@molgenis/vip-report-template 8.0.2 → 8.1.0

package/package.json

@@ -1,33 +1,33 @@
 {
   "name": "@molgenis/vip-report-template",
-  "version": "8.0.2",
+  "version": "8.1.0",
   "description": "Report Template for Variant Call Format (VCF) Report Generator",
   "license": "LGPL-3.0",
   "devDependencies": {
-    "@molgenis/vite-plugin-inline": "^1.0.30",
+    "@molgenis/vite-plugin-inline": "^2.0.0",
     "@types/async-lock": "^1.4.2",
-    "@types/node": "^22.19.1",
-    "@vitest/coverage-v8": "^3.2.4",
+    "@types/node": "^22.19.3",
+    "@vitest/coverage-v8": "^4.0.15",
     "async-lock": "^1.4.1",
     "bulma": "^1.0.4",
-    "eslint": "^9.39.1",
+    "eslint": "^9.39.2",
     "eslint-config-prettier": "^10.1.8",
-    "eslint-plugin-solid": "^0.14.4",
+    "eslint-plugin-solid": "^0.14.5",
     "husky": "^9.1.7",
-    "jsdom": "^26.1.0",
-    "prettier": "^3.6.2",
-    "sass": "^1.94.2",
-    "typescript": "^5.8.0",
-    "typescript-eslint": "^8.48.0",
+    "jsdom": "^27.3.0",
+    "prettier": "^3.7.4",
+    "sass": "^1.97.0",
+    "typescript": "^5.9.3",
+    "typescript-eslint": "^8.49.0",
     "vite": "^6.4.1",
-    "vite-plugin-solid": "^2.11.09",
-    "vitest": "^3.2.4"
+    "vite-plugin-solid": "^2.11.10",
+    "vitest": "^4.0.15"
   },
   "dependencies": {
-    "@fortawesome/fontawesome-svg-core": "^6.7.2",
-    "@fortawesome/free-solid-svg-icons": "^6.7.2",
-    "@molgenis/vip-report-api": "^7.0.3",
-    "@molgenis/vip-report-vcf": "^4.0.4",
+    "@fortawesome/fontawesome-svg-core": "^7.1.0",
+    "@fortawesome/free-solid-svg-icons": "^7.1.0",
+    "@molgenis/vip-report-api": "7.0.5",
+    "@molgenis/vip-report-vcf": "^4.0.5",
     "@solidjs/router": "^0.15.4",
     "ajv": "^8.17.1",
     "base64-js": "^1.5.1",

package/src/components/GenomeBrowser.tsx

@@ -88,8 +88,8 @@ const createBrowserConfig = async (
       id: metadata.app.htsFile?.genomeAssembly,
       name: "Reference",
       fastaURL: "data:application/gzip;base64," + fromByteArray(fastaGz),
-      tracks: tracks,
     },
+    tracks: tracks,
     locus: `${contig}:${position}`,
     showChromosomeWidget: false,
     loadDefaultGenomes: false,

package/src/components/VariantFilters.tsx

@@ -1,7 +1,7 @@
 import { Component, For } from "solid-js";
 import { FilterValueField } from "../types/configFilter";
 import { ConfigFilters } from "../types/config";
-import { FilterChangeCallback, FilterClearCallback, FilterValueMap } from "../types/filter";
+import { FilterChangeCallback, FilterClearCallback, FilterInitedList, FilterValueMap } from "../types/filter";
 import { Filter } from "./filter/Filter";
 
 export const VariantFilters: Component<{
@@ -9,19 +9,19 @@ export const VariantFilters: Component<{
   filterValues: FilterValueMap;
   onFilterChange: FilterChangeCallback;
   onFilterClear: FilterClearCallback;
+  filtersInited: FilterInitedList;
 }> = (props) => {
   return (
-    <>
-      <For each={props.filterConfigs}>
-        {(filter) => (
-          <Filter
-            config={filter}
-            value={props.filterValues[filter.id] as FilterValueField | undefined}
-            onValueChange={(event) => props.onFilterChange({ id: filter.id, ...event })}
-            onValueClear={() => props.onFilterClear({ id: filter.id })}
-          />
-        )}
-      </For>
-    </>
+    <For each={props.filterConfigs}>
+      {(filter) => (
+        <Filter
+          config={filter}
+          value={props.filterValues[filter.id] as FilterValueField | undefined}
+          onValueChange={(event) => props.onFilterChange({ id: filter.id, ...event })}
+          onValueClear={() => props.onFilterClear({ id: filter.id })}
+          isInited={props.filtersInited.includes(filter.id)}
+        />
+      )}
+    </For>
   );
 };

package/src/components/VariantsContainer.tsx

@@ -157,6 +157,7 @@ export const VariantsContainer: Component<{
                 filterValues={props.store.getFilterValues()}
                 onFilterChange={onFilterChange}
                 onFilterClear={onFilterClear}
+                filtersInited={props.store.getFiltersInited()}
               />
             </div>
           </div>

package/src/components/filter/Filter.tsx

@@ -27,6 +27,7 @@ export interface FilterProps<C extends ConfigFilterBase, FilterValueType> {
   defaultValue?: string;
   onValueChange: FilterValueChangeCallback<FilterValueType>;
   onValueClear: FilterValueClearCallback;
+  isInited: boolean;
 }
 
 export const Filter: Component<FilterProps<ConfigFilter, FilterValue>> = (props) => {
@@ -40,6 +41,7 @@ export const Filter: Component<FilterProps<ConfigFilter, FilterValue>> = (props)
           value={props.value as FilterValueFixed}
           onValueChange={props.onValueChange}
           onValueClear={props.onValueClear}
+          isInited={props.isInited}
         />
       </Match>
       <Match when={type() === "info" || type() === "genotype"}>
@@ -48,6 +50,7 @@ export const Filter: Component<FilterProps<ConfigFilter, FilterValue>> = (props)
           value={props.value as FilterValueField}
           onValueChange={props.onValueChange}
           onValueClear={props.onValueClear}
+          isInited={props.isInited}
         />
       </Match>
       <Match when={type() === "composed"}>
@@ -56,6 +59,7 @@ export const Filter: Component<FilterProps<ConfigFilter, FilterValue>> = (props)
           value={props.value as FilterValueComposed}
           onValueChange={props.onValueChange}
           onValueClear={props.onValueClear}
+          isInited={props.isInited}
         />
       </Match>
     </Switch>

package/src/components/filter/composed/FilterAllelicImbalance.tsx

@@ -22,6 +22,7 @@ export const FilterAllelicImbalance: Component<
       defaultValue={props.defaultValue}
       onValueChange={props.onValueChange}
       onValueClear={props.onValueClear}
+      isInited={props.isInited}
     />
   );
 };

