chore: update compatibility matrix

chanzuckerberg · Sep 4, 2024 · eca5d20 · eca5d20
1 parent 5233024
commit eca5d20
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Showing 2 changed files with 8 additions and 7 deletions.
diff --git a/.github/workflows/compatibility_tests.yml b/.github/workflows/compatibility_tests.yml
@@ -14,7 +14,7 @@ jobs:
   docker-build:
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/checkout@v2
+      - uses: actions/checkout@v3
       - name: Set up Python ${{ matrix.python-version }}
         uses: actions/setup-python@v4
         with:
@@ -29,21 +29,21 @@ jobs:
       fail-fast: false
       matrix:
         # note: The `macos-latest` is latest Catalina version, and not Big Sur. So we explicitly ask for Big Sur (`macos-11`)
-        os: [ubuntu-latest, macos-latest, macos-11]
+        os: [ubuntu-latest, macos-latest, macos-13]
         python-version: ["3.10", "3.11"]
         cellxgene_build: [main, latest]
         # add anndata pinned version test for subset of matrix configurations,
         # in order to reduce matrix cross-product explosion
         include:
-          - python-version: 3.9
+          - python-version: 3.10
             cellxgene_build: latest
             # TODO: dynamically use the literal version in requirements.txt,
             # to avoid having to update this in manually in the future
             # TODO: Do not bother running this if anndata latest version
             # matches this pinned version, to avoid a redundant test
-            anndata_version: "==0.10.3"
+            anndata_version: "==0.10.9"
     steps:
-      - uses: actions/checkout@v2
+      - uses: actions/checkout@v3
       - name: Set up Python ${{ matrix.python-version }}
         uses: actions/setup-python@v4
         with:
@@ -55,7 +55,7 @@ jobs:
         run: echo "BREW_CACHE=`brew --cache`" >> $GITHUB_ENV
       # FIXME: Only working for Linux
       - name: Python cache
-        uses: actions/cache@v1
+        uses: actions/cache@v2
         with:
           path: ${{ env.PIP_CACHE }}
           key: ${{ runner.os }}-pip-${{ hashFiles('**/requirements*.txt') }}
@@ -96,6 +96,7 @@ jobs:
           # keep same pip pkg versions as in the cxg release
           sed -i'' -e 's/-r requirements.txt//' server/requirements-dev.txt
           pip install -r server/requirements-dev.txt
+          pip install --force-reinstall numpy==2.0.1 numba>=0.60.0 pandas
       - name: Install anndata version per matrix variable
         run: pip install anndata${{ matrix.anndata_version }}
       - name: Install node

diff --git a/client/__tests__/e2e/puppeteer.setup.js b/client/__tests__/e2e/puppeteer.setup.js
@@ -13,7 +13,7 @@ import * as ENV_DEFAULT from "../../../environment.default.json";
 // a test can take more time to finish, so we don't want
 // jest to shut off the test too soon
 jest.setTimeout(2 * 60 * 1000);
-setDefaultOptions({ timeout: 20 * 1000 });
+setDefaultOptions({ timeout: 60 * 1000 });
 
 jest.retryTimes(ENV_DEFAULT.RETRY_ATTEMPTS);