Hide dcdreader warning

Checked and validated the warning is not relevant for this code, see: MDAnalysis/mdanalysis#3889

key_interactions_finder/contact_identification.py

@@ -16,6 +16,7 @@
 "VdW" - Unspecified VdW interaction.
 """
 from typing import Tuple, Optional, List
+import warnings
 
 import pandas as pd
 import numpy as np
@@ -32,6 +33,12 @@
 HYDROPHOBIC_RESIDUES = ("ALA", "VAL", "LEU", "ILE", "PRO", "PHE", "Cys")
 
 
+# From clarification on GitHub, this message can be safely ignored.
+# https://github.com/MDAnalysis/mdanalysis/issues/3889
+warnings.filterwarnings(
+    "ignore", message="DCDReader currently makes independent timesteps")
+
+
 def calculate_contacts(parm_file: str,
                        traj_file: str,
                        out_file: str,
@@ -106,8 +113,8 @@ def calculate_contacts(parm_file: str,
             contact_scores = []
             for timestep in universe.trajectory:
                 res_res_dists = contacts.distance_array(
-                    res1_atoms.positions.copy(),
-                    res2_atoms.positions.copy()
+                    res1_atoms.positions,
+                    res2_atoms.positions
                 )
                 contact_score = _score_residue_contact(
                     res_res_dists=res_res_dists)