package/src/components/filter/composed/FilterComposed.tsx

@@ -38,6 +38,7 @@ export const FilterComposed: Component<FilterProps<ConfigFilterComposed, FilterV
           defaultValue={props.defaultValue}
           onValueChange={props.onValueChange}
           onValueClear={props.onValueClear}
+          isInited={props.isInited}
         />
       </Match>
       <Match when={id() === "composed/locus"}>
@@ -47,6 +48,7 @@ export const FilterComposed: Component<FilterProps<ConfigFilterComposed, FilterV
           defaultValue={props.defaultValue}
           onValueChange={props.onValueChange}
           onValueClear={props.onValueClear}
+          isInited={props.isInited}
         />
       </Match>
       <Match when={id() === "composed/allelicImbalance"}>
@@ -56,6 +58,7 @@ export const FilterComposed: Component<FilterProps<ConfigFilterComposed, FilterV
           defaultValue={props.defaultValue}
           onValueChange={props.onValueChange}
           onValueClear={props.onValueClear}
+          isInited={props.isInited}
         />
       </Match>
       <Match when={id() === "composed/inheritanceMatch"}>
@@ -65,6 +68,7 @@ export const FilterComposed: Component<FilterProps<ConfigFilterComposed, FilterV
           defaultValue={props.defaultValue}
           onValueChange={props.onValueChange}
           onValueClear={props.onValueClear}
+          isInited={props.isInited}
         />
       </Match>
       <Match when={id() === "composed/deNovo"}>
@@ -74,6 +78,7 @@ export const FilterComposed: Component<FilterProps<ConfigFilterComposed, FilterV
           defaultValue={props.defaultValue}
           onValueChange={props.onValueChange}
           onValueClear={props.onValueClear}
+          isInited={props.isInited}
         />
       </Match>
       <Match when={id() === "composed/vipC"}>
@@ -83,6 +88,7 @@ export const FilterComposed: Component<FilterProps<ConfigFilterComposed, FilterV
           defaultValue={props.defaultValue}
           onValueChange={props.onValueChange}
           onValueClear={props.onValueClear}
+          isInited={props.isInited}
         />
       </Match>
       <Match when={id() === "composed/vipCS"}>
@@ -92,6 +98,7 @@ export const FilterComposed: Component<FilterProps<ConfigFilterComposed, FilterV
           defaultValue={props.defaultValue}
           onValueChange={props.onValueChange}
           onValueClear={props.onValueClear}
+          isInited={props.isInited}
         />
       </Match>
     </Switch>

package/src/components/filter/composed/FilterDeNovo.tsx

@@ -31,6 +31,7 @@ export const FilterDeNovo: Component<FilterProps<ConfigFilterDeNovo, FilterValue
       defaultValue={props.defaultValue}
       onValueChange={props.onValueChange}
       onValueClear={props.onValueClear}
+      isInited={props.isInited}
     />
   );
 };

package/src/components/filter/composed/FilterHpo.tsx

@@ -12,6 +12,7 @@ export const FilterHpo: Component<FilterProps<ConfigFilterHpo, FilterValueHpo>>
       defaultValue={props.defaultValue}
       onValueChange={props.onValueChange as FilterValueChangeCallback<FilterValueField>}
       onValueClear={props.onValueClear}
+      isInited={props.isInited}
     />
   );
 };

package/src/components/filter/composed/FilterInheritance.tsx

@@ -38,6 +38,7 @@ export const FilterInheritance: Component<FilterProps<ConfigFilterInheritanceMat
       defaultValue={props.defaultValue}
       onValueChange={props.onValueChange}
       onValueClear={props.onValueClear}
+      isInited={props.isInited}
     />
   );
 };

package/src/components/filter/composed/FilterPick.tsx

@@ -25,6 +25,7 @@ export const FilterPick: Component<FilterProps<ConfigFilterPick, FilterValuePick
       defaultValue={props.defaultValue}
       onValueChange={props.onValueChange}
       onValueClear={props.onValueClear}
+      isInited={props.isInited}
     />
   );
 };

package/src/components/filter/composed/FilterVipC.tsx

@@ -12,6 +12,7 @@ export const FilterVipC: Component<FilterProps<ConfigFilterVipC, FilterValueVipC
       defaultValue={props.defaultValue}
       onValueChange={props.onValueChange as FilterValueChangeCallback<FilterValueField>}
       onValueClear={props.onValueClear}
+      isInited={props.isInited}
     />
   );
 };

package/src/components/filter/composed/FilterVipCS.tsx

@@ -12,6 +12,7 @@ export const FilterVipCS: Component<FilterProps<ConfigFilterVipCS, FilterValueVi
       defaultValue={props.defaultValue}
       onValueChange={props.onValueChange as FilterValueChangeCallback<FilterValueField>}
       onValueClear={props.onValueClear}
+      isInited={props.isInited}
     />
   );
 };

package/src/components/filter/fixed/FilterFixed.tsx

@@ -42,6 +42,7 @@ export const FilterFixed: Component<FilterProps<ConfigFilterFixed, FilterValue>>
           defaultValue={props.defaultValue}
           onValueChange={props.onValueChange}
           onValueClear={props.onValueClear}
+          isInited={props.isInited}
         />
       </Match>
       <Match when={id() === "fixed/pos"}>
@@ -51,6 +52,7 @@ export const FilterFixed: Component<FilterProps<ConfigFilterFixed, FilterValue>>
           defaultValue={props.defaultValue}
           onValueChange={props.onValueChange}
           onValueClear={props.onValueClear}
+          isInited={props.isInited}
         />
       </Match>
       <Match when={id() === "fixed/id"}>
@@ -60,6 +62,7 @@ export const FilterFixed: Component<FilterProps<ConfigFilterFixed, FilterValue>>
           defaultValue={props.defaultValue}
           onValueChange={props.onValueChange}
           onValueClear={props.onValueClear}
+          isInited={props.isInited}
         />
       </Match>
       <Match when={id() === "fixed/ref"}>
@@ -69,6 +72,7 @@ export const FilterFixed: Component<FilterProps<ConfigFilterFixed, FilterValue>>
           defaultValue={props.defaultValue}
           onValueChange={props.onValueChange}
           onValueClear={props.onValueClear}
+          isInited={props.isInited}
         />
       </Match>
       <Match when={id() === "fixed/alt"}>
@@ -78,6 +82,7 @@ export const FilterFixed: Component<FilterProps<ConfigFilterFixed, FilterValue>>
           defaultValue={props.defaultValue}
           onValueChange={props.onValueChange}
           onValueClear={props.onValueClear}
+          isInited={props.isInited}
         />
       </Match>
       <Match when={id() === "fixed/qual"}>
@@ -87,6 +92,7 @@ export const FilterFixed: Component<FilterProps<ConfigFilterFixed, FilterValue>>
           defaultValue={props.defaultValue}
           onValueChange={props.onValueChange}
           onValueClear={props.onValueClear}
+          isInited={props.isInited}
         />
       </Match>
       <Match when={id() === "fixed/filter"}>
@@ -96,6 +102,7 @@ export const FilterFixed: Component<FilterProps<ConfigFilterFixed, FilterValue>>
           defaultValue={props.defaultValue}
           onValueChange={props.onValueChange}
           onValueClear={props.onValueClear}
+          isInited={props.isInited}
         />
       </Match>
     </Switch>

package/src/components/filter/typed/FilterCategorical.tsx

@@ -98,7 +98,7 @@ export const FilterCategorical: Component<FilterProps<ConfigFilterField, FilterV
   }
 
   onMount(() => {
-    if (props.config.defaultValue !== undefined) {
+    if (props.config.defaultValue !== undefined && !props.isInited) {
       const values = props.config.defaultValue.split(",");
       validateValues(values, categories());
       props.onValueChange({ value: values as FilterValueCategorical });

package/src/components/filter/typed/FilterFlag.tsx

@@ -20,6 +20,7 @@ export const FilterFlag: Component<FilterProps<ConfigFilterField, FilterValueFla
       defaultValue={props.defaultValue}
       onValueChange={props.onValueChange}
       onValueClear={props.onValueClear}
+      isInited={props.isInited}
     />
   );
 };

package/src/components/filter/typed/FilterInterval.tsx

@@ -25,7 +25,7 @@ export const FilterInterval: Component<FilterProps<ConfigFilterField, FilterValu
   });
 
