Dev -> Main (#551)

* feat: store score components in DB (#518)

* fix: update JAX-CKB URL (#521)

* feat: jax-ckb -> ckb-core (#522)

* fix: chembl version (#524)

* feat: define rake task to generate TSVs (#523)

* fix: remove redundant field (#527)

* build: remove some unused rails boilerplate/imports (#528)

* fix: use declared data version value (#525)

* fix: remove redundant code (#529)

* cicd: update actions revs (#530)

* feat: log graphql requests (#526)

* feat: log API client (#531)

* chore: remove unused readme (#532)

* fix: use docm snapshot data (#533)

* fix: update api uri (#538)

* cicd: add DB check script (#543)

* chore: fix a couple of typos/omissions (#541)

* fix: use latest GO api changes (#542)

* add rows for Download table for 2024 tsvs (#549)

* new row for old Downloads file

* added one more row

---------

Co-authored-by: Cannon <[email protected]>

---------

Co-authored-by: James Stevenson <[email protected]>
Co-authored-by: Cannon <[email protected]>

.github/workflows/build_client.yml

@@ -12,12 +12,12 @@ jobs:
     runs-on: ubuntu-latest
     steps:
       - name: Checkout Code
-        uses: actions/checkout@v3
+        uses: actions/checkout@v4
         with:
           ref: ${{ inputs.branch }}
 
       - name: Setup node
-        uses: actions/setup-node@v3
+        uses: actions/setup-node@v4
         with:
           node-version: 18
 

.github/workflows/deploy.yml

@@ -32,7 +32,7 @@ jobs:
       - name: Adding Known Hosts
         run: ssh-keyscan -H ${{ secrets.SSH_HOST }}
 
-      - uses: actions/checkout@v2
+      - uses: actions/checkout@v4
       - name: Set up Ruby
         uses: ruby/setup-ruby@v1
         with:

.github/workflows/test_client.yaml

@@ -12,7 +12,7 @@ jobs:
       run:
         working-directory: ./client
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
       - name: install dependencies
         run: yarn install
       - name: build
@@ -26,9 +26,9 @@ jobs:
       run:
         working-directory: ./client
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
       - name: Install Node
-        uses: actions/setup-node@v3
+        uses: actions/setup-node@v4
       - name: Install dependencies
         run: yarn --prefer-offline
       - name: Prettier check

.github/workflows/test_server.yaml

@@ -20,7 +20,7 @@ jobs:
           - 5432:5432
 
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
 
       - name: 'Set up Ruby'
         uses: ruby/setup-ruby@v1

README.md

@@ -196,7 +196,7 @@ rake dgidb:group:interactions
 Finally, normalize remaining metadata:
 
 ```shell
-rake dgidb:normalize:drug_approval_types
+rake dgidb:normalize:drug_approval_ratings
 rake dgidb:normalize:drug_types
 rake dgidb:normalize:populate_source_counters
 ```

client/.env.prod

@@ -1,3 +1,3 @@
-REACT_APP_API_URI="https://beta.dgidb.org/api/graphql"
+REACT_APP_API_URI="https://dgidb.org/api/graphql"
 REACT_APP_ANALYTICS='true'
 PORT=443

client/.env.production

@@ -1,3 +1,3 @@
-REACT_APP_API_URI="https://beta.dgidb.org/api/graphql"
+REACT_APP_API_URI="https://dgidb.org/api/graphql"
 REACT_APP_ANALYTICS='true'
 PORT=443

client/.yarnrc.yml

@@ -0,0 +1 @@
+nodeLinker: node-modules

client/src/config/index.ts

@@ -1,4 +1,6 @@
 import { GraphQLClient } from 'graphql-request';
 
 export const API_URL = process.env.REACT_APP_API_URI;
-export const graphQLClient = new GraphQLClient(API_URL!);
+export const graphQLClient = new GraphQLClient(API_URL!, {
+  headers: { 'dgidb-client-name': 'dgidb-frontend' },
+});

client/src/hooks/queries/useGetAmbiguousResults.ts

@@ -112,9 +112,14 @@ export function useGetMatchedResults(names: string[], type: ResultTypes) {
   return useQuery(
     key,
     async () => {
-      const res = await graphQLClient.request(requestQuery, {
-        searchTerms: names,
-      });
+      const res = await graphQLClient.request(
+        requestQuery,
+        { searchTerms: names },
+        {
+          'dgidb-query-type':
+            type === ResultTypes.Gene ? 'search-genes' : 'search-drugs',
+        }
+      );
       return res;
     },
     { enabled: names.length > 0 }

client/src/hooks/queries/useGetCategories.ts

@@ -38,9 +38,14 @@ export function useGetCategories(names: string[]) {
   return useQuery(
     'categories' + names,
     async () => {
-      const res = await graphQLClient.request(getCategoriesQuery, {
-        searchTerms: names,
-      });
+      const res = await graphQLClient.request(
+        getCategoriesQuery,
+        { searchTerms: names },
+        {
+          'dgidb-query-type': 'search-genes',
+          'dgidb-genes-search-mode': 'categories',
+        }
+      );
       return res;
     },
     { enabled: names.length > 0 }

client/src/hooks/queries/useGetNameSuggestions.ts

@@ -29,7 +29,11 @@ export function useGetNameSuggestions(searchTerm: string, type: SearchTypes) {
   return useQuery(
     queryName + searchTerm,
     async () => {
-      const res = await graphQLClient.request(query, { term: searchTerm });
+      const res = await graphQLClient.request(
+        query,
+        { term: searchTerm },
+        { 'dgidb-query-type': queryName }
+      );
       return res;
     },
     { enabled: searchTerm !== '' }

client/src/pages/Downloads/Files/Files.tsx

@@ -25,6 +25,8 @@ function getDataObj(date: string) {
 
 const rows = [
   getDataObj('latest'),
+  getDataObj('2024-Dec'),
+  getDataObj('2024-Jun'),
   getDataObj('2023-Dec'),
   getDataObj('2022-Feb'),
   getDataObj('2021-May'),