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feat(config): add lineageFields for all organisms to both prod and staging #1122

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feat(config): add lineageFields for all organisms to both prod and staging #1122

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37 changes: 37 additions & 0 deletions backend/src/main/resources/application-dashboards-prod.yaml
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -16,6 +16,8 @@ dashboards:
lapis:
url: "https://api.loculus.genspectrum.org/h5n1"
mainDateField: "sampleCollectionDateRangeLower"
lineageFields:
- "clade"
additionalFilters:
versionStatus: "LATEST_VERSION"
isRevocation: "false"
Expand All @@ -28,6 +30,9 @@ dashboards:
lapis:
url: "https://api.loculus.genspectrum.org/h1n1pdm"
mainDateField: "sampleCollectionDateRangeLower"
lineageFields:
- "cladeHA"
- "cladeNA"
additionalFilters:
versionStatus: "LATEST_VERSION"
isRevocation: "false"
Expand All @@ -40,6 +45,9 @@ dashboards:
lapis:
url: "https://api.loculus.genspectrum.org/h3n2"
mainDateField: "sampleCollectionDateRangeLower"
lineageFields:
- "cladeHA"
- "cladeNA"
additionalFilters:
versionStatus: "LATEST_VERSION"
isRevocation: "false"
Expand All @@ -52,6 +60,9 @@ dashboards:
lapis:
url: "https://api.loculus.genspectrum.org/influenza-a"
mainDateField: "sampleCollectionDateRangeLower"
lineageFields:
- "subtypeHA"
- "subtypeNA"
additionalFilters:
versionStatus: "LATEST_VERSION"
isRevocation: "false"
Expand All @@ -64,6 +75,8 @@ dashboards:
lapis:
url: "https://api.loculus.genspectrum.org/influenza-b"
mainDateField: "sampleCollectionDateRangeLower"
lineageFields:
- "lineageHA"
additionalFilters:
versionStatus: "LATEST_VERSION"
isRevocation: "false"
Expand All @@ -76,6 +89,9 @@ dashboards:
lapis:
url: "https://api.loculus.genspectrum.org/b-victoria"
mainDateField: "sampleCollectionDateRangeLower"
lineageFields:
- "cladeHA"
- "cladeNA"
additionalFilters:
versionStatus: "LATEST_VERSION"
isRevocation: "false"
Expand All @@ -88,6 +104,9 @@ dashboards:
lapis:
url: "https://lapis.pathoplexus.org/mpox"
mainDateField: "sampleCollectionDateRangeLower"
lineageFields:
- "lineage"
- "clade"
additionalFilters:
versionStatus: "LATEST_VERSION"
isRevocation: "false"
Expand All @@ -100,6 +119,8 @@ dashboards:
lapis:
url: "https://lapis.pathoplexus.org/west-nile"
mainDateField: "sampleCollectionDateRangeLower"
lineageFields:
- "lineage"
additionalFilters:
versionStatus: "LATEST_VERSION"
isRevocation: "false"
Expand All @@ -112,6 +133,8 @@ dashboards:
lapis:
url: "https://lapis.pathoplexus.org/rsv-a"
mainDateField: "sampleCollectionDateRangeLower"
lineageFields:
- "lineage"
additionalFilters:
versionStatus: "LATEST_VERSION"
isRevocation: "false"
Expand All @@ -124,6 +147,8 @@ dashboards:
lapis:
url: "https://lapis.pathoplexus.org/rsv-b"
mainDateField: "sampleCollectionDateRangeLower"
lineageFields:
- "lineage"
additionalFilters:
versionStatus: "LATEST_VERSION"
isRevocation: "false"
Expand Down Expand Up @@ -160,6 +185,8 @@ dashboards:
lapis:
url: "https://lapis.pathoplexus.org/cchf"
mainDateField: "sampleCollectionDateRangeLower"
lineageFields:
- "lineage_S"
additionalFilters:
versionStatus: "LATEST_VERSION"
isRevocation: "false"
Expand All @@ -172,6 +199,8 @@ dashboards:
lapis:
url: "https://api.loculus.genspectrum.org/denv1"
mainDateField: "sampleCollectionDateRangeLower"
lineageFields:
- "clade"
locationFields:
- "country"
- "division"
Expand All @@ -189,6 +218,8 @@ dashboards:
lapis:
url: "https://api.loculus.genspectrum.org/denv2"
mainDateField: "sampleCollectionDateRangeLower"
lineageFields:
- "clade"
locationFields:
- "country"
- "division"
Expand All @@ -206,6 +237,8 @@ dashboards:
lapis:
url: "https://api.loculus.genspectrum.org/denv3"
mainDateField: "sampleCollectionDateRangeLower"
lineageFields:
- "clade"
locationFields:
- "country"
- "division"
Expand All @@ -223,6 +256,8 @@ dashboards:
lapis:
url: "https://api.loculus.genspectrum.org/denv4"
mainDateField: "sampleCollectionDateRangeLower"
lineageFields:
- "clade"
locationFields:
- "country"
- "division"
Expand All @@ -240,6 +275,8 @@ dashboards:
lapis:
url: "https://lapis.pathoplexus.org/measles"
mainDateField: "sampleCollectionDateRangeLower"
lineageFields:
- "genotype"
additionalFilters:
versionStatus: "LATEST_VERSION"
isRevocation: "false"
Expand Down
