Release 0.8.0

PR for release 0.8.0

.github/workflows/build-docs.yml

@@ -0,0 +1,41 @@
+name: Build images / docs
+on:
+  push:
+    branches:
+      - master
+      - main
+# Cancel if a newer run is started
+concurrency:
+  group: ${{ github.workflow }}-${{ github.event.pull_request.number || github.ref }}
+  cancel-in-progress: true
+
+jobs:
+  rich_codex:
+    runs-on: ubuntu-latest
+    steps:
+      - name: Check out the repo
+        uses: actions/checkout@v3
+
+      - name: Set up Python
+        uses: actions/setup-python@v3
+        with:
+          python-version: 3.x
+
+      - uses: actions/cache@v2
+        with:
+          key: ${{ github.ref }}
+          path: .cache
+
+      - name: Install requirements for docs
+        run: pip install mkdocs-material  .
+
+      - name: Generate terminal images with rich-codex
+        uses: ewels/rich-codex@v1
+        with:
+          commit_changes: "true"
+          clean_img_paths: docs/imgages/*.svg
+          skip_git_checks: "true"
+          terminal_width: 85
+
+      - name: Build and deploy docs
+        run: mkdocs gh-deploy --force

.github/workflows/unit-tests.yml

@@ -0,0 +1,60 @@
+name: Unit tests
+
+on:
+  push:
+    branches: ["main"]
+    paths:
+      - ".github/workflows/unit-tests.yaml"
+      - "tests/**"
+      - "mess/**"
+      - "setup.py"
+  pull_request:
+    branches: ["main"]
+    paths:
+      - ".github/workflows/unit-tests.yaml"
+      - "tests/**"
+      - "mess/**"
+      - "setup.py"
+
+permissions:
+  contents: read
+
+jobs:
+  tests:
+    name: "Python ${{ matrix.python-version }} on ${{ matrix.os }}"
+    runs-on: ${{ matrix.os }}
+
+    defaults:
+      run:
+        shell: bash -el {0}
+
+    strategy:
+      fail-fast: false
+      matrix:
+        os: [macos-latest, ubuntu-latest]
+        python-version: ["3.10", "3.12"]
+
+    steps:
+      - uses: "actions/checkout@v3"
+        with:
+          fetch-depth: 0
+
+      - uses: conda-incubator/setup-miniconda@v3
+        with:
+          auto-update-conda: true
+          miniforge-version: "latest"
+          miniforge-variant: Mambaforge
+          use-mamba: true
+          mamba-version: "*"
+          channels: conda-forge,bioconda,defaults
+          channel-priority: strict
+          activate-environment: mess
+          python-version: ${{ matrix.python-version }}
+          auto-activate-base: false
+
+      - name: "Test and generate coverage report on ${{ matrix.os }} for Python ${{ matrix.python-version }}"
+        run: |
+          python -m pip install --upgrade pip
+          python -m pip install pytest coverage
+          python -m pip install .
+          coverage run -m pytest

.gitignore

@@ -1,2 +1,18 @@
-.idea/
-.snakemake/
+mess.egg-info/
+mess/__pycache__
+build/
+
+htmlcov/
+.tox/
+.coverage
+.coverage.*
+.cache
+nosetests.xml
+coverage.xml
+*,cover
+tests/__pycache__
+.pytest_cache
+
+.snakemake
+mess/workflow/conda
+mess/workflow/taxonkit