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[Platform]: evidence schema change #538

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merged 3 commits into from
Nov 23, 2024
Merged

[Platform]: evidence schema change #538

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e221412
fix: schema change
chinmehta Nov 15, 2024
f94f1df
Merge branch 'main' of github.com:opentargets/ot-ui-apps into cm-evid…
carcruz Nov 22, 2024
c2b7b20
fix: update queries
carcruz Nov 23, 2024
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7 changes: 4 additions & 3 deletions packages/sections/src/evidence/EVA/Body.jsx
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Original file line number Diff line number Diff line change
Expand Up @@ -41,7 +41,7 @@ const exportColumns = [
},
{
label: "variantId",
exportValue: row => row.variantId,
exportValue: row => row.variant.id,
},
{
label: "variantRsId",
Expand Down Expand Up @@ -110,7 +110,7 @@ function getColumns(label) {
{
id: "variantId",
label: "Variant",
renderCell: ({ variantId }) =>
renderCell: ({ variant: { id: variantId } }) =>
// trim long IDs and append '...'
variantId ? (
<>
Expand Down Expand Up @@ -139,7 +139,8 @@ function getColumns(label) {
{
id: "variantHgvsId",
label: "HGVS ID",
renderCell: ({ variantHgvsId }) => variantHgvsId || naLabel,
renderCell: ({ variant }) => variant.hgvsId || naLabel,
filterValue: ({ variant }) => `${variant.hgvsId}`,
},
{
id: "studyId",
Expand Down
6 changes: 4 additions & 2 deletions packages/sections/src/evidence/EVA/ClinvarQuery.gql
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Expand Up @@ -19,12 +19,14 @@ query ClinvarQuery($ensemblId: String!, $efoId: String!, $size: Int!, $cursor: S
id
name
}
variant {
id
hgvsId
}
variantEffect
directionOnTrait
diseaseFromSource
variantId
variantRsId
variantHgvsId
studyId
variantFunctionalConsequence {
id
Expand Down
8 changes: 4 additions & 4 deletions packages/sections/src/evidence/EVASomatic/Body.jsx
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Original file line number Diff line number Diff line change
Expand Up @@ -66,7 +66,7 @@ const getColumns = label => [
{
id: "variantId",
label: "Variant",
renderCell: ({ variantId }) =>
renderCell: ({ variant: { id: variantId } }) =>
variantId ? (
<>
{variantId.substring(0, 20)}
Expand All @@ -75,7 +75,7 @@ const getColumns = label => [
) : (
naLabel
),
filterValue: ({ variantId }) => `${variantId}`,
filterValue: ({ variant: { id: variantId } }) => `${variantId}`,
},
{
id: "variantRsId",
Expand All @@ -96,8 +96,8 @@ const getColumns = label => [
{
id: "variantHgvsId",
label: "HGVS ID",
renderCell: ({ variantHgvsId }) => variantHgvsId || naLabel,
filterValue: ({ variantHgvsId }) => `${variantHgvsId}`,
renderCell: ({ variant }) => variant.hgvsId || naLabel,
filterValue: ({ variant }) => `${variant.hgvsId}`,
},
{
id: "studyId",
Expand Down
8 changes: 6 additions & 2 deletions packages/sections/src/evidence/EVASomatic/EvaSomaticQuery.gql
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Original file line number Diff line number Diff line change
Expand Up @@ -15,12 +15,16 @@ query EvaSomaticQuery($ensemblId: String!, $efoId: String!, $size: Int!, $cursor
id
name
}
variant {
hgvsId
}
variantEffect
directionOnTrait
diseaseFromSource
variantId
variant {
id
}
variantRsId
variantHgvsId
studyId
clinicalSignificances
allelicRequirements
Expand Down
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