   onMount(() => {
-    if (props.config.defaultValue !== undefined) {
+    if (props.config.defaultValue !== undefined && !props.isInited) {
       const split = props.config.defaultValue.split(",");
       if (split.length >= 1) {
         if (split[0] !== undefined && split[0] !== "") {

package/src/components/filter/typed/FilterString.tsx

@@ -24,7 +24,7 @@ export const FilterString: Component<FilterProps<ConfigFilterField, FilterValueS
   };
 
   onMount(() => {
-    if (props.config.defaultValue !== undefined) {
+    if (props.config.defaultValue !== undefined && !props.isInited) {
       setInputValue(props.config.defaultValue);
       onApply();
     }

package/src/components/filter/typed/FilterTyped.tsx

@@ -25,6 +25,7 @@ export const FilterTyped: Component<FilterProps<ConfigFilterField, FilterValueFi
           value={props.value as FilterValueCategorical}
           onValueChange={props.onValueChange}
           onValueClear={props.onValueClear}
+          isInited={props.isInited}
         />
       </Match>
       <Match when={type() === "CHARACTER" || type() === "STRING"}>
@@ -34,6 +35,7 @@ export const FilterTyped: Component<FilterProps<ConfigFilterField, FilterValueFi
           defaultValue={props.defaultValue}
           onValueChange={props.onValueChange}
           onValueClear={props.onValueClear}
+          isInited={props.isInited}
         />
       </Match>
       <Match when={type() === "INTEGER" || type() === "FLOAT"}>
@@ -42,6 +44,7 @@ export const FilterTyped: Component<FilterProps<ConfigFilterField, FilterValueFi
           value={props.value as FilterValueInterval}
           onValueChange={props.onValueChange}
           onValueClear={props.onValueClear}
+          isInited={props.isInited}
         />
       </Match>
       <Match when={type() === "FLAG"}>
@@ -50,6 +53,7 @@ export const FilterTyped: Component<FilterProps<ConfigFilterField, FilterValueFi
           value={props.value as FilterValueFlag}
           onValueChange={props.onValueChange}
           onValueClear={props.onValueClear}
+          isInited={props.isInited}
         />
       </Match>
     </Switch>

