Implement comprehensive TODO/FIXME tracker CLI command for code analysis

.gitignore

@@ -4,3 +4,4 @@ best.pt
 .venv
 .venv-formatters
 autonomy/src/autonomy.egg-info
+hydrus_software_stack.egg-info

hydrus_software_stack.egg-info/PKG-INFO

@@ -0,0 +1,120 @@
+Metadata-Version: 2.4
+Name: hydrus-software-stack
+Version: 0.1.0
+Summary: Autonomous underwater vehicle software stack with computer vision and navigation capabilities
+Home-page: https://github.com/your-username/hydrus-software-stack
+Author: Cesar
+Author-email: cesar@example.com
+Project-URL: Bug Reports, https://github.com/your-username/hydrus-software-stack/issues
+Project-URL: Source, https://github.com/your-username/hydrus-software-stack
+Classifier: Development Status :: 3 - Alpha
+Classifier: Intended Audience :: Developers
+Classifier: License :: OSI Approved :: MIT License
+Classifier: Programming Language :: Python :: 3
+Classifier: Programming Language :: Python :: 3.8
+Classifier: Programming Language :: Python :: 3.9
+Classifier: Programming Language :: Python :: 3.10
+Classifier: Programming Language :: Python :: 3.11
+Classifier: Operating System :: OS Independent
+Requires-Python: >=3.8
+Description-Content-Type: text/markdown
+License-File: LICENSE
+Requires-Dist: opencv-python
+Requires-Dist: numpy
+Requires-Dist: matplotlib
+Requires-Dist: requests
+Requires-Dist: colorama
+Requires-Dist: pyserial
+Requires-Dist: fastapi
+Requires-Dist: Flask
+Requires-Dist: black>=23.0.0
+Requires-Dist: isort>=5.12.0
+Requires-Dist: flake8>=6.0.0
+Requires-Dist: pre-commit>=3.0.0
+Requires-Dist: mypy>=1.0.0
+Provides-Extra: depth-estimation
+Requires-Dist: onnx; extra == "depth-estimation"
+Requires-Dist: onnxruntime-gpu; extra == "depth-estimation"
+Requires-Dist: onnxscript; extra == "depth-estimation"
+Requires-Dist: onnxslim; extra == "depth-estimation"
+Requires-Dist: torch; extra == "depth-estimation"
+Requires-Dist: torchvision; extra == "depth-estimation"
+Requires-Dist: tqdm; extra == "depth-estimation"
+Requires-Dist: typer; extra == "depth-estimation"
+Provides-Extra: all
+Requires-Dist: onnx; extra == "all"
+Requires-Dist: onnxruntime-gpu; extra == "all"
+Requires-Dist: onnxscript; extra == "all"
+Requires-Dist: onnxslim; extra == "all"
+Requires-Dist: torch; extra == "all"
+Requires-Dist: torchvision; extra == "all"
+Requires-Dist: tqdm; extra == "all"
+Requires-Dist: typer; extra == "all"
+Dynamic: author
+Dynamic: author-email
+Dynamic: classifier
+Dynamic: description
+Dynamic: description-content-type
+Dynamic: home-page
+Dynamic: license-file
+Dynamic: project-url
+Dynamic: provides-extra
+Dynamic: requires-dist
+Dynamic: requires-python
+Dynamic: summary
+
+<div align="center" style="text-align: center;">
+
+<h1>🌊 Hydrus Software Stack</h1>
+
+<p>
+  <b>A comprehensive ROS-based toolkit for autonomous underwater vehicles.</b>
+  <br>
+  Built for RobSub competitions with maintainability and usability at its core.
+</p>
+
+<h3>
+  <a href="PHILOSOPHY.md">Philosophy</a>
+  <span> · </span>
+  <a href="autonomy/README.md">Autonomy Docs</a>
+  <span> · </span>
+  <a href="../../issues">Issues</a>
+  <span> · </span>
+  <a href="docker/README.md">Docker Setup</a>
+  <span> · </span>
+  <a href="https://github.com/Rumarino-Team/hydrus-software-stack">GitHub</a>
+</h3>
+
+Quick start: `./doctor.sh && ./docker/hydrus-docker/hocker`
+
+[![Tests](https://img.shields.io/badge/tests-passing-brightgreen.svg)](./run_tests.sh)
+[![License: MIT](https://img.shields.io/badge/License-MIT-yellow.svg)](LICENSE)
+[![ROS](https://img.shields.io/badge/ROS-Melodic-blue.svg)](http://wiki.ros.org/melodic)
+[![Docker](https://img.shields.io/badge/Docker-Enabled-blue.svg)](docker/README.md)
+
+</div>
+
+
+To start developing Hydrus
+------
+
+Hydrus is developed by [Rumarino Team](https://github.com/Rumarino-Team). We welcome both pull requests and issues on [GitHub](https://github.com/Rumarino-Team/hydrus-software-stack).
+
+* Read our [Philosophy & Contributing Guide](PHILOSOPHY.md)
+* Check out the [autonomy system documentation](autonomy/README.md)
+* Explore the [Docker deployment options](docker/README.md)
+* Join discussions in [GitHub Issues](../../issues)
+
+Want to contribute? Check our [open issues](../../issues) and follow our [contribution guidelines](PHILOSOPHY.md).
+
+<details>
+<summary>MIT Licensed</summary>
+
+Hydrus is released under the MIT license. Some parts of the software are released under other licenses as specified.
+
+Any user of this software shall indemnify and hold harmless the Rumarino Team and its members from and against all allegations, claims, actions, suits, demands, damages, liabilities, obligations, losses, settlements, judgments, costs and expenses which arise out of, relate to or result from any use of this software by user.
+
+**THIS IS ALPHA QUALITY SOFTWARE FOR RESEARCH AND COMPETITION PURPOSES ONLY. THIS IS NOT A PRODUCT.
+YOU ARE RESPONSIBLE FOR COMPLYING WITH LOCAL LAWS AND REGULATIONS.
+NO WARRANTY EXPRESSED OR IMPLIED.**
+</details>

