Merge pull request #491 from alliance-genome/dependabot-pin-py-version

Improved python version management
alliance-genome · Jan 28, 2025 · 08a8ce8 · 08a8ce8
2 parents 134e7f9 + fb8af36
commit 08a8ce8
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Showing 9 changed files with 40 additions and 34 deletions.
diff --git a/.github/workflows/PR-validation.yml b/.github/workflows/PR-validation.yml
@@ -62,16 +62,16 @@ jobs:
         shell: bash
         working-directory: ./api/
     steps:
-      - uses: actions/setup-python@v5
-        with:
-          python-version: '3.12'
       - name: Check out repository code
         uses: actions/checkout@v4
         with:
           fetch-depth: 0
           sparse-checkout: |
             Makefile
             api/
+      - uses: actions/setup-python@v5
+        with:
+          python-version-file: "api/pyproject.toml"
       - name: Update lock files
         if: ${{ !contains(github.event.pull_request.labels.*.name, 'no-deps-lock-updates') }}
         shell: bash
@@ -126,16 +126,16 @@ jobs:
         shell: bash
         working-directory: ./shared_aws/py_package/
     steps:
-      - uses: actions/setup-python@v5
-        with:
-          python-version: '3.12'
       - name: Check out repository code
         uses: actions/checkout@v4
         with:
           fetch-depth: 0
           sparse-checkout: |
             Makefile
             shared_aws/py_package/
+      - uses: actions/setup-python@v5
+        with:
+          python-version-file: "shared_aws/py_package/pyproject.toml"
       - name: Update lock files
         if: ${{ !contains(github.event.pull_request.labels.*.name, 'no-deps-lock-updates') }}
         shell: bash
@@ -182,7 +182,7 @@ jobs:
     - name: Setup Python
       uses: actions/setup-python@v5
       with:
-        python-version: "3.12"
+        python-version-file: "shared_aws/py_package/pyproject.toml"
     - name: Code typing test
       run: |
         make run-type-checks
@@ -220,7 +220,7 @@ jobs:
     - name: Setup Python
       uses: actions/setup-python@v5
       with:
-        python-version: "3.12"
+        python-version-file: "shared_aws/py_package/pyproject.toml"
     - name: Build package
       run: |
         make clean build
@@ -239,16 +239,16 @@ jobs:
         shell: bash
         working-directory: ./shared_aws/aws_infra/
     steps:
-      - uses: actions/setup-python@v5
-        with:
-          python-version: '3.12'
       - name: Check out repository code
         uses: actions/checkout@v4
         with:
           fetch-depth: 0
           sparse-checkout: |
             Makefile
             shared_aws/aws_infra/
+      - uses: actions/setup-python@v5
+        with:
+          python-version-file: "shared_aws/aws_infra/pyproject.toml"
       - name: Download shared AWS package
         uses: actions/download-artifact@v4
         with:
@@ -303,7 +303,7 @@ jobs:
     - name: Setup Python
       uses: actions/setup-python@v5
       with:
-        python-version: "3.12"
+        python-version-file: "shared_aws/aws_infra/pyproject.toml"
     - name: Code typing test
       run: |
         make run-type-checks
@@ -334,16 +334,16 @@ jobs:
         shell: bash
         working-directory: ./pipeline/aws_infra/
     steps:
-      - uses: actions/setup-python@v5
-        with:
-          python-version: '3.12'
       - name: Check out repository code
         uses: actions/checkout@v4
         with:
           fetch-depth: 0
           sparse-checkout: |
             Makefile
             pipeline/aws_infra/
+      - uses: actions/setup-python@v5
+        with:
+          python-version-file: "pipeline/aws_infra/pyproject.toml"
       - name: Download shared AWS package
         uses: actions/download-artifact@v4
         with:
@@ -373,16 +373,16 @@ jobs:
         shell: bash
         working-directory: ./api/aws_infra/
     steps:
-      - uses: actions/setup-python@v5
-        with:
-          python-version: '3.12'
       - name: Check out repository code
         uses: actions/checkout@v4
         with:
           fetch-depth: 0
           sparse-checkout: |
             Makefile
             api/aws_infra/
+      - uses: actions/setup-python@v5
+        with:
+          python-version-file: "api/aws_infra/pyproject.toml"
       - name: Download shared AWS package
         uses: actions/download-artifact@v4
         with:
@@ -412,16 +412,16 @@ jobs:
         shell: bash
         working-directory: ./webui/aws_infra/
     steps:
-      - uses: actions/setup-python@v5
-        with:
-          python-version: '3.12'
       - name: Check out repository code
         uses: actions/checkout@v4
         with:
           fetch-depth: 0
           sparse-checkout: |
             Makefile
             webui/aws_infra/
+      - uses: actions/setup-python@v5
+        with:
+          python-version-file: "webui/aws_infra/pyproject.toml"
       - name: Download shared AWS package
         uses: actions/download-artifact@v4
         with:
@@ -694,7 +694,7 @@ jobs:
     - name: Setup Python
       uses: actions/setup-python@v5
       with:
-        python-version: "3.12"
+        python-version-file: "pipeline/aws_infra/pyproject.toml"
     - name: Code typing test
       run: |
         make run-type-checks
@@ -744,7 +744,7 @@ jobs:
           path: api/tests
       - uses: actions/setup-python@v5
         with:
-          python-version: '3.12'
+          python-version-file: "api/pyproject.toml"
       - name: Code typing test
         run: |
           make run-type-checks
@@ -855,7 +855,7 @@ jobs:
           docker load --input /tmp/pavi_alignment_docker_image.tar
       - uses: actions/setup-python@v5
         with:
-          python-version: '3.12'
+          python-version-file: "api/pyproject.toml"
       - name: Run unit and integration tests
         run: |
           make run-tests
@@ -903,7 +903,7 @@ jobs:
           docker load --input /tmp/pavi_api_docker_image.tar
       - uses: actions/setup-python@v5
         with:
-          python-version: '3.12'
+          python-version-file: "api/pyproject.toml"
       # This step will configure environment variables to be used by all steps
       # involving AWS interaction further down
       - name: AWS credentials configuration
@@ -951,7 +951,7 @@ jobs:
     - name: Setup Python
       uses: actions/setup-python@v5
       with:
-        python-version: "3.12"
+        python-version-file: "api/aws_infra/pyproject.toml"
     - name: Code typing test
       run: |
         make run-type-checks
@@ -1006,7 +1006,7 @@ jobs:
     - name: Setup Python
       uses: actions/setup-python@v5
       with:
-        python-version: "3.12"
+        python-version-file: "webui/aws_infra/pyproject.toml"
     - name: Code typing test
       run: |
         make run-type-checks