package/src/mocks/GRCh38/vcf/family.vcf

@@ -302,7 +302,7 @@ chr9	104784352	.	AAAGAT	A	.	PASS	CSQ=-|frameshift_variant|HIGH|ABCA1|19|Transcri
 chr10	124402930	.	G	C	.	PASS	CSQ=C|stop_gained|HIGH|OAT|4942|Transcript|NM_000274.4|protein_coding|7/10||NM_000274.4:c.897C>G|NP_000265.1:p.Tyr299Ter|977/2039|897/1320|299/439|Y/*|taC/taG|rs121965057&CM920525&COSV64348333|1||-1||1|EntrezGene||||||||likely_pathogenic&pathogenic|0&1&1|1&1&1|1737786&23076989&1609808&22674428||||||||-1|-3|-3|4|0.00|0.00|0.00|0.00|OAT|VUS|0.9577619|||||||AR||LP|4.83387e-05|0.99956|3.935e-05|3.64e-05|0||T|176|criteria_provided&_multiple_submitters&_no_conflicts|Likely_pathogenic||||||||99.8435|0.96855|0.10738|1.28999996185303|LP|filter&vkgl&exit_lp,C|stop_gained|HIGH|OAT|4942|Transcript|NM_001171814.2|protein_coding|6/9||NM_001171814.2:c.483C>G|NP_001165285.1:p.Tyr161Ter|749/1811|483/906|161/301|Y/*|taC/taG|rs121965057&CM920525&COSV64348333|1||-1|||EntrezGene||||||||likely_pathogenic&pathogenic|0&1&1|1&1&1|1737786&23076989&1609808&22674428||||||||-1|-3|-3|4|0.00|0.00|0.00|0.00|OAT|VUS|0.9739149|||||||AR||LP|4.83387e-05|0.99956|3.935e-05|3.64e-05|0||T|176|criteria_provided&_multiple_submitters&_no_conflicts|Likely_pathogenic||||||||99.8435|0.96855|0.10738|1.28999996185303|LP|filter&vkgl&exit_lp,C|stop_gained|HIGH|OAT|4942|Transcript|NM_001322965.2|protein_coding|7/10||NM_001322965.2:c.897C>G|NP_001309894.1:p.Tyr299Ter|972/2034|897/1320|299/439|Y/*|taC/taG|rs121965057&CM920525&COSV64348333|1||-1|||EntrezGene||||||||likely_pathogenic&pathogenic|0&1&1|1&1&1|1737786&23076989&1609808&22674428||||||||-1|-3|-3|4|0.00|0.00|0.00|0.00|OAT|VUS|0.9577619|||||||AR||LP|4.83387e-05|0.99956|3.935e-05|3.64e-05|0||T|176|criteria_provided&_multiple_submitters&_no_conflicts|Likely_pathogenic||||||||99.8435|0.96855|0.10738|1.28999996185303|LP|filter&vkgl&exit_lp,C|stop_gained|HIGH|OAT|4942|Transcript|NM_001322966.2|protein_coding|8/11||NM_001322966.2:c.897C>G|NP_001309895.1:p.Tyr299Ter|1292/2354|897/1320|299/439|Y/*|taC/taG|rs121965057&CM920525&COSV64348333|1||-1|||EntrezGene||||||||likely_pathogenic&pathogenic|0&1&1|1&1&1|1737786&23076989&1609808&22674428||||||||-1|-3|-3|4|0.00|0.00|0.00|0.00|OAT|VUS|0.91890144|||||||AR||LP|4.83387e-05|0.99956|3.935e-05|3.64e-05|0||T|176|criteria_provided&_multiple_submitters&_no_conflicts|Likely_pathogenic||||||||99.8435|0.96855|0.10738|1.28999996185303|LP|filter&vkgl&exit_lp,C|stop_gained|HIGH|OAT|4942|Transcript|NM_001322967.2|protein_coding|8/11||NM_001322967.2:c.897C>G|NP_001309896.1:p.Tyr299Ter|1097/2159|897/1320|299/439|Y/*|taC/taG|rs121965057&CM920525&COSV64348333|1||-1|||EntrezGene||||||||likely_pathogenic&pathogenic|0&1&1|1&1&1|1737786&23076989&1609808&22674428||||||||-1|-3|-3|4|0.00|0.00|0.00|0.00|OAT|VUS|0.95931506|||||||AR||LP|4.83387e-05|0.99956|3.935e-05|3.64e-05|0||T|176|criteria_provided&_multiple_submitters&_no_conflicts|Likely_pathogenic||||||||99.8435|0.96855|0.10738|1.28999996185303|LP|filter&vkgl&exit_lp,C|stop_gained|HIGH|OAT|4942|Transcript|NM_001322968.2|protein_coding|9/12||NM_001322968.2:c.897C>G|NP_001309897.1:p.Tyr299Ter|1184/2246|897/1320|299/439|Y/*|taC/taG|rs121965057&CM920525&COSV64348333|1||-1|||EntrezGene||||||||likely_pathogenic&pathogenic|0&1&1|1&1&1|1737786&23076989&1609808&22674428||||||||-1|-3|-3|4|0.00|0.00|0.00|0.00|OAT|VUS|0.9648485|||||||AR||LP|4.83387e-05|0.99956|3.935e-05|3.64e-05|0||T|176|criteria_provided&_multiple_submitters&_no_conflicts|Likely_pathogenic||||||||99.8435|0.96855|0.10738|1.28999996185303|LP|filter&vkgl&exit_lp,C|stop_gained|HIGH|OAT|4942|Transcript|NM_001322969.2|protein_coding|8/11||NM_001322969.2:c.897C>G|NP_001309898.1:p.Tyr299Ter|1064/2126|897/1320|299/439|Y/*|taC/taG|rs121965057&CM920525&COSV64348333|1||-1|||EntrezGene||||||||likely_pathogenic&pathogenic|0&1&1|1&1&1|1737786&23076989&1609808&22674428||||||||-1|-3|-3|4|0.00|0.00|0.00|0.00|OAT|VUS|0.9579952|||||||AR||LP|4.83387e-05|0.99956|3.935e-05|3.64e-05|0||T|176|criteria_provided&_multiple_submitters&_no_conflicts|Likely_pathogenic||||||||99.8435|0.96855|0.10738|1.28999996185303|LP|filter&vkgl&exit_lp,C|stop_gained|HIGH|OAT|4942|Transcript|NM_001322970.2|protein_coding|9/12||NM_001322970.2:c.897C>G|NP_001309899.1:p.Tyr299Ter|1280/2342|897/1320|299/439|Y/*|taC/taG|rs121965057&CM920525&COSV64348333|1||-1|||EntrezGene||||||||likely_pathogenic&pathogenic|0&1&1|1&1&1|1737786&23076989&1609808&22674428||||||||-1|-3|-3|4|0.00|0.00|0.00|0.00|OAT|VUS|0.91890144|||||||AR||LP|4.83387e-05|0.99956|3.935e-05|3.64e-05|0||T|176|criteria_provided&_multiple_submitters&_no_conflicts|Likely_pathogenic||||||||99.8435|0.96855|0.10738|1.28999996185303|LP|filter&vkgl&exit_lp,C|stop_gained|HIGH|OAT|4942|Transcript|NM_001322971.2|protein_coding|5/8||NM_001322971.2:c.576C>G|NP_001309900.1:p.Tyr192Ter|656/1718|576/999|192/332|Y/*|taC/taG|rs121965057&CM920525&COSV64348333|1||-1|||EntrezGene||||||||likely_pathogenic&pathogenic|0&1&1|1&1&1|1737786&23076989&1609808&22674428||||||||-1|-3|-3|4|0.00|0.00|0.00|0.00|OAT|VUS|0.96753824|||||||AR||LP|4.83387e-05|0.99956|3.935e-05|3.64e-05|0||T|176|criteria_provided&_multiple_submitters&_no_conflicts|Likely_pathogenic||||||||99.8435|0.96855|0.10738|1.28999996185303|LP|filter&vkgl&exit_lp,C|stop_gained|HIGH|OAT|4942|Transcript|NM_001322974.2|protein_coding|7/10||NM_001322974.2:c.297C>G|NP_001309903.1:p.Tyr99Ter|863/1925|297/720|99/239|Y/*|taC/taG|rs121965057&CM920525&COSV64348333|1||-1|||EntrezGene||||||||likely_pathogenic&pathogenic|0&1&1|1&1&1|1737786&23076989&1609808&22674428||||||||-1|-3|-3|4|0.00|0.00|0.00|0.00|OAT|VUS|0.91896105|||||||AR||LP|4.83387e-05|0.99956|3.935e-05|3.64e-05|0||T|176|criteria_provided&_multiple_submitters&_no_conflicts|Likely_pathogenic||||||||99.8435|0.96855|0.10738|1.28999996185303|LP|filter&vkgl&exit_lp;VIPC_S=U2	GT:DP:GQ:VID:VIM:VIPC_S:VIPP_S	0|0:50:50:.:.:.:.	0|0:50:50:.:.:.:.	1|0:50:50:.:.:.:.	0|1:50:50:.:.:.:.	0|0:10:50:.:.:.:.	1|0:50:50:0:0:U2,U2,U2,U2,U2,U2,U2,U2,U2,U2:gt&gq&only_IP&vim&exit_u2,gt&gq&only_IP&vim&exit_u2,gt&gq&only_IP&vim&exit_u2,gt&gq&only_IP&vim&exit_u2,gt&gq&only_IP&vim&exit_u2,gt&gq&only_IP&vim&exit_u2,gt&gq&only_IP&vim&exit_u2,gt&gq&only_IP&vim&exit_u2,gt&gq&only_IP&vim&exit_u2,gt&gq&only_IP&vim&exit_u2