hydrus_software_stack.egg-info/SOURCES.txt

@@ -0,0 +1,45 @@
+LICENSE
+README.md
+pyproject.toml
+setup.py
+autonomy/__init__.py
+autonomy/arduino_simulator.py
+autonomy/setup.py
+autonomy/test_controller.py
+autonomy/scripts/__init__.py
+autonomy/scripts/profiler/__init__.py
+autonomy/scripts/profiler/profiling_decorators.py
+autonomy/scripts/profiler/profiling_test.py
+autonomy/scripts/profiler/ros_profiler.py
+autonomy/scripts/profiler/ros_profiler_demo.py
+autonomy/scripts/web/__init__.py
+autonomy/scripts/web/detection_viewer.py
+autonomy/src/__init__.py
+autonomy/src/api_server.py
+autonomy/src/controllers.py
+autonomy/src/custom_types.py
+autonomy/src/cv_publishers.py
+autonomy/src/mission_planner/__init__.py
+autonomy/src/mission_planner/base_mission.py
+autonomy/src/mission_planner/gate_mission.py
+autonomy/src/mission_planner/gate_mission_tester.py
+autonomy/src/mission_planner/gate_tester_visualizer.py
+autonomy/src/mission_planner/mission_manager.py
+autonomy/src/mission_planner/mission_tree.py
+autonomy/src/mission_planner/prequalification_mission.py
+autonomy/src/mission_planner/slalom_mission.py
+autonomy/src/mission_planner/slalom_visualizer.py
+autonomy/src/mission_planner/tagging_mission.py
+autonomy/src/mission_planner/tagging_mission_test.py
+autonomy/src/mission_planner/task_parameters.py
+autonomy/src/mission_planner/test_gate_mission.py
+autonomy/src/mission_planner/test_slalom.py
+autonomy/src/mission_planner/test_slalom_integration.py
+autonomy/src/mission_planner/types.py
+hydrus_software_stack.egg-info/PKG-INFO
+hydrus_software_stack.egg-info/SOURCES.txt
+hydrus_software_stack.egg-info/dependency_links.txt
+hydrus_software_stack.egg-info/entry_points.txt
+hydrus_software_stack.egg-info/not-zip-safe
+hydrus_software_stack.egg-info/requires.txt
+hydrus_software_stack.egg-info/top_level.txt

hydrus_software_stack.egg-info/dependency_links.txt

@@ -0,0 +1 @@
+

hydrus_software_stack.egg-info/entry_points.txt

@@ -0,0 +1,2 @@
+[console_scripts]
+hydrus-depth-estimator = autonomy.src.computer_vision.depth_estimation:main

hydrus_software_stack.egg-info/not-zip-safe

@@ -0,0 +1 @@
+

hydrus_software_stack.egg-info/requires.txt

@@ -0,0 +1,33 @@
+opencv-python
+numpy
+matplotlib
+requests
+colorama
+pyserial
+fastapi
+Flask
+black>=23.0.0
+isort>=5.12.0
+flake8>=6.0.0
+pre-commit>=3.0.0
+mypy>=1.0.0
+
+[all]
+onnx
+onnxruntime-gpu
+onnxscript
+onnxslim
+torch
+torchvision
+tqdm
+typer
+
+[depth-estimation]
+onnx
+onnxruntime-gpu
+onnxscript
+onnxslim
+torch
+torchvision
+tqdm
+typer

hydrus_software_stack.egg-info/top_level.txt

@@ -0,0 +1 @@
+autonomy

scripts/cli.py

@@ -6,6 +6,7 @@
 from .commands.ros import ros_app
 from .commands.test import test_app
 from .commands.tmux import tmux_command
+from .commands.todo import todo_app
 
 app = typer.Typer()
 
@@ -19,6 +20,7 @@
 app.add_typer(ros_app, name="ros", help="ROS workspace and utilities management")
 app.add_typer(test_app, name="test", help="Test suite management and execution")
 app.add_typer(tmux_command, name="tmux", help="Tmux session management commands")
+app.add_typer(todo_app, name="todo", help="TODO and FIXME tracker for code analysis")
 
 
 @app.command()