diff --git a/src/bd_rhapsody/bd_rhapsody_make_reference/config.vsh.yaml b/src/bd_rhapsody/bd_rhapsody_make_reference/config.vsh.yaml
index b615faa0..dc71262b 100644
--- a/src/bd_rhapsody/bd_rhapsody_make_reference/config.vsh.yaml
+++ b/src/bd_rhapsody/bd_rhapsody_make_reference/config.vsh.yaml
@@ -136,9 +136,9 @@ engines:
       - type: docker
         run: |
           mkdir /var/bd_rhapsody_cwl && \
-          cd /var/bd_rhapsody_cwl && \
-          git clone https://bitbucket.org/CRSwDev/cwl.git . && \
-          git checkout 8feeace1141b24749ea6003f8e6ad6d3ad5232de
+            cd /var/bd_rhapsody_cwl && \
+            git clone https://bitbucket.org/CRSwDev/cwl.git . && \
+            git checkout 8feeace1141b24749ea6003f8e6ad6d3ad5232de
       - type: docker
         run:
           - VERSION=$(ls -v /var/bd_rhapsody_cwl | grep '^v' | sed 's#v##' | tail -1)
diff --git a/src/bd_rhapsody/bd_rhapsody_make_reference/script.py b/src/bd_rhapsody/bd_rhapsody_make_reference/script.py
index 009b5bf4..dcbfe933 100644
--- a/src/bd_rhapsody/bd_rhapsody_make_reference/script.py
+++ b/src/bd_rhapsody/bd_rhapsody_make_reference/script.py
@@ -108,8 +108,7 @@ def generate_config(par: dict[str, Any], meta, config) -> str:
 
 def get_cwl_file(meta: dict[str, Any]) -> str:
     # create cwl file (if need be)
-    #cwl_file=os.path.join(meta["resources_dir"], "make_rhap_reference_2.2.1_nodocker.cwl")
-    cwl_file="/var/bd_rhapsody_cwl/v2.2.1/Extra_Utilities/bd_rhapsody_make_reference.cwl"
+    cwl_file="/var/bd_rhapsody_cwl/v2.2.1/Extra_Utilities/make_rhap_reference_2.2.1.cwl"
 
     return os.path.abspath(cwl_file)
 
diff --git a/src/bd_rhapsody/bd_rhapsody_sequence_analysis/config.vsh.yaml b/src/bd_rhapsody/bd_rhapsody_sequence_analysis/config.vsh.yaml
index 6c5b771b..1c1f609a 100644
--- a/src/bd_rhapsody/bd_rhapsody_sequence_analysis/config.vsh.yaml
+++ b/src/bd_rhapsody/bd_rhapsody_sequence_analysis/config.vsh.yaml
@@ -649,9 +649,9 @@ engines:
       - type: docker
         run: |
           mkdir /var/bd_rhapsody_cwl && \
-          cd /var/bd_rhapsody_cwl && \
-          git clone https://bitbucket.org/CRSwDev/cwl.git . && \
-          git checkout 8feeace1141b24749ea6003f8e6ad6d3ad5232de
+            cd /var/bd_rhapsody_cwl && \
+            git clone https://bitbucket.org/CRSwDev/cwl.git . && \
+            git checkout 8feeace1141b24749ea6003f8e6ad6d3ad5232de
       - type: docker
         run:
           - VERSION=$(ls -v /var/bd_rhapsody_cwl | grep '^v' | sed 's#v##' | tail -1)
diff --git a/src/bd_rhapsody/bd_rhapsody_sequence_analysis/test.py b/src/bd_rhapsody/bd_rhapsody_sequence_analysis/test.py
index 17a3cb07..6b8be319 100644
--- a/src/bd_rhapsody/bd_rhapsody_sequence_analysis/test.py
+++ b/src/bd_rhapsody/bd_rhapsody_sequence_analysis/test.py
@@ -29,7 +29,7 @@
 # Generate index
 print("> Generate index", flush=True)
 # cwl_file = meta["resources_dir"] / "bd_rhapsody_make_reference.cwl"
-cwl_file = "/var/bd_rhapsody_cwl/v2.2.1/Extra_Utilities/bd_rhapsody_make_reference.cwl"
+cwl_file = "/var/bd_rhapsody_cwl/v2.2.1/Extra_Utilities/make_rhap_reference_2.2.1.cwl"
 reference_small_gtf = meta["resources_dir"] / "test_data" / "reference_small.gtf"
 reference_small_fa = meta["resources_dir"] / "test_data" / "reference_small.fa"
 bdabseq_panel_fa = meta["resources_dir"] / "test_data" / "BDAbSeq_ImmuneDiscoveryPanel.fasta"