 chr11	134144330	breakend2	G	G[8:61765143[	.	PASS	BND_DEPTH=39;CSQ=G[8:61765143[|feature_truncation&intron_variant|HIGH|JAM3|83700|Transcript|NM_001205329.2|protein_coding||3/7|||||||||1||1|||EntrezGene||||||||||||||||||||||||||||||||||||AR||||||||||||||NA|||JAM3||||||7.97399997711182|VUS|filter&vkgl&clinVar&chrom&gene&gnomAD&gnomAD_AF&sv&str&annotSV&spliceAI&utr5&capice&exit_vus,G[8:61765143[|feature_truncation&coding_sequence_variant|HIGH|JAM3|83700|Transcript|NM_032801.5|protein_coding|4/9||||359/3765|347/933|116/310||||1||1||1|EntrezGene||||||||||||||||||||||||||||||||||||AR||||||||||||||NA|||JAM3||||||7.97399997711182|VUS|filter&vkgl&clinVar&chrom&gene&gnomAD&gnomAD_AF&sv&str&annotSV&spliceAI&utr5&capice&exit_vus;MATEID=breakend1;MATE_BND_DEPTH=26;SVTYPE=BND;VIPC_S=U2	GT:DP:GQ:VID:VIM:VIPC_S:VIPP_S	0|0:50:50:.:.:.:.	0|0:50:50:.:.:.:.	0|0:50:50:.:.:.:.	0|0:50:50:.:.:.:.	0|0:10:50:.:.:.:.	1|0:50:50:1:0:U2,U2:gt&gq&only_IP&vim&exit_u2,gt&gq&only_IP&vim&exit_u2
 chr13	76995993	.	G	A	.	PASS	CSQ=A|missense_variant|MODERATE|CLN5|1203|Transcript|NM_001366624.2|protein_coding|3/5||NM_001366624.2:c.431G>A|NP_001353553.1:p.Cys144Tyr|449/5286|431/594|144/197|C/Y|tGt/tAt|rs1566219136|1||1|||EntrezGene|||||0|0.99||pathogenic||1||||||||194|-27|-43|-27|-1|0.00|0.00|0.01|0.00|CLN5|VUS|0.9150198|||||||AR||LP||||||||623394|criteria_provided&_multiple_submitters&_no_conflicts|Pathogenic|||||||0.837|99.5193|0.99528|0.982568|10.0030002593994|LP|filter&vkgl&exit_lp,A|missense_variant|MODERATE|CLN5|1203|Transcript|NM_006493.4|protein_coding|3/4||NM_006493.4:c.431G>A|NP_006484.2:p.Cys144Tyr|449/5243|431/1077|144/358|C/Y|tGt/tAt|rs1566219136|1||1||1|EntrezGene|||||0|0.998||pathogenic||1||||||||194|-27|-43|-27|-1|0.00|0.00|0.01|0.00|CLN5|VUS|0.98561203|||||||AR||LP||||||||623394|criteria_provided&_multiple_submitters&_no_conflicts|Pathogenic|||||||0.837|99.5193|0.99528|0.982568|10.0030002593994|LP|filter&vkgl&exit_lp;VIPC_S=U2	GT:DP:GQ:VID:VIM:VIPC_S:VIPP_S	0|0:50:50:.:.:.:.	0|0:50:50:.:.:.:.	0|0:50:50:.:.:.:.	0|0:50:50:.:.:.:.	0|0:10:50:.:.:.:.	1|0:50:50:1:0:U2,U2:gt&gq&only_IP&vim&exit_u2,gt&gq&only_IP&vim&exit_u2
-chr14	88870063	.	TG	T	.	PASS	CSQ=-|frameshift_variant|HIGH|TTC8|123016|Transcript|NM_001288781.1|protein_coding|12/16||NM_001288781.1:c.963del|NP_001275710.1:p.Met321IlefsTer15|1159/2378|963/1596|321/531|M/X|atG/at|rs1431207606|1||1|||EntrezGene||||||||likely_pathogenic&pathogenic||1|19797195&21052717&16308660&30886724&16877420||||||||18|-4|-9|-4|0.00|0.16|0.00|0.00|TTC8|VUS|0.9973392|||||||AR||LP|7.43531e-06|0.99975|3.97e-06|3.13e-06|0||T|930561|criteria_provided&_multiple_submitters&_no_conflicts|Likely_pathogenic||||||||99.7295||0.951635|9.52000045776367|LP|filter&vkgl&exit_lp,-|frameshift_variant|HIGH|TTC8|123016|Transcript|NM_001288782.1|protein_coding|10/14||NM_001288782.1:c.321del|NP_001275711.1:p.Met107IlefsTer15|1079/2298|321/954|107/317|M/X|atG/at|rs1431207606|1||1|||EntrezGene||||||||likely_pathogenic&pathogenic||1|19797195&21052717&16308660&30886724&16877420||||||||18|-4|-9|-4|0.00|0.16|0.00|0.00|TTC8|VUS|0.9738995|||||||AR||LP|7.43531e-06|0.99975|3.97e-06|3.13e-06|0||T|930561|criteria_provided&_multiple_submitters&_no_conflicts|Likely_pathogenic||||||||99.7295||0.951635|9.52000045776367|LP|filter&vkgl&exit_lp,-|frameshift_variant|HIGH|TTC8|123016|Transcript|NM_001288783.1|protein_coding|11/15||NM_001288783.1:c.198del|NP_001275712.1:p.Met66IlefsTer15|1051/2270|198/831|66/276|M/X|atG/at|rs1431207606|1||1|||EntrezGene||||||||likely_pathogenic&pathogenic||1|19797195&21052717&16308660&30886724&16877420||||||||18|-4|-9|-4|0.00|0.16|0.00|0.00|TTC8|VUS|0.9683613|||||||AR||LP|7.43531e-06|0.99975|3.97e-06|3.13e-06|0||T|930561|criteria_provided&_multiple_submitters&_no_conflicts|Likely_pathogenic||||||||99.7295||0.951635|9.52000045776367|LP|filter&vkgl&exit_lp,-|frameshift_variant|HIGH|TTC8|123016|Transcript|NM_001366535.2|protein_coding|10/13||NM_001366535.2:c.885del|NP_001353464.1:p.Met295IlefsTer15|942/5160|885/1434|295/477|M/X|atG/at|rs1431207606|1||1|||EntrezGene||||||||likely_pathogenic&pathogenic||1|19797195&21052717&16308660&30886724&16877420||||||||18|-4|-9|-4|0.00|0.16|0.00|0.00|TTC8|VUS|0.9943374|||||||AR||LP|7.43531e-06|0.99975|3.97e-06|3.13e-06|0||T|930561|criteria_provided&_multiple_submitters&_no_conflicts|Likely_pathogenic||||||||99.7295||0.951635|9.52000045776367|LP|filter&vkgl&exit_lp,-|frameshift_variant|HIGH|TTC8|123016|Transcript|NM_001366536.2|protein_coding|9/12||NM_001366536.2:c.795del|NP_001353465.1:p.Met265IlefsTer15|852/5070|795/1344|265/447|M/X|atG/at|rs1431207606|1||1|||EntrezGene||||||||likely_pathogenic&pathogenic||1|19797195&21052717&16308660&30886724&16877420||||||||18|-4|-9|-4|0.00|0.16|0.00|0.00|TTC8|VUS|0.9970993|||||||AR||LP|7.43531e-06|0.99975|3.97e-06|3.13e-06|0||T|930561|criteria_provided&_multiple_submitters&_no_conflicts|Likely_pathogenic||||||||99.7295||0.951635|9.52000045776367|LP|filter&vkgl&exit_lp,-|frameshift_variant|HIGH|TTC8|123016|Transcript|NM_144596.4|protein_coding|11/15||NM_144596.4:c.915del|NP_653197.2:p.Met305IlefsTer15|972/2183|915/1548|305/515|M/X|atG/at|rs1431