Fix networkx deprecation warnings

Author: winni2k

src/cortexpy/graph/parser/random_access.py

@@ -4,7 +4,7 @@
 This module contains classes for inspecting Cortex graphs with random access to their kmers.
 """
 from bisect import bisect_left
-from collections import Sequence, Mapping
+from collections.abc import Sequence, Mapping
 from functools import lru_cache
 from io import SEEK_END
 

src/cortexpy/graph/parser/random_access_collection.py

@@ -1,4 +1,4 @@
-from collections import Mapping
+from collections.abc import Mapping
 from itertools import chain
 
 import attr

tests/test_unit/test_graph/test_interactor/test_prune_tips.py

@@ -9,8 +9,8 @@ class TestMultiDiGraph(object):
     def test_prunes_three_tips_of_length_1(self):
         # given
         graph = nx.MultiDiGraph()
-        graph.add_path([0, 1, 2])
-        graph.add_path([0, 1, 3])
+        nx.add_path(graph, [0, 1, 2])
+        nx.add_path(graph, [0, 1, 3])
 
         # when
         graph = interactor.Interactor(graph).prune_tips_less_than(2).graph
@@ -22,8 +22,8 @@ def test_prunes_three_tips_of_length_1(self):
     def test_prunes_one_tip_of_length_1(self):
         # given
         graph = nx.MultiDiGraph()
-        graph.add_path([0, 1, 2, 3])
-        graph.add_path([0, 1, 4, 5])
+        nx.add_path(graph, [0, 1, 2, 3])
+        nx.add_path(graph, [0, 1, 4, 5])
 
         # when
         graph = interactor.Interactor(graph).prune_tips_less_than(2).graph