fix bam detection

ablab · Apr 3, 2024 · 5b4143e · 5b4143e
1 parent 44acced
commit 5b4143e
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Showing 2 changed files with 2 additions and 2 deletions.
diff --git a/.github/workflows/Group_tests.yml b/.github/workflows/Group_tests.yml
@@ -34,7 +34,7 @@ jobs:
         if: always()
         shell: bash
         env:
-          STEP_NAME: GROUP1.TAG.SIRVs
+          STEP_NAME: GROUP1.TAG.SIRVs.R10
         run: |
           export PATH=$PATH:${{env.BIN_PATH}}
           python3 ${{env.LAUNCHER}} ${{env.CFG_DIR}}/${{env.STEP_NAME}}.cfg -o ${{env.OUTPUT_BASE}}

diff --git a/tests/github/run_pipeline.py b/tests/github/run_pipeline.py
@@ -152,7 +152,7 @@ def find_bam(output_folder, label):
 
     for l in open(os.path.join(output_folder, "isoquant.log")):
         if l.find("BAM file: ") != -1:
-            return l.strip().split("-1")
+            return l.strip().split()[-1]
 
     return None