From 15e1b860f9a7cd436152a0faec2fb6626ea31839 Mon Sep 17 00:00:00 2001
From: Chris Cheshire <chris.j.cheshire@gmail.com>
Date: Thu, 17 Dec 2020 14:25:42 +0000
Subject: [PATCH] seacr | added github action workflow

---
 .github/workflows/seacr_callpeak.yml | 40 ++++++++++++++++++++++++++++
 1 file changed, 40 insertions(+)
 create mode 100644 .github/workflows/seacr_callpeak.yml

diff --git a/.github/workflows/seacr_callpeak.yml b/.github/workflows/seacr_callpeak.yml
new file mode 100644
index 00000000..8d342495
--- /dev/null
+++ b/.github/workflows/seacr_callpeak.yml
@@ -0,0 +1,40 @@
+name: seacr_callpeak
+on:
+  push:
+    paths:
+      - software/seacr/callpeak/**
+      - .github/workflows/seacr_callpeak.yml
+      - tests/software/seacr/**
+  pull_request:
+    paths:
+      - software/seacr/callpeak/**
+      - .github/workflows/seacr_callpeak.yml
+      - tests/software/seacr/**
+
+jobs:
+  ci_test:
+    runs-on: ubuntu-latest
+    strategy:
+      matrix:
+        nxf_version: [20.11.0-edge]
+    env:
+      NXF_ANSI_LOG: false
+    steps:
+      - uses: actions/checkout@v2
+
+      - name: Install Nextflow
+        env:
+          NXF_VER: ${{ matrix.nxf_version }}
+        run: |
+          wget -qO- get.nextflow.io | bash
+          sudo mv nextflow /usr/local/bin/
+
+      - name: Set up Python
+        uses: actions/setup-python@v2
+        with:
+          python-version: "3.x"
+      - name: Install dependencies
+        run: python -m pip install --upgrade pip pytest-workflow
+
+      # Test the module
+      - run: pytest --tag samtools_flagstat --symlink --wt 2