ci(rhub): install htslib on runners

huishenlab · Dec 3, 2024 · cc4ed59 · cc4ed59
1 parent 9ac2ede
commit cc4ed59
Showing 1 changed file with 15 additions and 0 deletions.
diff --git a/.github/workflows/rhub.yaml b/.github/workflows/rhub.yaml
@@ -60,6 +60,14 @@ jobs:
         with:
           token: ${{ secrets.RHUB_TOKEN }}
           job-config: ${{ matrix.config.job-config }}
+
+      - name: Install deps
+        run: |
+          sudo apt-get install libhts-dev
+          echo "-------------------HTSLIB-----------------------"
+          pkg-config --cflags --libs htslib
+          echo "------------------------------------------------"
+
       - uses: r-hub/actions/run-check@v1
         with:
           token: ${{ secrets.RHUB_TOKEN }}
@@ -89,6 +97,13 @@ jobs:
         with:
           job-config: ${{ matrix.config.job-config }}
           token: ${{ secrets.RHUB_TOKEN }}
+      - name: Install htslib
+        if: ${{ matrix.config.os == 'macos'}}
+        run: |
+          brew install htslib
+          echo "-------------------HTSLIB-----------------------"
+          pkg-config --cflags --libs htslib
+          echo "------------------------------------------------"
       - uses: r-hub/actions/run-check@v1
         with:
           job-config: ${{ matrix.config.job-config }}