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Change top level genes/fusions/factors resolver to add configurable status filter #1145

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merged 6 commits into from
Oct 30, 2024
Merged

Change top level genes/fusions/factors resolver to add configurable status filter #1145

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e9f3ccc
Change top level genes/fusions/factors resolver to add configurable s…
susannasiebert Oct 29, 2024
888d44b
Merge remote-tracking branch 'origin/main' into civicpy
susannasiebert Oct 29, 2024
0c618b7
Update associated_evidence_status_filter_type.rb enum descriptions
susannasiebert Oct 29, 2024
deee4b7
Fix filter descriptions
susannasiebert Oct 29, 2024
f43ca85
Fix scoping
susannasiebert Oct 29, 2024
7286038
Update schemas
susannasiebert Oct 29, 2024
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8 changes: 4 additions & 4 deletions ...omponents/molecular-profiles/molecular-profiles-menu/molecular-profiles-menu.component.ts
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Original file line number Diff line number Diff line change
Expand Up @@ -7,7 +7,7 @@ import {
MolecularProfileConnection,
MolecularProfileMenuQueryVariables,
MolecularProfileMenuGQL,
MolecularProfileDisplayFilter,
AssociatedEvidenceStatusFilter,
} from '@app/generated/civic.apollo'
import { map, debounceTime, filter, startWith } from 'rxjs/operators'
import { Observable, Subject } from 'rxjs'
Expand All @@ -32,8 +32,8 @@ export class CvcMolecularProfilesMenuComponent implements OnInit {
loading$?: Observable<boolean>;

mpNameFilter: Maybe<string>
statusFilter: MolecularProfileDisplayFilter =
MolecularProfileDisplayFilter.All
statusFilter: AssociatedEvidenceStatusFilter =
AssociatedEvidenceStatusFilter.All

private debouncedQuery = new Subject<void>()
private result$!: Observable<ApolloQueryResult<MolecularProfileMenuQuery>>
Expand Down Expand Up @@ -91,7 +91,7 @@ export class CvcMolecularProfilesMenuComponent implements OnInit {
this.debouncedQuery.next()
}

onMolecularProfileStatusFilterChanged(filter: MolecularProfileDisplayFilter) {
onMolecularProfileStatusFilterChanged(filter: AssociatedEvidenceStatusFilter) {
this.queryRef$.refetch({
first: this.pageSize,
evidenceStatusFilter: filter
Expand Down
2 changes: 1 addition & 1 deletion ...src/app/components/molecular-profiles/molecular-profiles-menu/molecular-profiles-menu.gql
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Expand Up @@ -6,7 +6,7 @@ query MolecularProfileMenu(
$last: Int
$before: String
$after: String
$evidenceStatusFilter: MolecularProfileDisplayFilter
$evidenceStatusFilter: AssociatedEvidenceStatusFilter
) {
molecularProfiles(
geneId: $geneId
Expand Down
33 changes: 17 additions & 16 deletions client/src/app/generated/civic.apollo.ts
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Expand Up @@ -490,6 +490,17 @@ export enum AssertionType {
Prognostic = 'PROGNOSTIC'
}

export enum AssociatedEvidenceStatusFilter {
/** Display all molecular profiles regardless of attached evidence status. */
All = 'ALL',
/** Display only molecular profiles which have at least one accepted evidence item. */
WithAccepted = 'WITH_ACCEPTED',
/** Display only molecular profiles which have evidence in either an accepted or submitted state. */
WithAcceptedOrSubmitted = 'WITH_ACCEPTED_OR_SUBMITTED',
/** Display molecular profiles which have at least one submitted evidence item. */
WithSubmitted = 'WITH_SUBMITTED'
}

export enum BooleanOperator {
And = 'AND',
Or = 'OR'
Expand Down Expand Up @@ -3965,17 +3976,6 @@ export enum MolecularProfileDeprecationReasonMutationInput {
Other = 'OTHER'
}

export enum MolecularProfileDisplayFilter {
/** Display all molecular profiles regardless of attached evidence status. */
All = 'ALL',
/** Display only molecular profiles which have at least one accepted evidence item. */
WithAccepted = 'WITH_ACCEPTED',
/** Display only molecular profiles which have evidence in either an accepted or submitted state. */
WithAcceptedOrSubmitted = 'WITH_ACCEPTED_OR_SUBMITTED',
/** Display molecular profiles which have at least one submitted evidence item. */
WithSubmitted = 'WITH_SUBMITTED'
}

