update

PMBio · May 17, 2024 · 7f9124e · 7f9124e
1 parent abd46f7
commit 7f9124e
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Showing 2 changed files with 10 additions and 9 deletions.
diff --git a/.github/workflows/run-pipeline.yml b/.github/workflows/run-pipeline.yml
@@ -28,7 +28,7 @@ jobs:
             cache-environment: true
             cache-downloads: true
         - name: Run pre pipeline cmd
-          if: prerun_cmd
+          if: inputs.prerun_cmd
           run: ${{inputs.prerun_cmd}}
           shell: bash -el {0}
         - name: ${{inputs.name}}

diff --git a/.github/workflows/smoke-tests.yml b/.github/workflows/smoke-tests.yml
@@ -2,16 +2,17 @@ name: DeepRVAT Pipeline tests
 run-name: DeepRVAT Pipeline tests 🧬🧪💻🧑‍🔬
 on: [ push ]
 
+
 jobs:
   Smoke-RunTraining:
-    steps:
-      uses: ./.github/workflows/run-pipeline.yml
-      with:
-        environment_file: ./deeprvat_env_no_gpu.yml
-        name: Smoke-RunTraining
-        pipeline_cmd: |
-              python -m snakemake -n -j 2 --directory ./example \
-              --snakefile ./pipelines/run_training.snakefile --show-failed-logs
+    uses: ./.github/workflows/run-pipeline.yml
+    with:
+      environment_file: ./deeprvat_env_no_gpu.yml
+      name: Smoke-RunTraining
+      pipeline_cmd: |
+            python -m snakemake -n -j 2 --directory ./example \
+            --snakefile ./pipelines/run_training.snakefile --show-failed-logs
+    
 
 #  Pipeline-Tests-RunTraining:
 #    needs: Smoke-RunTraining