Raise error for github workflow

Author: abuzarmahmood

.github/workflows/python_workflow_test.yml

@@ -15,8 +15,8 @@ jobs:
       - name: Prefect SPIKE only test
         shell: bash
         working-directory: /home/abuzarmahmood/Desktop/blech_clust
-        run: python pipeline_testing/prefect_pipeline.py -s --raise-exception | tee ~/Desktop/blech_clust/github.log;
-          if grep -q "Traceback" ~/Desktop/blech_clust/github.log; then exit 1; fi 
+        run: python pipeline_testing/prefect_pipeline.py -s --raise-exception 2>&1 | tee ~/Desktop/blech_clust/github.log;
+          if grep -q "ERROR" ~/Desktop/blech_clust/github.log; then echo "ERROR detected by bash"; exit 1; fi
   EMG-Only:
     runs-on: self-hosted
     steps:

pipeline_testing/prefect_pipeline.py

@@ -51,6 +51,7 @@ def raise_error_if_error(process, stderr, stdout):
     print(stdout.decode('utf-8'))
     print('=== Process stderr ===\n\n')
     if process.returncode:
+        print('ERROR')
         decode_err = stderr.decode('utf-8')
         raise Exception(decode_err)
         sys.exit(2)