chore: Update notebook scripts and dependencies

- Remove trailing whitespace in notebook scripts
- Update dependencies: prompt-toolkit, pip, wheel, progressbar2
- Refactor CyberBattleEnv class to use np_random consistently
- Remove networkx from createstubs.sh
- Update dependencies: networkx, pytest, setuptools, pyright, plotly

notebooks/dql_active_directory.ipynb

@@ -21,20 +21,32 @@
     "import cyberbattle.agents.baseline.agent_dql as dqla\n",
     "from cyberbattle.agents.baseline.agent_wrapper import ActionTrackingStateAugmentation, AgentWrapper, Verbosity\n",
     "logging.basicConfig(stream=sys.stdout, level=logging.ERROR, format=\"%(levelname)s: %(message)s\")\n",
-    "%matplotlib inline "
+    "%matplotlib inline"
    ]
   },
   {
    "cell_type": "code",
    "execution_count": 78,
-   "metadata": {},
+   "metadata": {
+    "tags": [
+     "parameters"
+    ]
+   },
    "outputs": [],
    "source": [
     "ngyms = 9\n",
-    "gymids = [f\"ActiveDirectory-v{i}\" for i in range(0, ngyms)]\n",
     "iteration_count = 1000"
    ]
   },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "gymids = [f\"ActiveDirectory-v{i}\" for i in range(0, ngyms)]"
+   ]
+  },
   {
    "cell_type": "code",
    "execution_count": 79,