207606|1||1||1|EntrezGene||||||||likely_pathogenic&pathogenic||1|19797195&21052717&16308660&30886724&16877420||||||||18|-4|-9|-4|0.00|0.16|0.00|0.00|TTC8|VUS|0.9968413|||||||AR||LP|7.43531e-06|0.99975|3.97e-06|3.13e-06|0||T|930561|criteria_provided&_multiple_submitters&_no_conflicts|Likely_pathogenic||||||||99.7295||0.951635|9.52000045776367|LP|filter&vkgl&exit_lp,-|frameshift_variant|HIGH|TTC8|123016|Transcript|NM_198309.3|protein_coding|11/15||NM_198309.3:c.885del|NP_938051.1:p.Met295IlefsTer15|1081/2300|885/1518|295/505|M/X|atG/at|rs1431207606|1||1|||EntrezGene||||||||likely_pathogenic&pathogenic||1|19797195&21052717&16308660&30886724&16877420||||||||18|-4|-9|-4|0.00|0.16|0.00|0.00|TTC8|VUS|0.98999304|||||||AR||LP|7.43531e-06|0.99975|3.97e-06|3.13e-06|0||T|930561|criteria_provided&_multiple_submitters&_no_conflicts|Likely_pathogenic||||||||99.7295||0.951635|9.52000045776367|LP|filter&vkgl&exit_lp,-|frameshift_variant|HIGH|TTC8|123016|Transcript|NM_198310.3|protein_coding|10/14||NM_198310.3:c.795del|NP_938052.1:p.Met265IlefsTer15|991/2210|795/1428|265/475|M/X|atG/at|rs1431207606|1||1|||EntrezGene||||||||likely_pathogenic&pathogenic||1|19797195&21052717&16308660&30886724&16877420||||||||18|-4|-9|-4|0.00|0.16|0.00|0.00|TTC8|VUS|0.99751306|||||||AR||LP|7.43531e-06|0.99975|3.97e-06|3.13e-06|0||T|930561|criteria_provided&_multiple_submitters&_no_conflicts|Likely_pathogenic||||||||99.7295||0.951635|9.52000045776367|LP|filter&vkgl&exit_lp,-|non_coding_transcript_exon_variant|MODIFIER|TTC8|123016|Transcript|NR_159362.2|misc_RNA|11/15||NR_159362.2:n.1002del||1002/5304|||||rs1431207606|1||1|||EntrezGene||||||||likely_pathogenic&pathogenic||1|19797195&21052717&16308660&30886724&16877420||||||||18|-4|-9|-4|0.00|0.16|0.00|0.00|TTC8|VUS|0.92329025|||||||AR||LP|7.43531e-06|0.99975|3.97e-06|3.13e-06|0||T|930561|criteria_provided&_multiple_submitters&_no_conflicts|Likely_pathogenic||||||||99.7295||0.951635|9.52000045776367|LP|filter&vkgl&exit_lp;VIPC_S=U2	GT:DP:GQ:VID:VIM:VIPC_S:VIPP_S	0|1:50:50:.:.:.:.	1|0:50:50:.:.:.:.	0|0:50:50:.:.:.:.	0|0:50:50:.:.:.:.	0|0:10:50:.:.:.:.	1|0:50:50:1:0:U2,U2,U2,U2,U2,U2,U2,U2,U2:gt&gq&only_IP&vim&exit_u2,gt&gq&only_IP&vim&exit_u2,gt&gq&only_IP&vim&exit_u2,gt&gq&only_IP&vim&exit_u2,gt&gq&only_IP&vim&exit_u2,gt&gq&only_IP&vim&exit_u2,gt&gq&only_IP&vim&exit_u2,gt&gq&only_IP&vim&exit_u2,gt&gq&only_IP&vim&exit_u2
+chr14	88870063	.	TG	T	.	PASS	CSQ=-|frameshift_variant|HIGH|TTC8|123016|Transcript|NM_001288781.1|protein_coding|12/16||NM_001288781.1:c.963del|NP_001275710.1:p.Met321IlefsTer15|1159/2378|963/1596|321/531|M/X|atG/at|rs1431207606|1||1|||EntrezGene||||||||likely_pathogenic&pathogenic||1|19797195&21052717&16308660&30886724&16877420||||||||18|-4|-9|-4|0.00|0.16|0.00|0.00|TTC8|VUS|0.9973392|||||||AR||LP|7.43531e-06|0.99975|3.97e-06|3.13e-06|0||T|930561|criteria_provided&_multiple_submitters&_no_conflicts|Likely_pathogenic||||||||99.7295||0.951635|9.52000045776367|LP|filter&vkgl&exit_lp,-|frameshift_variant|HIGH|TTC8|123016|Transcript|NM_001288782.1|protein_coding|10/14||NM_001288782.1:c.321del|NP_001275711.1:p.Met107IlefsTer15|1079/2298|321/954|107/317|M/X|atG/at|rs1431207606|1||1|||EntrezGene||||||||likely_pathogenic&pathogenic||1|19797195&21052717&16308660&30886724&16877420||||||||18|-4|-9|-4|0.00|0.16|0.00|0.00|TTC8|VUS|0.9738995|||||||AR||LP|7.43531e-06|0.99975|3.97e-06|3.13e-06|0||T|930561|criteria_provided&_multiple_submitters&_no_conflicts|Likely_pathogenic||||||||99.7295||0.951635|9.52000045776367|LP|filter&vkgl&exit_lp,-|frameshift_variant|HIGH|TTC8|123016|Transcript|NM_001288783.1|protein_coding|11/15||NM_001288783.1:c.198del|NP_001275712.1:p.Met66IlefsTer15|1051/2270|198/831|66/276|M/X|atG/at|rs1431207606|1||1|||EntrezGene||||||||likely_pathogenic&pathogenic||1|19797195&21052717&16308660&30886724&16877420||||||||18|-4|-9|-4|0.00|0.16|0.00|0.00|TTC8|VUS|0.9683613|||||||AR||LP|7.43531e-06|0.99975|3.97e-06|3.13e-06|0||T|930561|criteria_provided&_multiple_submitters&_no_conflicts|Likely_pathogenic||||||||99.7295||0.951635|9.52000045776367|LP|filter&vkgl&exit_lp,-|frameshift_variant|HIGH|TTC8|123016|Transcript|NM_001366535.2|protein_coding|10/13||NM_001366535.2:c.885del|NP_001353464.1:p.Met295IlefsTer15|942/5160|885/1434|295/477|M/X|atG/at|rs1431207606|1||1|||EntrezGene||||||||likely_pathogenic&pathogenic||1|19797195&21052717&16308660&30886724&16877420||||||||18|-4|-9|-4|0.00|0.16|0.00|0.00|TTC8|VUS|0.9943374|||||||AR||LP|7.43531e-06|0.99975|3.97e-06|3.13e-06|0||T|930561|criteria_provided&_multiple_submitters&_no_conflicts|Likely_pathogenic||||||||99.7295||0.951635|9.52000045776367|LP|filter&vkgl&exit_lp,-|frameshift_variant|HIGH|TTC8|123016|Transcript|NM_001366536.2|protein_coding|9/12||NM_001366536.2:c.795del|NP_001353465.1:p.Met265IlefsTer15|852/5070|795/1344|265/447|M/X|atG/at|rs1431207606|1||1|||EntrezGene||||||||likely_pathogenic&pathogenic||1|19797195&21052717&16308660&30886724&16877420||||||||18|-4|-9|-4|0.00|0.16|0.00|0.00|TTC8|VUS|0.9970993|||||||AR||LP|7.43531e-06|0.99975|3.97e-06|3.13e-06|0||T|930561|criteria_provided&_multiple_submitters&_no_conflicts|Likely_pathogenic||||||||99.7295||0.951635|9.52000045776367|LP|filter&vkgl&exit_lp,-|frameshift_variant|HIGH|TTC8|123016|Transcript|NM_144596.4|protein_coding|11/15||NM_144596.4:c.915del|NP_653197.2:p.Met305IlefsTer15|972/2183|915/1548|305/515|M/X|atG/at|rs1431207606|1||1||1|EntrezGene||||||||likely_pathogenic&pathogenic||1|19797195&21052717&16308660&30886724&16877420||||||||18|-4|-9|-4|0.00|0.16|0.00|0.00|TTC8|VUS|0.9968413|||||||AR||LP|7.43531e-06|0.99975|3.97e-06|3.13e-06|0||T|930561|criteria_provided&_multiple_submitters&_no_conflicts|Likely_pathogenic