use pyproject.toml ... modernize build

.bumpversion.cfg

@@ -0,0 +1,16 @@
+# https://github.com/c4urself/bump2version/issues/42
+# :(
+[bumpversion]
+current_version = 0.7.0
+parse = (?P<major>\d+)\.(?P<minor>\d+)\.(?P<patch>\d+)
+serialize = {major}.{minor}.{patch}
+commit = True
+tag = True
+
+[bumpversion:file:setup.py]
+search = version="{current_version}"
+replace = version="{new_version}"
+
+[bumpversion:file:napari_aicsimageio/__init__.py]
+search = {current_version}
+replace = {new_version}

.github/dependabot.yml

@@ -0,0 +1,10 @@
+# https://docs.github.com/github/administering-a-repository/configuration-options-for-dependency-updates
+
+version: 2
+updates:
+  - package-ecosystem: "github-actions"
+    directory: "/"
+    schedule:
+      interval: "monthly"
+    commit-message:
+      prefix: "ci(dependabot):"

.github/workflows/build-main.yml

@@ -1,33 +1,37 @@
-name: Build Main
+name: CI
 
 on:
   push:
     branches:
       - main
-  schedule:
-    # <minute [0,59]> <hour [0,23]> <day of the month [1,31]> <month of the year [1,12]> <day of the week [0,6]>
-    # https://pubs.opengroup.org/onlinepubs/9699919799/utilities/crontab.html#tag_20_25_07
-    # Run every Monday at 18:00:00 UTC (Monday at 10:00:00 PST)
-    - cron: "0 18 * * 1"
+  pull_request:
+    branches:
+      - main
+  workflow_dispatch:
 
 jobs:
+  check-manifest:
+    name: Check Manifest
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v3
+      - uses: actions/setup-python@v4
+        with:
+          python-version: "3.x"
+      - run: pip install check-manifest && check-manifest
+
   test:
     runs-on: ${{ matrix.os }}
     strategy:
       fail-fast: false
       matrix:
-        python-version: [3.8, 3.9]
-        os: [
-          ubuntu-18.04,
-          ubuntu-20.04,
-          windows-latest,
-          macOS-10.15,
-        ]
+        python-version: [3.8, 3.9, "3.10"]
+        os: [ubuntu-latest, windows-latest, macos-latest]
 
     steps:
-    - uses: actions/checkout@v1
+    - uses: actions/checkout@v3
     - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v1
+      uses: actions/setup-python@v4
       with:
         python-version: ${{ matrix.python-version }}
     # Install qt support libs
@@ -53,50 +57,45 @@ jobs:
     - name: Test with pytest
       uses: GabrielBB/xvfb-action@v1
       with:
-        run: python -m pytest --cov-report xml --cov=napari_aicsimageio napari_aicsimageio/tests/
+        run: python -m pytest --cov-report=xml --cov=napari_aicsimageio
     - name: Upload codecov
-      uses: codecov/codecov-action@v1
+      uses: codecov/codecov-action@v3
 
   lint:
     runs-on: ubuntu-latest
 
     steps:
-    - uses: actions/checkout@v1
+    - uses: actions/checkout@v3
     - name: Set up Python
-      uses: actions/setup-python@v1
+      uses: actions/setup-python@v4
       with:
         python-version: 3.9
     - name: Install Dependencies
       run: |
         python -m pip install --upgrade pip
-        pip install .[test]
-    - name: Lint with flake8
-      run: |
-        flake8 napari_aicsimageio --count --verbose --show-source --statistics
-        isort napari_aicsimageio --check-only
-        mypy napari_aicsimageio
-        black --check --exclude vendor napari_aicsimageio
+        pip install pre-commit
+    - name: Lint with pre-commit
+      run: pre-commit run --all-files
 
   publish:
     if: "contains(github.event.head_commit.message, 'Bump version')"
-    needs: [test, lint]
+    needs: [check-manifest, test, lint]
     runs-on: ubuntu-latest
 
     steps:
-    - uses: actions/checkout@v1
+    - uses: actions/checkout@v3
     - name: Set up Python
-      uses: actions/setup-python@v1
+      uses: actions/setup-python@v4
       with:
         python-version: 3.9
     - name: Install Dependencies
       run: |
         python -m pip install --upgrade pip
-        pip install setuptools wheel
+        pip install build wheel
     - name: Build Package
-      run: |
-        python setup.py sdist bdist_wheel
+      run: python -m build
     - name: Publish to PyPI
-      uses: pypa/gh-action-pypi-publish@master
+      uses: pypa/gh-action-pypi-publish@release/v1
       with:
         user: aicspypi
         password: ${{ secrets.PYPI_TOKEN }}

.gitignore

@@ -116,5 +116,5 @@ ENV/
 workbench.ipynb
 
 # Ignore test resources directory
-resources/
-writer_products/
+*/tests/resources/
+writer_products/

.pre-commit-config.yaml

@@ -0,0 +1,36 @@
+repos:
+
+  - repo: https://github.com/PyCQA/isort
+    rev: 5.10.1
+    hooks:
+      - id: isort
+
+  - repo: https://github.com/myint/autoflake
+    rev: v1.4
+    hooks:
+      - id: autoflake
+        args: ["--in-place", "--remove-all-unused-imports"]
+
+  - repo: https://github.com/psf/black
+    rev: 22.6.0
+    hooks:
+      - id: black
+
+  - repo: https://github.com/PyCQA/flake8
+    rev: 4.0.1
+    hooks:
+      - id: flake8
+        additional_dependencies:
+          - flake8-typing-imports>=1.9.0
+          - flake8-pyprojecttoml
+        args: ["--min-python-version=3.8.0"]
+
+  - repo: https://github.com/tlambert03/napari-plugin-checks
+    rev: v0.2.0
+    hooks:
+      - id: napari-plugin-checks
+
+  - repo: https://github.com/pre-commit/mirrors-mypy
+    rev: v0.971
+    hooks:
+      - id: mypy

Makefile

@@ -25,11 +25,7 @@ clean:  ## clean all build, python, and testing files
 	find . -name '*.pyo' -exec rm -fr {} +
 	find . -name '*~' -exec rm -fr {} +
 	find . -name '__pycache__' -exec rm -fr {} +
-	rm -fr .tox/
 	rm -fr .coverage
 	rm -fr coverage.xml
 	rm -fr htmlcov/
 	rm -fr .pytest_cache
-
-build: ## run tox / run tests and lint
-	tox