Merge branch 'main' into specify_germline_support

.github/workflows/test_n_coverage.yml

@@ -5,34 +5,45 @@ on: [pull_request]
 jobs:
   build:
     runs-on: ubuntu-latest
-    strategy:
-      matrix:
-        python-version: [ '3.9' ]
     steps:
-      - uses: actions/checkout@v4
-      - name: Install poetry
-        run: |
-          curl -O -sSL https://install.python-poetry.org/install-poetry.py
-          python install-poetry.py -y
-          echo "PATH=${HOME}/.poetry/bin:${PATH}" >> $GITHUB_ENV
-          rm install-poetry.py
+      - name: Check out git repository
+        uses: actions/checkout@v4
 
-      - name: Set up Python ${{ matrix.python-version }}
+      - name: Set up python
+        id: setup-python
         uses: actions/setup-python@v5
         with:
-          python-version: ${{ matrix.python-version }}
-          cache: 'poetry'
+          python-version: '3.9'
+
+      # install & configure poetry
+      - name: Install Poetry
+        uses: snok/install-poetry@v1
+        with:
+          version: 1.7.1
+          virtualenvs-create: true
+          virtualenvs-in-project: true
+          installer-parallel: true
+
+      # load cached venv if cache exists
+      - name: Load cached venv
+        id: cached-poetry-dependencies
+        uses: actions/cache@v4
+        with:
+          path: .venv
+          key: venv-${{ runner.os }}-${{ steps.setup-python.outputs.python-version }}-${{ hashFiles('**/poetry.lock') }}
 
       - name: Install dependencies
-        run: |
-          poetry env use ${{ matrix.python-version }}
-          poetry install
+        if: steps.cached-poetry-dependencies.outputs.cache-hit != 'true'
+        run: poetry install --no-interaction
 
       - name: Print python versions
         run: |
           python -V
           poetry run python -V
 
+      - name: Install project
+        run: poetry install --no-interaction
+
       - name: Test with pytest
         run: poetry run pytest --cov=./ --cov-report=xml
 

CHANGELOG.md

@@ -1,6 +1,8 @@
 ## [unreleased]
 ### Changed
 - Improve README and endpoint descriptions specifying that `tsv_2_json` and `csv_2_json` endpoints support only coversion for germline submission files
+### Fixed
+- GitHub action to use poetry v.1.7.1
 
 ## [2.7.1]
 ### Fixed