From 9d7d79569a08214eaf425b76d810928fad3e0897 Mon Sep 17 00:00:00 2001
From: Maria Katsantoni <31883096+mkatsanto@users.noreply.github.com>
Date: Wed, 29 Mar 2023 10:51:53 +0200
Subject: [PATCH] patch: addition of zarp-cli basic testing (#125)

---
 .github/workflows/ci.yml | 38 +++++++++++++++++++++++++++++++++++++-
 1 file changed, 37 insertions(+), 1 deletion(-)

diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml
index d614a8e..80186dc 100644
--- a/.github/workflows/ci.yml
+++ b/.github/workflows/ci.yml
@@ -203,4 +203,40 @@ jobs:
         run: bash tests/test_integration_workflow_with_conda/test.local.sh
 
       - name: Run SRA downloads workflow
-        run: bash tests/test_sra_download_with_conda/test.local.sh
\ No newline at end of file
+        run: bash tests/test_sra_download_with_conda/test.local.sh
+
+  zarp_cli:
+    needs:
+      - snakemake-graphs-format
+    runs-on: ubuntu-20.04
+    defaults:
+      run:
+        shell: bash -l {0}
+    steps:
+
+      - name: Checkout zarp repository
+        uses: actions/checkout@v3
+
+      - name: Setup miniconda & zarp env
+        uses: conda-incubator/setup-miniconda@v2
+        with:
+          python-version: "3.10"
+          mamba-version: "*"
+          channels: conda-forge
+          channel-priority: true
+          auto-update-conda: false
+          activate-environment: zarp
+          environment-file: install/environment.yml
+          auto-activate-base: false
+
+      - name: Update zarp env with dev. packages
+        run: mamba env update -n zarp -f install/environment.dev.yml
+      - name: Update zarp env with ZARP-cli
+        run: mamba env update -n zarp -f install/environment.cli.yml
+
+      - name: Display all miniconda & env info
+        run: |
+          conda info -a
+          conda list
+      - name: Run test script
+        run: zarp --help