style: fix linting errors

I double checked that the dicts are identical to what they were before this change

Author: DaniBodor

deeprank2/tools/target.py

@@ -35,12 +35,9 @@ def add_target(  # noqa: C901
         1ATN_xxx-3 0
         1ATN_xxx-4 0
     """
-    target_dict = {}
-
     labels = np.loadtxt(target_list, delimiter=sep, usecols=[0], dtype=str)
     values = np.loadtxt(target_list, delimiter=sep, usecols=[1])
-    for label, value in zip(labels, values, strict=True):
-        target_dict[label] = value
+    target_dict = dict(zip(labels, values, strict=False))
 
     if os.path.isdir(graph_path):
         graphs = glob.glob(f"{graph_path}/*.hdf5")

deeprank2/utils/parsing/residue.py

@@ -10,9 +10,7 @@ def __init__(
         absent_atom_names: list[str],
     ):
         self.class_name = class_name
-
         self.amino_acid_names = amino_acid_names
-
         self.present_atom_names = present_atom_names
         self.absent_atom_names = absent_atom_names
 
@@ -26,11 +24,7 @@ def matches(self, amino_acid_name: str, atom_names: list[str]) -> bool:
             return False
 
         # check the atom names that should be present
-        if not all(atom_name in atom_names for atom_name in self.present_atom_names):
-            return False
-
-        # all checks passed
-        return True
+        return all(atom_name in atom_names for atom_name in self.present_atom_names)
 
 
 class ResidueClassParser:  # noqa: D101

tests/test_querycollection.py

@@ -202,15 +202,11 @@ def test_querycollection_process_combine_output_true() -> None:
         _, output_directory_f, output_paths_f = _querycollection_tester(query_type, feature_modules=modules, combine_output=False, cpu_count=2)
         assert len(output_paths_t) == 1
 
-        keys_t = {}
         with h5py.File(output_paths_t[0], "r") as file_t:
-            for key, value in file_t.items():
-                keys_t[key] = value
-        keys_f = {}
+            keys_t = dict(file_t.items())
         for output_path in output_paths_f:
             with h5py.File(output_path, "r") as file_f:
-                for key, value in file_f.items():
-                    keys_f[key] = value
+                keys_f = dict(file_f.items())
         assert keys_t == keys_f
 
         rmtree(output_directory_t)