diff --git a/mbma.py b/mbma.py
index 669dc6619c9f3397efff9c6676862f73a06b0c22..9f34018fa97efb197086a33020652b381731f55b 100755
--- a/mbma.py
+++ b/mbma.py
@@ -620,16 +620,16 @@ echo "Elapsed time with GATK : $(timer $start_time_variant)
         # count matrix creation
         with open("{0}/stdout.txt".format(args['outdir']),"at") as out:
             with open("{0}/stderr.txt".format(args['outdir']),"at") as err:
-            try :
-                commandline = ("python {0}/count_matrix.py -d {1}/comptage "
-                               "-o {1}/comptage/count_matrix.tsv".format(script_path,
-                                                                args['outdir']))
+                try :
+                    commandline = ("python {0}/count_matrix.py -d {1}/comptage "
+                                   "-o {1}/comptage/count_matrix.tsv".format(script_path,
+                                                                    args['outdir']))
 
-                args = shlex.split(commandline)
-                p = subprocess.call(args,stdout=out, stderr=err)
+                    args = shlex.split(commandline)
+                    p = subprocess.call(args,stdout=out, stderr=err)
 
-            except subprocess.CalledProcessError as e:
-                p = e.p
-                sys.exit(e.returncode)
+                except subprocess.CalledProcessError as e:
+                    p = e.p
+                    sys.exit(e.returncode)
 
     print("\nMBMA successfully completed")