||||||||99.7295||0.951635|9.52000045776367|LP|filter&vkgl&exit_lp,-|frameshift_variant|HIGH|TTC8|123016|Transcript|NM_198309.3|protein_coding|11/15||NM_198309.3:c.885del|NP_938051.1:p.Met295IlefsTer15|1081/2300|885/1518|295/505|M/X|atG/at|rs1431207606|1||1|||EntrezGene||||||||likely_pathogenic&pathogenic||1|19797195&21052717&16308660&30886724&16877420||||||||18|-4|-9|-4|0.00|0.16|0.00|0.00|TTC8|VUS|0.98999304|||||||AR||LP|7.43531e-06|0.99975|3.97e-06|3.13e-06|0||T|930561|criteria_provided&_multiple_submitters&_no_conflicts|Likely_pathogenic||||||||99.7295||0.951635|9.52000045776367|LP|filter&vkgl&exit_lp,-|frameshift_variant|HIGH|TTC8|123016|Transcript|NM_198310.3|protein_coding|10/14||NM_198310.3:c.795del|NP_938052.1:p.Met265IlefsTer15|991/2210|795/1428|265/475|M/X|atG/at|rs1431207606|1||1|||EntrezGene||||||||likely_pathogenic&pathogenic||1|19797195&21052717&16308660&30886724&16877420||||||||18|-4|-9|-4|0.00|0.16|0.00|0.00|TTC8|VUS|0.99751306|||||||AR||LP|7.43531e-06|0.99975|3.97e-06|3.13e-06|0||T|930561|criteria_provided&_multiple_submitters&_no_conflicts|Likely_pathogenic||||||||99.7295||0.951635|9.52000045776367|LP|filter&vkgl&exit_lp,-|non_coding_transcript_exon_variant|MODIFIER|TTC8|123016|Transcript|NR_159362.2|misc_RNA|11/15||NR_159362.2:n.1002del||1002/5304|||||rs1431207606|1||1|||EntrezGene||||||||likely_pathogenic&pathogenic||1|19797195&21052717&16308660&30886724&16877420||||||||18|-4|-9|-4|0.00|0.16|0.00|0.00|TTC8|VUS|0.92329025|||||||AR||LP|7.43531e-06|0.99975|3.97e-06|3.13e-06|0||T|930561|criteria_provided&_multiple_submitters&_no_conflicts|Likely_pathogenic||||||||99.7295||0.951635|9.52000045776367|LP|filter&vkgl&exit_lp;VIPC_S=U2	GT:DP:GQ:VID:VIM:VIPC_S:VIPP_S	0|1:50:50:.:.:.:.	1|0:50:50:.:.:.:.	0|0:50:50:.:.:.:.	0|0:50:50:.:.:.:.	0|0:10:50:.:.:.:.	1|0:50:50:1:0:U2,U1,U2,U2,U2,U2,U2,U1,U2:gt&gq&only_IP&vim&exit_u2,gt&gq&only_IP&vim&exit_u1,gt&gq&only_IP&vim&exit_u2,gt&gq&only_IP&vim&exit_u2,gt&gq&only_IP&vim&exit_u2,gt&gq&only_IP&vim&exit_u2,gt&gq&only_IP&vim&exit_u1,gt&gq&only_IP&vim&exit_u2,gt&gq&only_IP&vim&exit_u2
 chr14	104701523	.	T	G	.	PASS	CSQ=G|missense_variant|MODERATE|INF2|64423|Transcript|NM_001031714.4|protein_coding|2/22||NM_001031714.4:c.158T>G|NP_001026884.3:p.Leu53Arg|289/7566|158/3723|53/1240|L/R|cTg/cGg||1||1|||EntrezGene|||||0|0.999||||||||||||102|-28|-2|37|-2|0.00|0.00|0.00|0.00|INF2|VUS|0.9868581|||||||AD||LP|||||||||||||||||0.845|99.6723|0.94655|0.987499|7.84299993515015|LP|filter&vkgl&exit_lp,G|missense_variant|MODERATE|INF2|64423|Transcript|NM_022489.4|protein_coding|2/23||NM_022489.4:c.158T>G|NP_071934.3:p.Leu53Arg|289/7623|158/3750|53/1249|L/R|cTg/cGg||1||1||1|EntrezGene|||||0|0.999||||||||||||102|-28|-2|37|-2|0.00|0.00|0.00|0.00|INF2|VUS|0.97871566|||||||AD||LP|||||||||||||||||0.845|99.6723|0.94655|0.987499|7.84299993515015|LP|filter&vkgl&exit_lp,G|missense_variant|MODERATE|INF2|64423|Transcript|NM_032714.3|protein_coding|2/5||NM_032714.3:c.158T>G|NP_116103.1:p.Leu53Arg|289/1692|158/705|53/234|L/R|cTg/cGg||1||1|||EntrezGene|||||0|0.999||||||||||||102|-28|-2|37|-2|0.00|0.00|0.00|0.00|INF2|VUS|0.9679642|||||||AD||LP|||||||||||||||||0.845|99.6723|0.94655|0.987499|7.84299993515015|LP|filter&vkgl&exit_lp;VIPC_S=U2	GT:DP:GQ:VID:VIM:VIPC_S:VIPP_S	0|0:50:50:.:.:.:.	0|0:50:50:.:.:.:.	0|0:50:50:.:.:.:.	0|0:50:50:.:.:.:.	0|0:10:50:.:.:.:.	1|0:50:50:1:0:U2,U2,U2:gt&gq&only_IP&vim&exit_u2,gt&gq&only_IP&vim&exit_u2,gt&gq&only_IP&vim&exit_u2
 chr17	31229046	.	AC	A	.	PASS	CSQ=-|frameshift_variant|HIGH|NF1|4763|Transcript|NM_000267.3|protein_coding|21/57||NM_000267.3:c.2433del|NP_000258.1:p.Ile812LeufsTer9|2816/12362|2433/8457|811/2818|T/X|acC/ac||1||1|||EntrezGene|||||||1||||||||||||-22|-11|12|25|0.00|0.00|0.00|0.00|NF1|VUS|0.9995521|||||||AD||LP||||||||||||||||||99.8422||0.987342|3.78200006484985|LP|filter&vkgl&exit_lp,-|frameshift_variant|HIGH|NF1|4763|Transcript|NM_001042492.3|protein_coding|21/58||NM_001042492.3:c.2433del|NP_001035957.1:p.Ile812LeufsTer9|2766/12373|2433/8520|811/2839|T/X|acC/ac||1||1||1|EntrezGene|||||||1||||||||||||-22|-11|12|25|0.00|0.00|0.00|0.00|NF1|VUS|0.9997875|||||||AD||LP||||||||||||||||||99.8422||0.987342|3.78200006484985|LP|filter&vkgl&exit_lp;VIPC_S=U2	GT:DP:GQ:VID:VIM:VIPC_S:VIPP_S	0|0:50:50:.:.:.:.	0|0:50:50:.:.:.:.	0|0:50:50:.:.:.:.	0|0:50:50:.:.:.:.	0|0:10:50:.:.:.:.	1|0:9:50:1:0:U2,U2:gt&gq&only_IP&vim&exit_u2,gt&gq&only_IP&vim&exit_u2
 chr17	31336861	.	T	G	.	PASS	CSQ=G|missense_variant|MODERATE|NF1|4763|Transcript|NM_000267.3|protein_coding|41/57||NM_000267.3:c.6311T>G|NP_000258.1:p.Leu2104Arg|6694/12362|6311/8457|2104/2818|L/R|cTg/cGg|rs1597843129&CM141499&CM143458|1||1|||EntrezGene|||||0|0.991||likely_pathogenic|0&1&1|1&1&1|24413922|||||||102|-42|41|-34|8|0.00|0.00|0.00|0.00|NF1|VUS|0.9602681|||||||AD||LP||||||||996527|criteria_provided&_multiple_submitters&_no_conflicts|Likely_pathogenic|||||||0.861|99.6657|0.99296|0.98798|7.49399995803833|LP|filter&vkgl&exit_lp,G|missense_variant|MODERATE|NF1|4763|Transcript|NM_001042492.3|protein_coding|42/58||NM_001042492.3:c.6374T>G|NP_001035957.1:p.Leu2125Arg|6707/12373|6374/8520|2125/2839|L/R|cTg/cGg|rs1597843129&CM141499&CM143458|1||1||1|EntrezGene|||||0|0.993||likely_pathogenic|0&1&1|1&1&1|24413922|||||||102|-42|41|-34|8|0.00|0.00|0.00|0.00|NF1|VUS|0.98705053|||||||AD||LP||||||||996527|criteria_provided&_multiple_submitters&_no_conflicts|Likely_pathogenic|||||||0.861|99.6657|0.99296|0.98798|7.49399995803833|LP|filter&vkgl&exit_lp;VIPC_S=U2	GT:DP:GQ:VID:VIM:VIPC_S:VIPP_S	0|0:50:50:.:.:.:.	0|0:50:50:.:.:.:.	0|0:50:50:.:.:.:.	0|0:50:50:.:.:.:.	0|0:10:50:.:.:.:.	1|0:50:50:1:0:U2,U2:gt&gq&only_IP&vim&exit_u2,gt&gq&only_IP&vim&exit_u2