40 changes: 40 additions & 0 deletions backend/src/main/resources/application-dashboards-staging.yaml
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -4,6 +4,9 @@ dashboards:
lapis:
url: "https://gs-staging-1.int.genspectrum.org/open/v2"
mainDateField: "date"
lineageFields:
- "pangoLineage"
- "nextcladePangoLineage"
externalNavigationLinks:
- url: "https://cov-spectrum.org"
label: "CoV-Spectrum"
Expand All @@ -13,6 +16,8 @@ dashboards:
lapis:
url: "https://api.loculus.staging.genspectrum.org/h5n1"
mainDateField: "sampleCollectionDateRangeLower"
lineageFields:
- "clade"
additionalFilters:
versionStatus: "LATEST_VERSION"
isRevocation: "false"
Expand All @@ -25,6 +30,9 @@ dashboards:
lapis:
url: "https://api.loculus.staging.genspectrum.org/h1n1pdm"
mainDateField: "sampleCollectionDateRangeLower"
lineageFields:
- "cladeHA"
- "cladeNA"
additionalFilters:
versionStatus: "LATEST_VERSION"
isRevocation: "false"
Expand All @@ -37,6 +45,9 @@ dashboards:
lapis:
url: "https://api.loculus.staging.genspectrum.org/h3n2"
mainDateField: "sampleCollectionDateRangeLower"
lineageFields:
- "cladeHA"
- "cladeNA"
additionalFilters:
versionStatus: "LATEST_VERSION"
isRevocation: "false"
Expand All @@ -49,6 +60,9 @@ dashboards:
lapis:
url: "https://api.loculus.staging.genspectrum.org/influenza-a"
mainDateField: "sampleCollectionDateRangeLower"
lineageFields:
- "subtypeHA"
- "subtypeNA"
additionalFilters:
versionStatus: "LATEST_VERSION"
isRevocation: "false"
Expand All @@ -61,6 +75,8 @@ dashboards:
lapis:
url: "https://api.loculus.staging.genspectrum.org/influenza-b"
mainDateField: "sampleCollectionDateRangeLower"
lineageFields:
- "lineageHA"
additionalFilters:
versionStatus: "LATEST_VERSION"
isRevocation: "false"
Expand All @@ -73,6 +89,9 @@ dashboards:
lapis:
url: "https://api.loculus.staging.genspectrum.org/b-victoria"
mainDateField: "sampleCollectionDateRangeLower"
lineageFields:
- "cladeHA"
- "cladeNA"
locationFields:
- "country"
- "division"
Expand All @@ -90,6 +109,9 @@ dashboards:
lapis:
url: "https://lapis.pathoplexus.org/mpox"
mainDateField: "sampleCollectionDateRangeLower"
lineageFields:
- "lineage"
- "clade"
additionalFilters:
versionStatus: "LATEST_VERSION"
isRevocation: "false"
Expand All @@ -102,6 +124,8 @@ dashboards:
lapis:
url: "https://lapis.pathoplexus.org/west-nile"
mainDateField: "sampleCollectionDateRangeLower"
lineageFields:
- "lineage"
additionalFilters:
versionStatus: "LATEST_VERSION"
isRevocation: "false"
Expand All @@ -114,6 +138,8 @@ dashboards:
lapis:
url: "https://lapis.pathoplexus.org/rsv-a"
mainDateField: "sampleCollectionDateRangeLower"
lineageFields:
- "lineage"
additionalFilters:
versionStatus: "LATEST_VERSION"
isRevocation: "false"
Expand All @@ -126,6 +152,8 @@ dashboards:
lapis:
url: "https://lapis.pathoplexus.org/rsv-b"
mainDateField: "sampleCollectionDateRangeLower"
lineageFields:
- "lineage"
additionalFilters:
versionStatus: "LATEST_VERSION"
isRevocation: "false"
Expand Down Expand Up @@ -162,6 +190,8 @@ dashboards:
lapis:
url: "https://lapis.pathoplexus.org/cchf"
mainDateField: "sampleCollectionDateRangeLower"
lineageFields:
- "lineage_S"
additionalFilters:
versionStatus: "LATEST_VERSION"
isRevocation: "false"
Expand All @@ -174,6 +204,8 @@ dashboards:
lapis:
url: "https://api.loculus.staging.genspectrum.org/denv1"
mainDateField: "sampleCollectionDateRangeLower"
lineageFields:
- "clade"
locationFields:
- "country"
- "division"
Expand All @@ -191,6 +223,8 @@ dashboards:
lapis:
url: "https://api.loculus.staging.genspectrum.org/denv2"
mainDateField: "sampleCollectionDateRangeLower"
lineageFields:
- "clade"
locationFields:
- "country"
- "division"
Expand All @@ -208,6 +242,8 @@ dashboards:
lapis:
url: "https://api.loculus.staging.genspectrum.org/denv3"
mainDateField: "sampleCollectionDateRangeLower"
lineageFields:
- "clade"
locationFields:
- "country"
- "division"
Expand All @@ -225,6 +261,8 @@ dashboards:
lapis:
url: "https://api.loculus.staging.genspectrum.org/denv4"
mainDateField: "sampleCollectionDateRangeLower"
lineageFields:
- "clade"
locationFields:
- "country"
- "division"
Expand All @@ -242,6 +280,8 @@ dashboards:
lapis:
url: "https://lapis.pathoplexus.org/measles"
mainDateField: "sampleCollectionDateRangeLower"
lineageFields:
- "genotype"
additionalFilters:
versionStatus: "LATEST_VERSION"
isRevocation: "false"
Expand Down
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