From fd8364f6c226ca81230d73b24a194eba5ac8c2c5 Mon Sep 17 00:00:00 2001
From: AmandaBirmingham <lists@imladris.com>
Date: Fri, 20 Sep 2024 17:06:51 -0700
Subject: [PATCH] workflow and gitattributes

---
 .gitattributes              |  1 +
 .github/workflows/main.yaml | 44 +++++++++++++++++++++++++++++++++++++
 2 files changed, 45 insertions(+)
 create mode 100644 .gitattributes
 create mode 100644 .github/workflows/main.yaml

diff --git a/.gitattributes b/.gitattributes
new file mode 100644
index 0000000..81a384d
--- /dev/null
+++ b/.gitattributes
@@ -0,0 +1 @@
+q2_surpi/_version.py export-subst
diff --git a/.github/workflows/main.yaml b/.github/workflows/main.yaml
new file mode 100644
index 0000000..8b1afbe
--- /dev/null
+++ b/.github/workflows/main.yaml
@@ -0,0 +1,44 @@
+name: Continuous integration unit testing and lint
+
+on: [push]
+
+jobs:
+  build:
+    strategy:
+      matrix:
+        python-version: ['3.8', '3.10']
+        os: [ubuntu-latest]
+    runs-on: ${{ matrix.os }}
+    defaults:
+      run:
+        shell: bash -el {0}
+    steps:
+      - name: Checkout
+        uses: actions/checkout@v3
+
+      - name: Get latest QIIME 2 Environment
+        shell: bash
+        run: |
+          wget https://raw.githubusercontent.com/qiime2/environment-files/master/latest/staging/qiime2-latest-py38-linux-conda.yml
+
+      - uses: conda-incubator/setup-miniconda@v2
+        with:
+          activate-environment: qiime2
+          environment-file: qiime2-latest-py38-linux-conda.yml
+          auto-activate-base: false
+
+      - name: Install and run unit tests
+        run: |
+          conda install pytest
+          which python
+          pip install -e . --no-deps
+          pytest
+
+      - name: Lint with flake8
+        run: |
+          conda activate qiime2
+          conda install flake8
+          # 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