:typo: Rename fields due to data change for specimens

kids-first · Oct 25, 2023 · b1c883d · b1c883d
1 parent 4ae8cde
commit b1c883d
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Showing 5 changed files with 15 additions and 15 deletions.
diff --git a/src/graphql/biospecimens/models.ts b/src/graphql/biospecimens/models.ts
@@ -35,13 +35,13 @@ export interface IBiospecimenEntity {
   files: ArrangerResultsTree<IFileEntity>;
   nb_files: number;
   participant: IParticipantEntity;
-  ncit_anatomy_site_id: string;
-  anatomy_site: string;
+  collection_ncit_anatomy_site_id: string;
+  collection_anatomy_site: string;
   ncit_id_tissue_type: string;
   tissue_type_source_text: string;
   source_text_tumor_location: string;
   dbgap_consent_code: string;
   consent_type: string;
-  method_of_sample_procurement: string;
+  collection_method_of_sample_procurement: string;
   external_sample_id: string;
 }
diff --git a/src/graphql/biospecimens/queries.ts b/src/graphql/biospecimens/queries.ts
@@ -20,8 +20,8 @@ export const SEARCH_BIOSPECIMEN_QUERY = gql`
             sample_type
             parent_sample_type
             age_at_biospecimen_collection
-            ncit_anatomy_site_id
-            anatomy_site
+            collection_ncit_anatomy_site_id
+            collection_anatomy_site
             ncit_id_tissue_type
             tissue_type_source_text
             consent_type
@@ -31,7 +31,7 @@ export const SEARCH_BIOSPECIMEN_QUERY = gql`
             collection_sample_type
             status
             dbgap_consent_code
-            method_of_sample_procurement
+            collection_method_of_sample_procurement
             volume
             volume_unit
             external_sample_id
@@ -79,8 +79,8 @@ export const GET_PARTICIPANT_BIOSPECIMENS = gql`
             sample_type
             parent_sample_type
             age_at_biospecimen_collection
-            ncit_anatomy_site_id
-            anatomy_site
+            collection_ncit_anatomy_site_id
+            collection_anatomy_site
             ncit_id_tissue_type
             tissue_type_source_text
             consent_type

diff --git a/src/graphql/participants/queries.ts b/src/graphql/participants/queries.ts
@@ -159,7 +159,7 @@ export const GET_PARTICIPANT_ENTITY = gql`
                         edges {
                           node {
                             age_at_biospecimen_collection
-                            anatomy_site
+                            collection_anatomy_site
                             biospecimen_storage
                             collection_sample_id
                             collection_sample_type
@@ -168,8 +168,8 @@ export const GET_PARTICIPANT_ENTITY = gql`
                             dbgap_consent_code
                             fhir_id
                             laboratory_procedure
-                            ncit_anatomy_site_id
-                            ncit_id_tissue_type
+                            collection_ncit_anatomy_site_id
+                            # TODO ncit_id_tissue_type
                             parent_sample_id
                             parent_sample_type
                             sample_id

diff --git a/src/locales/en.ts b/src/locales/en.ts
@@ -1191,8 +1191,8 @@ const en = {
     status: 'Sample Availability',
     age_at_biospecimen_collection: 'Age at Biospec. Collection (days)',
     bio_repository: 'Biorepository',
-    ncit_anatomy_site_id: 'Anatomical Site (NCIT)',
-    anatomy_site: 'Anatomical Site (Source Text)',
+    collection_ncit_anatomy_site_id: 'Collection Anatomical Site (NCIT)',
+    collection_anatomy_site: 'Collection Anatomical Site (Source Text)',
     dbgap_consent_code: 'dbGaP Consent Code',
     diagnosis_mondo: 'Histological Diagnosis (MONDO)',
     diagnosis_ncit: 'Histological Diagnosis (NCIT)',

diff --git a/src/utils/translation.ts b/src/utils/translation.ts
@@ -304,8 +304,8 @@ export const getFacetsDictionary = () => ({
   family_type: 'Family Composition',
   age_at_biospecimen_collection: 'Age at Biospec. Collection (days)',
   status: 'Sample Availability',
-  ncit_anatomy_site_id: 'Anatomical Site (NCIT)',
-  anatomy_site: 'Anatomical Site (Source Text)',
+  collection_ncit_anatomy_site_id: 'Collection Anatomical Site (NCIT)',
+  collection_anatomy_site: 'Collection Anatomical Site (Source Text)',
   dbgap_consent_code: 'dbGaP Consent Code',
   diagnosis_mondo: 'Histological Diagnosis (MONDO)',
   diagnosis_ncit: 'Histological Diagnosis (NCIT)',