@rcsb/rcsb-saguaro-app 6.3.0 → 6.3.2-dev-js-seqcoord.13

package/lib/RcsbQueries/Borrego/QueryGroupAlignments.graphql

@@ -1,42 +1,37 @@
-query QueryGroupAlignment($group: GroupReference!, $groupId: String!, $filter: [String], $first: Int!, $after: String){
-    group_alignment(
+query QueryGroupAlignment(
+    $group: GroupReference!,
+    $groupId: String!,
+    $filter: [String!],
+    $first: Int,
+    $after: Int
+){
+    group_alignments(
         group: $group
         groupId: $groupId
         filter: $filter
     ){
         alignment_length
-        alignment_logo{
+        alignment_logo {
             symbol
             value
         }
         query_sequence
-        target_alignment_subset(first: $first, after: $after) {
-            pageInfo{
-                startCursor
-                endCursor
-                hasNextPage
-                hasPreviousPage
+        target_alignments(first: $first, offset: $after) {
+            target_id
+            orientation
+            target_sequence
+            coverage {
+                query_coverage
+                query_length
+                target_coverage
+                target_length
             }
-            edges{
-                node{
-                    target_id
-                    orientation
-                    target_sequence
-                    coverage {
-                        query_coverage
-                        query_length
-                        target_coverage
-                        target_length
-                    }
-                    aligned_regions {
-                        query_begin
-                        query_end
-                        target_begin
-                        target_end
-                        exon_shift
-                    }
-                }
-                cursor
+            aligned_regions {
+                query_begin
+                query_end
+                target_begin
+                target_end
+                exon_shift
             }
         }
     }

package/lib/RcsbQueries/Borrego/QueryGroupAlignmentsNoLogo.graphql

@@ -1,38 +1,32 @@
-query QueryGroupAlignmentNoLogo($group: GroupReference!, $groupId: String!, $filter: [String], $first: Int!, $after: String){
-    group_alignment(
+query QueryGroupAlignmentNoLogo(
+    $group: GroupReference!,
+    $groupId: String!,
+    $filter: [String!],
+    $first: Int!,
+    $after: Int!){
+    group_alignments(
         group: $group
         groupId: $groupId
         filter: $filter
     ){
         alignment_length
         query_sequence
-        target_alignment_subset(first: $first, after: $after) {
-            pageInfo{
-                startCursor
-                endCursor
-                hasNextPage
-                hasPreviousPage
+        target_alignments(first: $first, offset: $after) {
+            target_id
+            orientation
+            target_sequence
+            coverage {
+                query_coverage
+                query_length
+                target_coverage
+                target_length
             }
-            edges{
-                node{
-                    target_id
-                    orientation
-                    target_sequence
-                    coverage {
-                        query_coverage
-                        query_length
-                        target_coverage
-                        target_length
-                    }
-                    aligned_regions {
-                        query_begin
-                        query_end
-                        target_begin
-                        target_end
-                        exon_shift
-                    }
-                }
-                cursor
+            aligned_regions {
+                query_begin
+                query_end
+                target_begin
+                target_end
+                exon_shift
             }
         }
     }

package/lib/RcsbQueries/Borrego/QueryGroupAnnotations.graphql

@@ -1,10 +1,14 @@
-query QueryGroupAnnotations($group: GroupReference!, $groupId: String!, $sources:[Source], $filters: [FilterInput], $histogram:Boolean){
+query QueryGroupAnnotations(
+    $group: GroupReference!,
+    $groupId: String!,
+    $sources: [AnnotationReference!]!,
+    $filters: [AnnotationFilterInput!]
+){
     group_annotations(
         group:$group
         groupId:$groupId
         sources:$sources
         filters:$filters
-        histogram:$histogram
     ){
         source
         target_id

package/lib/RcsbQueries/Borrego/QueryGroupAnnotationsSummary.graphql

@@ -0,0 +1,35 @@
+query QueryGroupAnnotationsSummary(
+    $group: GroupReference!,
+    $groupId: String!,
+    $sources: [AnnotationReference!]!,
+    $filters: [AnnotationFilterInput!]
+){
+    group_annotations_summary(
+        group:$group
+        groupId:$groupId
+        sources:$sources
+        filters:$filters
+    ){
+        source
+        target_id
+        features {
+            type
+            provenance_source
+            description
+            feature_id
+            name
+            value
+            feature_positions {
+                beg_seq_id
+                end_seq_id
+                beg_ori_id
+                end_ori_id
+                range_id
+                open_begin
+                open_end
+                value
+                values
+            }
+        }
+    }
+}

package/lib/RcsbQueries/Borrego/graphql.config.yml

@@ -0,0 +1,8 @@
+schema: schema.graphql
+extensions:
+  endpoints:
+    Default GraphQL Endpoint:
+      url: https://sequence-coordinates.rcsb.org/graphql
+      headers:
+        user-agent: JS GraphQL
+      introspect: false