Merge pull request #347 from opentargets/il-3354

chore(molecule): set `drugType` nulls to `Unknown`

.github/workflows/build.yaml

@@ -0,0 +1,70 @@
+name: Build
+
+on:
+  release:
+    types:
+      - published
+    branches:
+      - master
+
+jobs:
+  build:
+    runs-on: ubuntu-latest
+
+    permissions:
+      contents: write
+
+    env:
+      TAG: ${{ github.ref_name }}
+      SCALA_VERSION: 2.12.12
+      OUTPUT_PATH: target/scala-2.12
+
+    steps:
+      - id: prepare-tag
+        name: Prepare tag
+        run: echo "TAG=$(echo $TAG | sed 's/^v//')" >> $GITHUB_ENV
+
+      - id: checkout
+        name: Check out repo
+        uses: actions/checkout@v4
+
+      - id: scala-setup
+        name: Install Scala
+        uses: olafurpg/setup-scala@v11
+        with:
+          java-version: [email protected]
+
+      - id: cache
+        name: Cache dependencies
+        uses: actions/cache@v4
+        with:
+          path: |
+            ~/.cache/coursier
+            ~/.ivy2/cache
+            ~/.sbt
+          key: ${{ runner.os }}-sbt-${{ hashFiles('**/build.sbt') }}
+
+      - id: linter
+        name: Lint code
+        run: sbt ++${{ env.SCALA_VERSION }} scalafmtCheckAll
+
+      - id: compile
+        name: Compile code
+        run: sbt ++${{ env.SCALA_VERSION }} clean compile
+
+      - id: test
+        name: Run tests
+        run: sbt ++${{ env.SCALA_VERSION }} coverage test coverageReport
+
+      - id: assembly
+        name: Build jar
+        run: sbt ++${{env.SCALA_VERSION }} 'set test in assembly := {}' assembly
+
+      - id: rename
+        name: Rename jar
+        run: mv ${{ env.OUTPUT_PATH }}/etl-backend-*.jar ${{ env.OUTPUT_PATH }}/etl-backend-${{ env.TAG }}.jar
+
+      - id: push-to-release
+        uses: svenstaro/upload-release-action@v2
+        with:
+          file: ${{ env.OUTPUT_PATH }}/etl-backend-${{ env.TAG }}.jar

README.md

@@ -1,4 +1,4 @@
-[![Build Status](https://travis-ci.com/opentargets/platform-etl-backend.svg?branch=master)](https://travis-ci.com/opentargets/platform-etl-backend)
+![Build status](https://github.com/opentargets/platform-etl-backend/actions/workflows/build.yaml/badge.svg)
 
 # Open Targets Post-Pipeline ETL process
 

src/main/scala/io/opentargets/etl/backend/drug/Molecule.scala

@@ -70,7 +70,7 @@ object Molecule extends LazyLogging {
         col("molecule_chembl_id").as("id"),
         col("molecule_structures.canonical_smiles").as("canonicalSmiles"),
         col("molecule_structures.standard_inchi_key").as("inchiKey"),
-        coalesce(col("molecule_type"), lit("unknown")).as("drugType"),
+        coalesce(col("molecule_type"), lit("Unknown")).as("drugType"),
         col("chebi_par_id"),
         col("black_box_warning").as("blackBoxWarning"),
         col("pref_name").as("name"),