diff --git a/.github/workflows/main-build-and-deploy.yml b/.github/workflows/main-build-and-deploy.yml
@@ -129,7 +129,7 @@ jobs:
       - name: Setup Python
         uses: actions/setup-python@v5
         with:
-          python-version: "3.12"
+          python-version-file: "shared_aws/py_package/pyproject.toml"
       - name: Build the pavi_shared_aws package
         working-directory: ./shared_aws/py_package
         run: |
@@ -166,7 +166,7 @@ jobs:
     - name: Setup Python
       uses: actions/setup-python@v5
       with:
-        python-version: "3.12"
+        python-version-file: "shared_aws/aws_infra/pyproject.toml"
     - name: Download shared AWS package
       uses: actions/download-artifact@v4
       with:
@@ -210,7 +210,7 @@ jobs:
     - name: Setup Python
       uses: actions/setup-python@v5
       with:
-        python-version: "3.12"
+        python-version-file: "pipeline/aws_infra/pyproject.toml"
     - name: Download shared AWS package
       uses: actions/download-artifact@v4
       with:
@@ -253,7 +253,7 @@ jobs:
     - name: Setup Python
       uses: actions/setup-python@v5
       with:
-        python-version: "3.12"
+        python-version-file: "api/aws_infra/pyproject.toml"
     - name: Download shared AWS package
       uses: actions/download-artifact@v4
       with:
@@ -296,7 +296,7 @@ jobs:
     - name: Setup Python
       uses: actions/setup-python@v5
       with:
-        python-version: "3.12"
+        python-version-file: "webui/aws_infra/pyproject.toml"
     - name: Download shared AWS package
       uses: actions/download-artifact@v4
       with:
@@ -520,7 +520,7 @@ jobs:
     - name: Setup Python
       uses: actions/setup-python@v5
       with:
-        python-version: "3.12"
+        python-version-file: "shared_aws/aws_infra/pyproject.toml"
     - name: Download shared AWS package
       uses: actions/download-artifact@v4
       with:

diff --git a/api/.python-version b/api/.python-version
@@ -0,0 +1 @@
+3.12
diff --git a/api/aws_infra/.python-version b/api/aws_infra/.python-version
@@ -0,0 +1 @@
+3.12
diff --git a/pipeline/aws_infra/.python-version b/pipeline/aws_infra/.python-version
@@ -0,0 +1 @@
+3.12
diff --git a/pipeline/seq_retrieval/.python-version b/pipeline/seq_retrieval/.python-version
@@ -1 +1 @@
-3.12
+3.12
diff --git a/shared_aws/aws_infra/.python-version b/shared_aws/aws_infra/.python-version
@@ -0,0 +1 @@
+3.12
diff --git a/shared_aws/py_package/.python-version b/shared_aws/py_package/.python-version
@@ -0,0 +1 @@
+3.12
diff --git a/webui/aws_infra/.python-version b/webui/aws_infra/.python-version
@@ -0,0 +1 @@
+3.12