/** An edge in a connection. */
export type MolecularProfileEdge = {
__typename: 'MolecularProfileEdge';
Expand Down Expand Up @@ -5280,6 +5280,7 @@ export type QueryFactorArgs = {
export type QueryFactorsArgs = {
after?: InputMaybe<Scalars['String']['input']>;
before?: InputMaybe<Scalars['String']['input']>;
evidenceStatusFilter?: InputMaybe<AssociatedEvidenceStatusFilter>;
first?: InputMaybe<Scalars['Int']['input']>;
last?: InputMaybe<Scalars['Int']['input']>;
name?: InputMaybe<Array<Scalars['String']['input']>>;
Expand Down Expand Up @@ -5324,8 +5325,7 @@ export type QueryFusionArgs = {
export type QueryFusionsArgs = {
after?: InputMaybe<Scalars['String']['input']>;
before?: InputMaybe<Scalars['String']['input']>;
entrezIds?: InputMaybe<Array<Scalars['Int']['input']>>;
entrezSymbols?: InputMaybe<Array<Scalars['String']['input']>>;
evidenceStatusFilter?: InputMaybe<AssociatedEvidenceStatusFilter>;
first?: InputMaybe<Scalars['Int']['input']>;
genePartnerId?: InputMaybe<Scalars['Int']['input']>;
last?: InputMaybe<Scalars['Int']['input']>;
Expand All @@ -5343,6 +5343,7 @@ export type QueryGenesArgs = {
before?: InputMaybe<Scalars['String']['input']>;
entrezIds?: InputMaybe<Array<Scalars['Int']['input']>>;
entrezSymbols?: InputMaybe<Array<Scalars['String']['input']>>;
evidenceStatusFilter?: InputMaybe<AssociatedEvidenceStatusFilter>;
first?: InputMaybe<Scalars['Int']['input']>;
last?: InputMaybe<Scalars['Int']['input']>;
};
Expand All @@ -5357,7 +5358,7 @@ export type QueryMolecularProfilesArgs = {
after?: InputMaybe<Scalars['String']['input']>;
alleleRegistryId?: InputMaybe<Scalars['String']['input']>;
before?: InputMaybe<Scalars['String']['input']>;
evidenceStatusFilter?: InputMaybe<MolecularProfileDisplayFilter>;
evidenceStatusFilter?: InputMaybe<AssociatedEvidenceStatusFilter>;
featureId?: InputMaybe<Scalars['Int']['input']>;
first?: InputMaybe<Scalars['Int']['input']>;
geneId?: InputMaybe<Scalars['Int']['input']>;
Expand Down Expand Up @@ -8273,7 +8274,7 @@ export type MolecularProfileMenuQueryVariables = Exact<{
last?: InputMaybe<Scalars['Int']['input']>;
before?: InputMaybe<Scalars['String']['input']>;
after?: InputMaybe<Scalars['String']['input']>;
evidenceStatusFilter?: InputMaybe<MolecularProfileDisplayFilter>;
evidenceStatusFilter?: InputMaybe<AssociatedEvidenceStatusFilter>;
}>;


Expand Down Expand Up @@ -14397,7 +14398,7 @@ export const BrowseMolecularProfilesDocument = gql`
}
}
export const MolecularProfileMenuDocument = gql`
query MolecularProfileMenu($geneId: Int, $featureId: Int, $mpName: String, $first: Int, $last: Int, $before: String, $after: String, $evidenceStatusFilter: MolecularProfileDisplayFilter) {
query MolecularProfileMenu($geneId: Int, $featureId: Int, $mpName: String, $first: Int, $last: Int, $before: String, $after: String, $evidenceStatusFilter: AssociatedEvidenceStatusFilter) {
molecularProfiles(
geneId: $geneId
featureId: $featureId
Expand Down
65 changes: 35 additions & 30 deletions client/src/app/generated/server.model.graphql
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Expand Up @@ -796,6 +796,28 @@ enum AssertionType {
PROGNOSTIC
}

enum AssociatedEvidenceStatusFilter {
"""
Display all molecular profiles regardless of attached evidence status.
"""
ALL

"""
Display only molecular profiles which have at least one accepted evidence item.
"""
WITH_ACCEPTED

"""
Display only molecular profiles which have evidence in either an accepted or submitted state.
"""
WITH_ACCEPTED_OR_SUBMITTED

"""
Display molecular profiles which have at least one submitted evidence item.
"""
WITH_SUBMITTED
}

enum BooleanOperator {
AND
OR
Expand Down Expand Up @@ -6978,28 +7000,6 @@ enum MolecularProfileDeprecationReasonMutationInput {
OTHER
}

enum MolecularProfileDisplayFilter {
"""
Display all molecular profiles regardless of attached evidence status.
"""
ALL

"""
Display only molecular profiles which have at least one accepted evidence item.
"""
WITH_ACCEPTED

"""
Display only molecular profiles which have evidence in either an accepted or submitted state.
"""
WITH_ACCEPTED_OR_SUBMITTED

"""
Display molecular profiles which have at least one submitted evidence item.
"""
WITH_SUBMITTED
}

"""
An edge in a connection.
"""
Expand Down Expand Up @@ -8946,6 +8946,11 @@ type Query {
"""
before: String

"""
Limit genes by the status of attached evidence.
"""
evidenceStatusFilter: AssociatedEvidenceStatusFilter

"""
Returns the first _n_ elements from the list.
"""
Expand Down Expand Up @@ -9048,14 +9053,9 @@ type Query {
before: String

"""
List of Entrez Gene IDs to return results for
Limit genes by the status of attached evidence.
"""
entrezIds: [Int!]

"""
List of Entrez Gene symbols to return results for
"""
entrezSymbols: [String!]
evidenceStatusFilter: AssociatedEvidenceStatusFilter

"""
Returns the first _n_ elements from the list.
Expand Down Expand Up @@ -9102,6 +9102,11 @@ type Query {
"""
entrezSymbols: [String!]

"""
Limit genes by the status of attached evidence.
"""
evidenceStatusFilter: AssociatedEvidenceStatusFilter

"""
Returns the first _n_ elements from the list.
"""
Expand Down Expand Up @@ -9140,7 +9145,7 @@ type Query {
"""
Limit molecular profiles by the status of attached evidence.
"""
evidenceStatusFilter: MolecularProfileDisplayFilter
evidenceStatusFilter: AssociatedEvidenceStatusFilter

"""
Filter molecular profiles to the CIViC ID of the feature(s) involved.
Expand Down
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