chore: rework agent rules and skills to use standard .agents directory

.agents/skills/test/SKILL.md

@@ -0,0 +1,25 @@
+---
+name: Run Tests
+description: Instructions for executing the project test suite to verify code correctness.
+---
+
+# Skill: Run Tests
+
+The goal of this skill is to verify that the project is functioning correctly after development changes. 
+
+## Instructions
+
+1. **Verify Environment**: The project operates dynamically with hardware acceleration (GPU via JAX) and uses `uv` for dependency/execution management.
+2. **Execute Tests**:
+   - To run basic verification (e.g., checking JAX initialization and hardware detection), run the test script:
+     ```bash
+     uv run python -m tests.test_jax_init
+     ```
+   - If a broader suite of modular tests is added (e.g., `pytest`), execute tests in the `tests/` directory with:
+     ```bash
+     uv run pytest tests/
+     ```
+
+## Important Considerations
+- If you are running tests inside the local environment without a Devcontainer, verify whether `uv sync --frozen` (for CPU) or `uv sync --frozen --extra cuda` (for GPU) has been executed to avoid import errors.
+- Do not run bare `python ...` without `uv run` locally, unless you are strictly operating inside a pre-activated `.venv` inside a Devcontainer.