Merge pull request #241 from kjsanger/feature/github-actions

Move from Travis CI to GitHub Actions

.github/workflows/unit-tests.yml

@@ -0,0 +1,101 @@
+name: "Unit tests"
+
+on: [push, pull_request]
+
+jobs:
+  build:
+    runs-on: ubuntu-18.04
+    continue-on-error: ${{ matrix.experimental }} # Experimental builds may fail
+
+    defaults:
+      run:
+        shell: bash -l -e -o pipefail {0}
+
+    env:
+      WSI_CONDA_CHANNEL: "https://dnap.cog.sanger.ac.uk/npg/conda/devel/generic"
+      CONDA_TEST_ENVIRONMENT: "testenv"
+      CK_DEFAULT_TIMEOUT: 20
+
+    strategy:
+      matrix:
+        experimental: [false]
+        include:
+          - irods: "4.2.7"
+            server_image: "wsinpg/ub-16.04-irods-4.2.7:latest"
+            experimental: false
+          - irods: "4.2.8"
+            server_image: "wsinpg/ub-18.04-irods-4.2.8:latest"
+            experimental: true
+
+    services:
+      irods:
+        image: ${{ matrix.server_image }}
+        ports:
+          - 1247:1247
+          - 20000-20199:20000-20199
+
+    steps:
+      - uses: actions/checkout@v2
+
+      - name: "Initialize Miniconda"
+        run: |
+          echo 'source $CONDA/etc/profile.d/conda.sh' >> "$HOME/.bash_profile"
+
+      - name: "Configure Miniconda"
+        run: |
+          conda config --prepend pkgs_dirs "$HOME/conda/pkgs"
+          conda config --prepend envs_dirs "$HOME/conda/envs"
+
+          conda config --set auto_update_conda False
+          conda config --prepend channels "$WSI_CONDA_CHANNEL"
+          conda config --append channels conda-forge
+          conda info
+
+      - name: "Install iRODS clients"
+        run: |
+          conda create -y -n "$CONDA_TEST_ENVIRONMENT"
+          conda install -y -n "$CONDA_TEST_ENVIRONMENT" python=3.9
+          conda install -y -n "$CONDA_TEST_ENVIRONMENT" sphinx=2.4
+
+          conda install -y -n "$CONDA_TEST_ENVIRONMENT" check
+          conda install -y -n "$CONDA_TEST_ENVIRONMENT" libjansson-dev
+          conda install -y -n "$CONDA_TEST_ENVIRONMENT" "irods-dev ==${{ matrix.irods }}"
+
+          conda install -y -n "$CONDA_TEST_ENVIRONMENT" "irods-icommands ==${{ matrix.irods }}"
+
+      - name: "Configure iRODS clients"
+        run: |
+          conda activate "$CONDA_TEST_ENVIRONMENT"
+
+          mkdir -p "$HOME/.irods"
+          cat <<'EOF' > "$HOME/.irods/irods_environment.json"
+          {
+              "irods_host": "localhost",
+              "irods_port": 1247,
+              "irods_user_name": "irods",
+              "irods_zone_name": "testZone",
+              "irods_home": "/testZone/home/irods",
+              "irods_default_resource": "testResc"
+          }
+          EOF
+
+          echo "irods" | script -q -c "iinit" /dev/null
+          ienv
+          ils
+
+      - name: "Build and test baton"
+        run: |
+          conda activate "$CONDA_TEST_ENVIRONMENT"
+
+          # Is there an environment variable for this?
+          CONDA_ENV="/home/runner/conda/envs/$CONDA_TEST_ENVIRONMENT"
+          
+          CPPFLAGS="-I$CONDA_ENV/include -I$CONDA_ENV/include/irods"
+          LDFLAGS="-L$CONDA_ENV/lib -L$CONDA_ENV/lib/irods/externals"
+          
+          autoreconf -i
+          ./configure CPPFLAGS="$CPPFLAGS" LDFLAGS="$LDFLAGS"
+
+          export LD_LIBRARY_PATH="$CONDA_ENV/lib"
+
+          make distcheck DISTCHECK_CONFIGURE_FLAGS="CPPFLAGS=\"$CPPFLAGS\" LDFLAGS=\"$LDFLAGS\""