diff --git a/.github/workflows/python-app.yml b/.github/workflows/python-app.yml
index 8c2fc08..15dddfc 100644
--- a/.github/workflows/python-app.yml
+++ b/.github/workflows/python-app.yml
@@ -38,6 +38,4 @@ jobs:
         conda env create -f environment.yml -n strainy
     - name: Test strainy
       run: |
-        conda init
-        conda activate strainy
-        ./strainy.py --gfa test_set/toy.gfa --fastq test_set/toy.fastq.gz --output out_strainy --mode hifi --threads 8
+        conda run -n strainy ./strainy.py --gfa test_set/toy.gfa --fastq test_set/toy.fastq.gz --output out_strainy --mode hifi --threads 8