fix: Nginx response 500 fro tracks reqeusts

src/api/annonars/index.ts

@@ -1,2 +1,2 @@
-export * from './types'
 export * from './client'
+export * from './types'

src/components/GeneConditionsCard/GeneConditionsCard.vue

@@ -512,7 +512,9 @@ const conditionsCols = computed<number>(() => {
                           {{ item.raw.panel!.name }}
                           <small> (v{{ item.raw.panel!.version }}) </small>
                           <a
-                            :href="`https://panelapp.genomicsengland.co.uk/panels/${item.raw.panel!.id}`"
+                            :href="`https://panelapp.genomicsengland.co.uk/panels/${
+                              item.raw.panel!.id
+                            }`"
                             target="_blank"
                             class="ml-2"
                           >

src/components/GenomeBrowserCard/constants.ts

@@ -9,7 +9,7 @@ const hescTadTrack = (apiBaseUrl: string): Track => ({
   sourceType: 'annotation',
   format: 'bed',
   visibilityWindow,
-  url: `${apiBaseUrl}grch37/hesc.bed`,
+  url: `${apiBaseUrl}/grch37/hesc.bed`,
   color: 'gray'
 })
 
@@ -18,7 +18,7 @@ const curatedMmsTrack = (apiBaseUrl: string): Track => ({
   sourceType: 'annotation',
   format: 'bed',
   visibilityWindow,
-  url: `${apiBaseUrl}grch37/patho-mms.bed`,
+  url: `${apiBaseUrl}/grch37/patho-mms.bed`,
   color: 'red'
 })
 
@@ -27,8 +27,8 @@ const duplicationTrack = (apiBaseUrl: string): Track => ({
   sourceType: 'annotation',
   format: 'bed',
   visibilityWindow,
-  url: `${apiBaseUrl}grch37/genomicSuperDups.bed.gz`,
-  indexURL: `${apiBaseUrl}grch37/genomicSuperDups.bed.gz.tbi`,
+  url: `${apiBaseUrl}/grch37/genomicSuperDups.bed.gz`,
+  indexURL: `${apiBaseUrl}/grch37/genomicSuperDups.bed.gz.tbi`,
   color: 'black'
 })
 
@@ -37,8 +37,8 @@ const repeatsTrack = (apiBaseUrl: string): Track => ({
   sourceType: 'annotation',
   format: 'bed',
   visibilityWindow,
-  url: `${apiBaseUrl}grch37/rmsk.bed.gz`,
-  indexURL: `${apiBaseUrl}grch37/rmsk.bed.gz.tbi`,
+  url: `${apiBaseUrl}/grch37/rmsk.bed.gz`,
+  indexURL: `${apiBaseUrl}/grch37/rmsk.bed.gz.tbi`,
   color: 'black'
 })
 
@@ -47,8 +47,8 @@ const altTrack = (apiBaseUrl: string): Track => ({
   sourceType: 'annotation',
   format: 'bed',
   visibilityWindow,
-  url: `${apiBaseUrl}grch37/altSeqLiftOverPsl.bed.gz`,
-  indexURL: `${apiBaseUrl}grch37/altSeqLiftOverPsl.bed.gz.tbi`,
+  url: `${apiBaseUrl}/grch37/altSeqLiftOverPsl.bed.gz`,
+  indexURL: `${apiBaseUrl}/grch37/altSeqLiftOverPsl.bed.gz.tbi`,
   color: 'black'
 })
 
@@ -57,8 +57,8 @@ const fixTrack = (apiBaseUrl: string): Track => ({
   sourceType: 'annotation',
   format: 'bed',
   visibilityWindow,
-  url: `${apiBaseUrl}grch37/fixSeqLiftOverPsl.bed.gz`,
-  indexURL: `${apiBaseUrl}grch37/fixSeqLiftOverPsl.bed.gz.tbi`,
+  url: `${apiBaseUrl}/grch37/fixSeqLiftOverPsl.bed.gz`,
+  indexURL: `${apiBaseUrl}/grch37/fixSeqLiftOverPsl.bed.gz.tbi`,
   color: 'black'
 })
 
@@ -87,8 +87,8 @@ const bgDbTracks = (apiBaseUrl: string): Track[] => {
       format: 'bed',
       visibilityWindow,
       displayMode: 'SQUISHED',
-      url: `${apiBaseUrl}grch37/${token}.bed.gz`,
-      indexURL: `${apiBaseUrl}grch37/${token}.bed.gz.tbi`,
+      url: `${apiBaseUrl}/grch37/${token}.bed.gz`,
+      indexURL: `${apiBaseUrl}/grch37/${token}.bed.gz.tbi`,
       color: 'black'
     }
   })

src/components/StrucvarToolsCard/StrucvarToolsCard.vue

@@ -81,7 +81,9 @@ const varsomeLinkout = computed((): string => {
   const chrom = props.strucvar.chrom.startsWith('chr')
     ? props.strucvar.chrom
     : `chr${props.strucvar.chrom}`
-  return `https://varsome.com/cnv/${urlRelease}/${chrom}:${props.strucvar.start}:${svStop(props.strucvar)}:${props.strucvar.svType}`
+  return `https://varsome.com/cnv/${urlRelease}/${chrom}:${props.strucvar.start}:${svStop(
+    props.strucvar
+  )}:${props.strucvar.svType}`
 })
 
 const franklinLinkout = computed((): string => {
@@ -90,7 +92,9 @@ const franklinLinkout = computed((): string => {
   }
   const { chrom, start, svType } = props.strucvar
   const urlRelease = props.strucvar?.genomeBuild === 'grch37' ? 'hg19' : 'hg38'
-  return `https://franklin.genoox.com/clinical-db/variant/sv/chr${chrom}-${start}-${svStop(props.strucvar)}-${svType}-${urlRelease}`
+  return `https://franklin.genoox.com/clinical-db/variant/sv/chr${chrom}-${start}-${svStop(
+    props.strucvar
+  )}-${svType}-${urlRelease}`
 })
 
 const jumpToLocus = async () => {
@@ -99,7 +103,9 @@ const jumpToLocus = async () => {
     : `chr${props.strucvar?.chrom}`
   // NB: we allow the call to fetch here as it goes to local IGV.
   await fetch(
-    `http://127.0.0.1:60151/goto?locus=${chrPrefixed}:${props.strucvar?.start}-${svStop(props.strucvar!)}`
+    `http://127.0.0.1:60151/goto?locus=${chrPrefixed}:${props.strucvar?.start}-${svStop(
+      props.strucvar!
+    )}`
   ).catch((e) => {
     const msg = "Couldn't connect to IGV. Please make sure IGV is running and try again."
     emit('error', msg)

src/lib/urlConfig.ts

@@ -42,7 +42,7 @@ export const setupUrlConfigForTesting = () => {
   urlConfig.baseUrlViguno = '/internal/proxy/viguno'
   urlConfig.baseUrlCadaPrio = '/internal/proxy/cada-prio'
   urlConfig.baseUrlDotty = '/internal/proxy/dotty'
-  urlConfig.baseUrlNginx = '/remote/variantvalidator'
+  urlConfig.baseUrlNginx = '/internal/proxy/nginx'
   urlConfig.baseUrlVariantValidator = '/remote/variantvalidator'
   urlConfig.baseUrlPubtator = '/remote/pubtator3-api'
 }