From 34a26833c243bedef5c43371d2e8adf8cc64cfb6 Mon Sep 17 00:00:00 2001
From: Jayaram Kancherla <jayaram.kancherla@gmail.com>
Date: Wed, 11 Mar 2026 15:38:07 -0700
Subject: [PATCH 1/2] migrate tests to the newer biocsetup, run tests for zarr
 v2 and v3

---
 .github/workflows/pypi-test.yaml | 69 +++++++++++++++++++-------------
 1 file changed, 42 insertions(+), 27 deletions(-)

diff --git a/.github/workflows/pypi-test.yaml b/.github/workflows/pypi-test.yaml
index 09f0c41..718468a 100644
--- a/.github/workflows/pypi-test.yaml
+++ b/.github/workflows/pypi-test.yaml
@@ -1,42 +1,57 @@
- # This workflow will install Python dependencies, run tests and lint with a single version of Python
- # For more information see: https://help.github.com/actions/language-and-framework-guides/using-python-with-github-actions
-
 name: Test the library
 
 on:
-  workflow_dispatch
-#   push:
-#     branches: [main]
-#   pull_request:
-#     branches: [main]
+  push:
+    branches:
+      - master # for legacy repos
+      - main
+  pull_request:
+    branches:
+      - master # for legacy repos
+      - main
+  workflow_dispatch:
+  schedule:
+    - cron: "0 0 1,16 * *"
+
+permissions:
+  contents: read
+
+concurrency:
+  group: >-
+    ${{ github.workflow }}-${{ github.ref_type }}-
+    ${{ github.event.pull_request.number || github.sha }}
+  cancel-in-progress: true
 
 jobs:
-  build:
-    runs-on: ubuntu-latest
+  test:
     strategy:
       matrix:
-        python-version: ["3.8", "3.9", "3.10", "3.11", "3.12"]
+        python: ["3.10", "3.11", "3.12", "3.13", "3.14"]
+        zarr: ["2.*", "3.*"]
+        platform:
+          - ubuntu-latest
+          # - macos-latest
+          # - windows-latest
+
+    runs-on: ${{ matrix.platform }}
+    name: Python ${{ matrix.python }}, Zarr ${{ matrix.zarr }}, ${{ matrix.platform }}
 
-    name: Python ${{ matrix.python-version }}
     steps:
-      - uses: actions/checkout@v2
-      - name: Setup Python
-        uses: actions/setup-python@v4
+      - uses: actions/checkout@v4
+
+      - uses: actions/setup-python@v5
+        id: setup-python
         with:
-          python-version: ${{ matrix.python-version }}
-          cache: "pip"
+          python-version: ${{ matrix.python }}
+
       - name: Install dependencies
         run: |
           python -m pip install --upgrade pip
-          pip install flake8 pytest tox
+          pip install "zarr==${{ matrix.zarr }}"
+          pip install tox coverage
 
-      # - name: Lint with flake8
-      #   run: |
-      #     # stop the build if there are Python syntax errors or undefined names
-      #     flake8 . --count --select=E9,F63,F7,F82 --show-source --statistics
-      #     # exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide
-      #     # flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics
-
-      - name: Test with tox
-        run: |
+      - name: Run tests
+        run: >-
+          pipx run --python '${{ steps.setup-python.outputs.python-path }}'
           tox
+          -- -rFEx --durations 10 --color yes --cov --cov-branch --cov-report=xml

From d00b46d6d59707ae66285bddd12d643c07cd900d Mon Sep 17 00:00:00 2001
From: Jayaram Kancherla <jayaram.kancherla@gmail.com>
Date: Wed, 11 Mar 2026 15:58:09 -0700
Subject: [PATCH 2/2] ignore 3.14 for now.

---
 .github/workflows/pypi-test.yaml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/.github/workflows/pypi-test.yaml b/.github/workflows/pypi-test.yaml
index 718468a..8587d06 100644
--- a/.github/workflows/pypi-test.yaml
+++ b/.github/workflows/pypi-test.yaml
@@ -26,7 +26,7 @@ jobs:
   test:
     strategy:
       matrix:
-        python: ["3.10", "3.11", "3.12", "3.13", "3.14"]
+        python: ["3.10", "3.11", "3.12", "3.13"] #, "3.14"
         zarr: ["2.*", "3.*"]
         platform:
           - ubuntu-latest