From f67ed419b7d01ddd16f32bee8870932273a7ec6b Mon Sep 17 00:00:00 2001
From: LorenzLamm <lorenz.lamm@googlemail.com>
Date: Wed, 29 Jan 2025 13:39:36 +0100
Subject: [PATCH 1/4] add cli tests

---
 .github/workflows/ci.yml | 31 +++++++++++++++++++++++++++++++
 tests/test_clis.sh       |  8 ++++++++
 2 files changed, 39 insertions(+)
 create mode 100644 .github/workflows/ci.yml
 create mode 100644 tests/test_clis.sh

diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml
new file mode 100644
index 0000000..1f78b75
--- /dev/null
+++ b/.github/workflows/ci.yml
@@ -0,0 +1,31 @@
+name: Command-Line Tests
+
+on: [push, pull_request]
+
+jobs:
+  run-tests:
+    runs-on: ubuntu-latest
+    strategy:
+      matrix:
+        python-version: ["3.8", "3.9", "3.10", "3.11"]  
+
+    steps:
+      - name: Checkout Repository
+        uses: actions/checkout@v4
+
+      - name: Set Up Python ${{ matrix.python-version }}
+        uses: actions/setup-python@v4
+        with:
+          python-version: ${{ matrix.python-version }}
+
+      - name: Install Dependencies
+        run: |
+          python -m venv venv
+          source venv/bin/activate
+          pip install --upgrade pip
+          pip install .  # Install project dependencies from pyproject.toml
+
+      - name: Run Test Script
+        run: |
+          chmod +x tests/test_clis.sh
+          ./tests/test_clis.sh
\ No newline at end of file
diff --git a/tests/test_clis.sh b/tests/test_clis.sh
new file mode 100644
index 0000000..a1c7d3f
--- /dev/null
+++ b/tests/test_clis.sh
@@ -0,0 +1,8 @@
+#!/bin/bash
+# Example command-line operations
+echo "Running membrain"
+membrain
+echo "Running membrain_pick"
+membrain_pick
+echo "Running membrain_stats"
+membrain_stats
\ No newline at end of file

From d2000d3f60976366a247036f807aa80c8d7de91b Mon Sep 17 00:00:00 2001
From: LorenzLamm <lorenz.lamm@googlemail.com>
Date: Wed, 29 Jan 2025 13:41:51 +0100
Subject: [PATCH 2/4] remove python 3.8

---
 .github/workflows/ci.yml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml
index 1f78b75..14c6e89 100644
--- a/.github/workflows/ci.yml
+++ b/.github/workflows/ci.yml
@@ -7,7 +7,7 @@ jobs:
     runs-on: ubuntu-latest
     strategy:
       matrix:
-        python-version: ["3.8", "3.9", "3.10", "3.11"]  
+        python-version: ["3.9", "3.10", "3.11"]  
 
     steps:
       - name: Checkout Repository

From 99b06fcf61aebec26f32cffba49c21b42f3adb1c Mon Sep 17 00:00:00 2001
From: LorenzLamm <lorenz.lamm@googlemail.com>
Date: Wed, 29 Jan 2025 13:51:14 +0100
Subject: [PATCH 3/4] acivate venv before running

---
 .github/workflows/ci.yml | 1 +
 1 file changed, 1 insertion(+)

diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml
index 14c6e89..3c25794 100644
--- a/.github/workflows/ci.yml
+++ b/.github/workflows/ci.yml
@@ -27,5 +27,6 @@ jobs:
 
       - name: Run Test Script
         run: |
+          source venv/bin/activate
           chmod +x tests/test_clis.sh
           ./tests/test_clis.sh
\ No newline at end of file

From 122de6a85008ff093831ec520b98b61625124abb Mon Sep 17 00:00:00 2001
From: LorenzLamm <lorenz.lamm@googlemail.com>
Date: Wed, 29 Jan 2025 13:56:18 +0100
Subject: [PATCH 4/4] add more cli commands

---
 tests/test_clis.sh | 3 +++
 1 file changed, 3 insertions(+)

diff --git a/tests/test_clis.sh b/tests/test_clis.sh
index a1c7d3f..d2c6a3a 100644
--- a/tests/test_clis.sh
+++ b/tests/test_clis.sh
@@ -2,7 +2,10 @@
 # Example command-line operations
 echo "Running membrain"
 membrain
+membrain segment
+membrain train
 echo "Running membrain_pick"
 membrain_pick
+membrain_pick train
 echo "Running membrain_stats"
 membrain_stats
\ No newline at end of file