diff --git a/NiChart_DLMUSE/__main__.py b/NiChart_DLMUSE/__main__.py
index 8c22107..963e46e 100644
--- a/NiChart_DLMUSE/__main__.py
+++ b/NiChart_DLMUSE/__main__.py
@@ -126,7 +126,7 @@ def main() -> None:
 
     threads = []
     for i in range(len(subfolders)):
-        curr_out_dir = out_dir + f"split_{i}"
+        curr_out_dir = out_dir + f"/split_{i}"
         curr_thread = threading.Thread(
             target=run_pipeline, args=(subfolders[i], curr_out_dir, device)
         )
diff --git a/NiChart_DLMUSE/utils.py b/NiChart_DLMUSE/utils.py
index 100a543..bf87ad5 100644
--- a/NiChart_DLMUSE/utils.py
+++ b/NiChart_DLMUSE/utils.py
@@ -172,22 +172,22 @@ def remove_subfolders(in_dir: str) -> None:
     os.system(f"rm -r {in_dir}split_*")
 
 def merge_output_data(in_dir: str) -> None:
-    os.system(f"mkdir {in_dir}results")
-    os.system(f"mkdir {in_dir}results/s1_reorient_lps")
-    os.system(f"mkdir {in_dir}results/s2_dlicv")
-    os.system(f"mkdir {in_dir}results/s3_masked")
-    os.system(f"mkdir {in_dir}results/s4_dlmuse")
-    os.system(f"mkdir {in_dir}results/s5_relabeled")
-    os.system(f"mkdir {in_dir}results/s6_combined")
+    os.system(f"mkdir {in_dir}/results")
+    os.system(f"mkdir {in_dir}/results/s1_reorient_lps")
+    os.system(f"mkdir {in_dir}/results/s2_dlicv")
+    os.system(f"mkdir {in_dir}/results/s3_masked")
+    os.system(f"mkdir {in_dir}/results/s4_dlmuse")
+    os.system(f"mkdir {in_dir}/results/s5_relabeled")
+    os.system(f"mkdir {in_dir}/results/s6_combined")
 
     for dir in os.listdir(in_dir):
-        os.system(f"mv {in_dir}{dir}/temp_working_dir/s1_reorient_lps/* {in_dir}results/s1_reorient_lps/")
-        os.system(f"mv {in_dir}{dir}/temp_working_dir/s2_dlicv/* {in_dir}results/s2_dlicv/")
-        os.system(f"mv {in_dir}{dir}/temp_working_dir/s3_masked/* {in_dir}results/s3_masked/")
-        os.system(f"mv {in_dir}{dir}/temp_working_dir/s4_dlmuse/* {in_dir}results/s4_dlmuse/")
-        os.system(f"mv {in_dir}{dir}/temp_working_dir/s5_relabeled/* {in_dir}results/s5_relabeled/")
-        os.system(f"mv {in_dir}{dir}/temp_working_dir/s6_combined/* {in_dir}results/s6_combined/")
-        os.system(f"mv {in_dir}*.nii.gz {in_dir}results/")
+        os.system(f"mv {in_dir}/{dir}/temp_working_dir/s1_reorient_lps/* {in_dir}/results/s1_reorient_lps/")
+        os.system(f"mv {in_dir}/{dir}/temp_working_dir/s2_dlicv/* {in_dir}/results/s2_dlicv/")
+        os.system(f"mv {in_dir}/{dir}/temp_working_dir/s3_masked/* {in_dir}/results/s3_masked/")
+        os.system(f"mv {in_dir}/{dir}/temp_working_dir/s4_dlmuse/* {in_dir}/results/s4_dlmuse/")
+        os.system(f"mv {in_dir}/{dir}/temp_working_dir/s5_relabeled/* {in_dir}/results/s5_relabeled/")
+        os.system(f"mv {in_dir}/{dir}/temp_working_dir/s6_combined/* {in_dir}/results/s6_combined/")
+        os.system(f"mv {in_dir}/*.nii.gz {in_dir}/results/")
 
     for dir in os.listdir(in_dir):
         os.system(f"rm -r {dir}")