
133
+ `${sequenceType} mutations over time`,
134
+ );
135
+
136
+ return mutationsOverTimeResponse.parse(await response.json());
137
+ }
138
+
115
139
  export async function fetchReferenceGenome(lapisUrl: string, signal?: AbortSignal) {
116
140
  const response = await callLapis(
117
141
  referenceGenomeEndpoint(lapisUrl),
@@ -176,7 +200,7 @@ const handleErrors = async (response: Response, requestedData: string) => {
176
200
  const lapisErrorResult = lapisError.safeParse(json);
177
201
  if (lapisErrorResult.success) {
178
202
  throw new LapisError(
179
- response.statusText + lapisErrorResult.data.error.detail,
203
+ response.statusText + (lapisErrorResult.data.error.detail ?? ''),
180
204
  response.status,
181
205
  lapisErrorResult.data.error,
182
206
  requestedData,
@@ -186,7 +210,7 @@ const handleErrors = async (response: Response, requestedData: string) => {
186
210
  const problemDetailResult = problemDetail.safeParse(json);
187
211
  if (problemDetailResult.success) {
188
212
  throw new LapisError(
189
- response.statusText + problemDetailResult.data.detail,
213
+ response.statusText + (problemDetailResult.data.detail ?? ''),
190
214
  response.status,
191
215
  problemDetailResult.data,
192
216
  requestedData,
@@ -215,6 +239,11 @@ export const substitutionsOrDeletionsEndpoint = (lapisUrl: string, sequenceType:
215
239
  ? `${lapisUrl}/sample/aminoAcidMutations`
216
240
  : `${lapisUrl}/sample/nucleotideMutations`;
217
241
  };
242
+ export const mutationsOverTimeEndpoint = (lapisUrl: string, sequenceType: SequenceType) => {
243
+ return sequenceType === 'amino acid'
244
+ ? `${lapisUrl}/component/aminoAcidMutationsOverTime`
245
+ : `${lapisUrl}/component/nucleotideMutationsOverTime`;
246
+ };
218
247
  export const referenceGenomeEndpoint = (lapisUrl: string) => `${lapisUrl}/sample/referenceGenome`;
219
248
  export const lineageDefinitionEndpoint = (lapisUrl: string, lapisField: string) =>
220
249
  `${lapisUrl}/sample/lineageDefinition/${lapisField}`;
@@ -7,6 +7,13 @@ export const orderBy = z.object({
7
7
  type: orderByType,
8
8
  });
9
9
 
10
+ const filterValue = z.union([z.string(), z.number(), z.boolean(), z.null(), z.undefined(), z.array(z.string())]);
11
+
12
+ const dateRange = z.object({
13
+ dateFrom: z.string(),
14
+ dateTo: z.string(),
15
+ });
16
+
10
17
  export const lapisBaseRequest = z
11
18
  .object({
12
19
  limit: z.number().optional(),
@@ -14,7 +21,7 @@ export const lapisBaseRequest = z
14
21
  fields: z.array(z.string()).optional(),
15
22
  orderBy: z.array(orderBy).optional(),
16
23
  })
17
- .catchall(z.union([z.boolean(), z.undefined(), z.string(), z.number(), z.null(), z.array(z.string())]));
24
+ .catchall(filterValue);
18
25
  export type LapisBaseRequest = z.infer<typeof lapisBaseRequest>;
19
26
 
20
27
  export const mutationsRequest = lapisBaseRequest.extend({ minProportion: z.number().optional() });
@@ -32,6 +39,33 @@ const mutationProportionCount = z.object({
32
39
  export const mutationsResponse = makeLapisResponse(z.array(mutationProportionCount));
33
40
  export type MutationsResponse = z.infer<typeof mutationsResponse>;
34
41
 
