Merge pull request #940 from hubmapconsortium/Derek-Furst/travis-to-github

Derek furst/travis to GitHub

Author: yuanzhou

.github/workflows/python-ci.yml

@@ -0,0 +1,38 @@
+name: CI Build
+
+on:
+  push:
+    branches: [ "main", "dev-integrate" ]
+  pull_request:
+    branches: [ "main", "dev-integrate" ]
+
+permissions:
+  contents: read
+
+jobs:
+  build:
+    runs-on: ubuntu-latest
+    
+    steps:
+      - name: Checkout repository
+        uses: actions/checkout@v4
+        with:
+          submodules: 'recursive'
+
+      - name: Set up Python 3.9
+        uses: actions/setup-python@v5
+        with:
+          python-version: "3.9"
+
+      - name: Upgrade Pip
+        run: python -m pip install --upgrade pip
+        working-directory: src
+
+      - name: Install Dependencies
+        run: |
+          pip install -r requirements.txt
+          pip install -r requirements-dev.txt
+        working-directory: src
+
+      - name: Run tests
+        run: ./test.sh

.travis.yml

@@ -1,27 +1,17 @@
 #!/usr/bin/env bash
 set -o errexit
 
-. test-utils.sh
 
 cd `dirname $0`
 
-start portal/flake8
-flake8 \
-  || die "Try: autopep8 --in-place --aggressive -r $PWD"
-end portal/flake8
-
-start portal/doctests
+flake8 
 cd ../../../
 for F in hubmap_translation/addl_index_transformations/portal/*.py; do
   CMD="python -m doctest -o REPORT_NDIFF $F"
   echo $CMD
   eval $CMD
 done
 cd -
-end portal/doctests
-
-start portal/pytest
 cd ../../../
 PYTHONPATH="src:$PYTHONPATH" pytest -vv  --log-cli-level WARN
 cd -
-end portal/pytest

src/hubmap_translation/addl_index_transformations/portal/test-utils.sh

@@ -1,3 +1,3 @@
-flake8==3.8.2
-pytest==6.2.2
+flake8==7.3.0
+pytest==8.4.2
 pytest-mock>=1.11.1