fix inference_app.py

inference_app.py

@@ -390,7 +390,8 @@ def update_pdb_coordinates_from_tensor(input_filename, output_filename, coordina
         atom.set_parent(original_parent)
         # atom.set_name(original_name)
         # atom.set_leve
-
+    
+    output_filename = "./" + output_filename
     # Save the updated structure to a new PDB file
     io = PDBIO()
     io.set_structure(structure)
@@ -408,6 +409,7 @@ def merge_pdb_files(file1, file2, output_file):
     - file2 (str): Path to the second PDB file (e.g., ligand).
     - output_file (str): Path to the output file where the merged structure will be saved.
     """
+    output_file = "./" + output_file
     with open(output_file, 'w') as outfile:
         # Copy the contents of the first file
         with open(file1, 'r') as f1:
@@ -418,7 +420,7 @@ def merge_pdb_files(file1, file2, output_file):
             outfile.write(f2.read())
     
     print(f"Merged PDB saved to {output_file}")   
-    
+    return output_file
 class MPNNLayer(MessagePassing):
     def __init__(self, emb_dim=64, edge_dim=4, aggr='add'):
         r"""Message Passing Neural Network Layer