42
+ export const mutationsOverTimeRequest = z.object({
43
+ filters: z.record(filterValue),
44
+ downloadAsFile: z.boolean().optional(),
45
+ downloadFileBasename: z.string().optional(),
46
+ compression: z.enum(['gzip', 'none']).optional(),
47
+ includeMutations: z.array(z.string()).optional(),
48
+ dateRanges: z.array(dateRange).optional(),
49
+ dateField: z.string().optional(),
50
+ });
51
+ export type MutationsOverTimeRequest = z.infer<typeof mutationsOverTimeRequest>;
52
+
53
+ export const mutationsOverTimeResponse = makeLapisResponse(
54
+ z.object({
55
+ mutations: z.array(z.string()),
56
+ dateRanges: z.array(dateRange),
57
+ data: z.array(
58
+ z.array(
59
+ z.object({
60
+ count: z.number(),
61
+ coverage: z.number(),
62
+ }),
63
+ ),
64
+ ),
65
+ }),
66
+ );
67
+ export type MutationsOverTimeResponse = z.infer<typeof mutationsOverTimeResponse>;
68
+
35
69
  const insertionCount = z.object({
36
70
  insertion: z.string(),
37
71
  count: z.number(),
@@ -8,7 +8,8 @@ export type DivisionOperatorResult<
8
8
  ResultField extends string,
9
9
  NumeratorField extends string,
10
10
  DenominatorField extends string,
11
- > = { [P in KeyField]: ValueObject[KeyField] } & MappedNumber<ResultField> &
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 { [P in KeyField]: ValueObject[KeyField] } & MappedNumber<ResultField> &
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> = { [field in Fields]: string | number | boolean | null };
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 { [key in OldFieldName]: unknown },
8
- > extends MapOperator<Data, Data & { [key in NewFieldName]: Data[OldFieldName] }> {
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 & { [key in NewFieldName]: Data[OldFieldName] },
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>
@@ -14,7 +14,7 @@ export default meta;
14
14
 
15
15
  export const Default: StoryObj<ClearableSelectProps> = {
16
16
  render: (args) => (
17
- <div class='flex justify-center px-4 py-16'>
17
+ <div className='flex justify-center px-4 py-16'>
18
18
  <ClearableSelect {...args} />
19
19
  </div>
20
20
  ),
@@ -33,7 +33,7 @@ export const ConfidenceIntervalSelector: FunctionComponent<ConfidenceIntervalSel
33
33
  return (
34
34
  <Select
35
35
  items={items}
36
- selected={confidenceIntervalMethod === undefined ? 'none' : 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 return `[any, ...]`
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 class='m-4 list-outside list-disc '>
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 class='flex justify-center px-4 py-16'>
18
+ <div className='flex justify-center px-4 py-16'>
19
19
  <Info {...args}>{tooltipText}</Info>
20
20
  </div>
21
21
  ),
@@ -71,7 +71,7 @@ export const MinMaxRangeSlider: FunctionComponent<MinMaxPercentSliderProps> = ({
71
71
  `;
72
72
 
73
73
  return (
74
- <div class='my-4 relative w-full h-full'>
74
+ <div className='my-4 relative w-full h-full'>
75
75
  <input
76
76
  id='fromSlider'
77
77
  type='range'
@@ -60,21 +60,21 @@ export const ProportionSelector: FunctionComponent<ProportionSelectorProps> = ({
60
60
  const indicateError = internalMinProportion > internalMaxProportion;
61
61
 
62
62
  return (
63
- <div class='flex flex-col w-64 mb-2'>
64
- <div class='flex items-center '>
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 class='m-2'>-</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 class='my-1'>
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 class={`select ${selectStyle} w-fit`} value={selected} onChange={onChange}>
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 class='flex justify-center px-4 py-16'>
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 ${getPositionCss(position)}`}
50
- style={{ ...tooltipStyle }}
50
+ style={tooltipStyle}
51
51
  >
52
52
  {content}
53
53
  </div>
@@ -72,7 +72,7 @@ const XAxis: FunctionComponent<XAxisProps> = (componentProps) => {
72
72
  return (
73
73
  <div
74
74
  key={idx}
75
- class='absolute text-xs text-black px-1 hover:opacity-80 border-l border-r border-gray-400 border-t'
75
+ className='absolute text-xs text-black px-1 hover:opacity-80 border-l border-r border-gray-400 border-t'
76
76
  style={{
77
77
  left: `calc(${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} class='p-4'>
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 class='relative w-full h-5'>
206
+ <div className='relative w-full h-5'>
207
207
  <MinMaxRangeSlider
208
208
  min={zoomStart}
209
209
  max={zoomEnd}