chore: close out v0.6 adoption

.github/ISSUE_TEMPLATE/bug_report.yml

@@ -0,0 +1,62 @@
+name: Bug report
+description: Report a reproducible FastaGuard problem.
+title: "[Bug]: "
+labels: [bug]
+body:
+  - type: markdown
+    attributes:
+      value: "Please remove private sequence data. A minimal synthetic FASTA reproducer is preferred."
+  - type: input
+    id: version
+    attributes:
+      label: FastaGuard version
+      description: Include the output of `fastaguard --version`.
+    validations:
+      required: true
+  - type: input
+    id: operating-system
+    attributes:
+      label: Operating system
+      description: Include the operating system and version.
+    validations:
+      required: true
+  - type: dropdown
+    id: installation-method
+    attributes:
+      label: Installation method
+      options:
+        - Bioconda
+        - Container image
+        - Release binary
+        - Source build
+        - Other
+    validations:
+      required: true
+  - type: textarea
+    id: command
+    attributes:
+      label: Exact command
+      description: Paste the complete command and relevant options.
+      render: shell
+    validations:
+      required: true
+  - type: textarea
+    id: reproducer
+    attributes:
+      label: Minimal FASTA reproducer or safe description
+      description: Share a minimal synthetic FASTA or describe the input safely.
+    validations:
+      required: true
+  - type: textarea
+    id: expected
+    attributes:
+      label: Expected result
+    validations:
+      required: true
+  - type: textarea
+    id: actual
+    attributes:
+      label: Actual result
+      description: Include output, error messages, and generated report details.
+    validations:
+      required: true

.github/ISSUE_TEMPLATE/config.yml

@@ -0,0 +1,5 @@
+blank_issues_enabled: false
+contact_links:
+  - name: Security vulnerability report
+    url: https://github.com/ehsanestaji/FastaGuard/security/policy
+    about: Read the security policy for the private reporting contact.

.github/ISSUE_TEMPLATE/feature_request.yml

@@ -0,0 +1,63 @@
+name: Feature request
+description: Suggest a focused improvement to FastaGuard.
+title: "[Feature]: "
+labels: [enhancement]
+body:
+  - type: markdown
+    attributes:
+      value: "Describe the workflow problem and avoid including private sequence data."
+  - type: input
+    id: version
+    attributes:
+      label: FastaGuard version
+      description: Include the version you use, if applicable.
+    validations:
+      required: true
+  - type: input
+    id: operating-system
+    attributes:
+      label: Operating system
+      description: Include the operating system and version, if applicable.
+    validations:
+      required: true
+  - type: dropdown
+    id: installation-method
+    attributes:
+      label: Installation method
+      options:
+        - Bioconda
+        - Container image
+        - Release binary
+        - Source build
+        - Other
+    validations:
+      required: true
+  - type: textarea
+    id: command
+    attributes:
+      label: Exact command
+      description: Show the current workflow command, if applicable.
+      render: shell
+    validations:
+      required: true
+  - type: textarea
+    id: reproducer
+    attributes:
+      label: Minimal FASTA reproducer or safe description
+      description: Provide a minimal synthetic example or safe workflow description.
+    validations:
+      required: true
+  - type: textarea
+    id: expected
+    attributes:
+      label: Expected result
+      description: Describe the outcome that would make the workflow work better.
+    validations:
+      required: true
+  - type: textarea
+    id: actual
+    attributes:
+      label: Actual result
+      description: Describe the current behavior or limitation.
+    validations:
+      required: true

.github/pull_request_template.md

@@ -0,0 +1,24 @@
+## Scoped change description
+
+<!-- Describe the user-facing change and why it belongs in FastaGuard. -->
+
+## Tests
+
+<!-- List commands run and any relevant results. -->
+
+## Contract impact
+
+- [ ] No public contract change.
+- [ ] Public contract changed; JSON, TSV, HTML, schema, and finding catalog impacts are described above.
+
+## Documentation impact
+
+- [ ] No documentation change is needed.
+- [ ] Documentation, examples, or release notes were updated.
+
+## Review checklist
+
+- [ ] Tests cover changed behavior or explain why tests are not applicable.
+- [ ] DCO: every commit includes a `Signed-off-by:` line.
+- [ ] Attribution-trace review: the change has no unwanted authorship or tool-provenance traces.
+- [ ] The contribution stays within FastaGuard's FASTA-level preflight scope.

.github/workflows/ci.yml

@@ -7,6 +7,32 @@ on:
   pull_request:
 
 jobs:
+  multiqc-plugin:
+    name: MultiQC plugin (Python ${{ matrix.python }}, MultiQC ${{ matrix.multiqc }})
+    runs-on: ubuntu-latest
+    strategy:
+      fail-fast: false
+      matrix:
+        python: ["3.10", "3.14"]
+        multiqc: ["1.28", "1.35"]
+
+    steps:
+      - name: Checkout
+        uses: actions/checkout@v6.0.2
+
+      - name: Install Python
+        uses: actions/setup-python@v6
+        with:
+          python-version: ${{ matrix.python }}
+
+      - name: Install Python test dependencies
+        run: python3 -m pip install --requirement requirements-test.txt
+
+      - name: Test built MultiQC plugin
+        env:
+          FASTAGUARD_MULTIQC_VERSION: ${{ matrix.multiqc }}
+        run: python3 -m pytest -q tests/python/test_multiqc_plugin.py
+
   rust:
     name: Rust quality gate
     runs-on: ubuntu-latest
@@ -20,6 +46,11 @@ jobs:
         with:
           components: rustfmt, clippy
 
+      - name: Install Python
+        uses: actions/setup-python@v6
+        with:
+          python-version: "3.12"
+
       - name: Cache Cargo
         uses: Swatinem/rust-cache@v2
 
@@ -32,8 +63,11 @@ jobs:
       - name: Run clippy
         run: cargo clippy --locked --all-targets --all-features -- -D warnings
 
-      - name: Check adoption assets
-        run: python3 -m unittest tests.python.test_adoption_assets -v
+      - name: Install Python test dependencies
+        run: python3 -m pip install --requirement requirements-test.txt
+
+      - name: Run Python tests
+        run: python3 -m pytest -q tests/python
 
       - name: Build Docker image
         run: docker build -t fastaguard:ci .