package/src/store/variants.ts

@@ -1,6 +1,6 @@
 import { VariantType } from "../utils/variantType.ts";
 import { SampleContainer } from "../utils/api.ts";
-import { FilterValueMap } from "../types/filter";
+import { FilterInitedList, FilterValueMap } from "../types/filter";
 import { FilterId, FilterValue } from "../types/configFilter";
 import { produce } from "solid-js/store";
 import { AppState, AppStateVariantType, AppStateVariantTypes, AppStore, Page, Sort } from "../types/store";
@@ -20,6 +20,7 @@ export type VariantStore = {
   getSort(): Sort | null | undefined;
   setSort(sort: Sort): void;
   clearSort(): void;
+  getFiltersInited(): FilterInitedList;
 };
 
 export function wrapStore(store: AppStore, sample: SampleContainer | null, variantType: VariantType) {
@@ -48,7 +49,7 @@ export function wrapStore(store: AppStore, sample: SampleContainer | null, varia
     if (variantTypeKey in stateVariantTypes) {
       stateVariantType = stateVariantTypes[variantTypeKey]!;
     } else {
-      stateVariantType = {};
+      stateVariantType = { initedFilters: [] };
     }
 
     return stateVariantType;
@@ -78,7 +79,7 @@ export function wrapStore(store: AppStore, sample: SampleContainer | null, varia
     if (variantTypeKey in stateVariantTypes) {
       stateVariantType = stateVariantTypes[variantTypeKey]!;
     } else {
-      stateVariantType = {};
+      stateVariantType = { initedFilters: [] };
       stateVariantTypes[variantTypeKey] = stateVariantType;
     }
 
@@ -95,6 +96,18 @@ export function wrapStore(store: AppStore, sample: SampleContainer | null, varia
     return page;
   }
 
+  function setVariantsStateFiltersInited(state: AppState, filterId: string): void {
+    const stateVariantType: AppStateVariantType = getCreateVariantsState(state);
+    if (!stateVariantType.initedFilters.includes(filterId)) {
+      stateVariantType.initedFilters.push(filterId);
+    }
+  }
+
+  function getVariantsStateFiltersInited(state: AppState): FilterInitedList {
+    const stateVariantType: AppStateVariantType = getCreateVariantsState(state);
+    return stateVariantType.initedFilters;
+  }
+
   function getCreateVariantsStateFilterValues(state: AppState): FilterValueMap {
     const stateVariantType: AppStateVariantType = getCreateVariantsState(state);
     let filterValues = stateVariantType.filterValues;
@@ -112,6 +125,7 @@ export function wrapStore(store: AppStore, sample: SampleContainer | null, varia
     setFilterValue(id: FilterId, value: FilterValue) {
       setState(
         produce((state) => {
+          setVariantsStateFiltersInited(state, id);
           const filterValueMap = getCreateVariantsStateFilterValues(state);
           filterValueMap[id] = value;
 
@@ -124,9 +138,9 @@ export function wrapStore(store: AppStore, sample: SampleContainer | null, varia
     clearFilter(id: FilterId) {
       setState(
         produce((state) => {
+          setVariantsStateFiltersInited(state, id);
           const filterValueMap = getCreateVariantsStateFilterValues(state);
           delete filterValueMap[id];
-
           const page = getCreateVariantsStatePage(state);
           page.number = 0;
         }),
@@ -178,5 +192,8 @@ export function wrapStore(store: AppStore, sample: SampleContainer | null, varia
         }),
       );
     },
+    getFiltersInited(): FilterInitedList {
+      return getVariantsStateFiltersInited(state);
+    },
   };
 }

package/src/types/configFilter.d.ts

@@ -37,7 +37,7 @@ export type FilterValueFixed =
 export type FilterValueField = FilterValueCategorical | FilterValueString | FilterValueInterval;
 
 export type FilterValue = FilterValueFixed | FilterValueField | FilterValueComposed;
-export type FilterValueMap = { [key: FilterId]: FilterValue };
+export type FilterValueMap = { [key: FilterId]: FilterValue | undefined };
 
 export type ConfigFilterFixed =
   | ConfigFilterChrom

package/src/types/filter.d.ts

@@ -2,6 +2,8 @@ import { FilterId, FilterValue } from "./configFilter";
 
 export type FilterValueMap = { [key: FilterId]: FilterValue };
 
+export type FilterInitedList = string[];
+
 export interface FilterValueChangeEvent<FilterValueType> {
   value: FilterValueType;
 }

package/src/types/store.d.ts

@@ -1,7 +1,7 @@
 import { SetStoreFunction } from "solid-js/store";
 import { VariantTypeId } from "../utils/variantType.ts";
 import { SortOrder } from "@molgenis/vip-report-api";
-import { FilterValueMap } from "./filter";
+import { FilterInitedList, FilterValueMap } from "./filter";
 
 export type Page = { number: number; size?: number };
 export type Sort = SortOrder | SortOrder[];
@@ -13,6 +13,7 @@ export type AppStateVariantType = {
    * undefined: sort behavior is undefined, the caller of this function could fall back to a default sort
    */
   sort?: Sort | null;
+  initedFilters: FilterInitedList;
 };
 export type AppStateVariantTypes = Partial<Record<VariantTypeId, AppStateVariantType>>;
 type AppStateSamples = {

package/src/utils/config/config.ts

@@ -166,7 +166,7 @@ function initConfigVariantsRecordsPerPage(
   variantType: VariantType,
 ): ConfigRecordsPerPage {
   const configValue = config && (config[variantType.id] || config["all"]);
-  return configValue || [{ number: 10, selected: true }, { number: 20 }, { number: 50 }, { number: 100 }];
+  return configValue || [{ number: 10 }, { number: 20, selected: true }, { number: 50 }, { number: 100 }];
 }
 
 export function getLabel(config: Describable, defaultLabel: string): string {

package/tests/utils/config/config.test.ts

@@ -44,11 +44,10 @@ describe("config", () => {
 
   describe("initConfig", () => {
     const recordsPerPageBase = [
-      {
-        number: 10,
+      { number: 10 },
+      { number: 20,
         selected: true,
       },
-      { number: 20 },
       { number: 50 },
       { number: 100 },
     ];

package/vite.config.mts

@@ -10,12 +10,12 @@ export default defineConfig(({ command }) => ({
     pure: command === "build" ? ["console.log"] : [],
   },
   build: {
-    target: 'es2022',
+    target: "es2022",
     modulePreload: false,
     reportCompressedSize: false,
     // inline plugin build options
     rollupOptions: {
-      input: ["./index.html", "./node_modules/@molgenis/vite-plugin-inline/dist/loader.mjs"],
+      input: ["./index.html", "./node_modules/@molgenis/vite-plugin-inline/dist/loader/loader.js"],
       output: {
         manualChunks: undefined,
       },
@@ -24,12 +24,11 @@ export default defineConfig(({ command }) => ({
   assetsInclude: "**/*.blob",
   test: {
     coverage: {
-      include: ["src/**"],
+      // TODO remove /*.ts postfix once component tests are added
+      include: ["src/**/*.ts"],
       exclude: [...coverageConfigDefaults.exclude, "src/mocks/**", "**/*.precompiled.ts"],
-      // TODO add .tsx once component tests are added
-      extension: [".ts"],
       thresholds: {
-        branches: 80,
+        branches: 70,
         lines: 80,
         functions: 80,
         statements: 80,