[CI] Add ruff checking to all files

[chhzh123]

This PR enables ruff checking to all files, which can potentially detect typing issues at the beginning

[gemini-code-assist]

Summary of Changes

Hello @chhzh123, I'm Gemini Code Assist¹! I'm currently reviewing this pull request and will post my feedback shortly. In the meantime, here's a summary to help you and other reviewers quickly get up to speed!

This pull request significantly improves the codebase's quality and maintainability by integrating the ruff linter for comprehensive code analysis. This integration led to a substantial cleanup effort, removing unused imports, standardizing string formatting, and refining exception handling across many files. Additionally, a new configuration file (config.yaml) has been introduced, likely to streamline resource provisioning and setup for CI/CD pipelines or deployment environments, particularly for TPU-based operations.

Highlights

• Code Quality Enhancement: Integrated ruff linter checks across the entire codebase by modifying .pre-commit-config.yaml to include the python/ directory and adding the F821 rule (undefined name) to detect potential typing issues and other code quality problems.
• Code Cleanup and Refactoring: Performed extensive code cleanup by removing numerous unused imports (e.g., subprocess, defaultdict, Any, Union, partial, Mesh, NamedSharding, LoadFormat, ModelWorkerBatch, SamplingBatchInfo, ForwardMode, RotaryEmbedding, LogitsProcessorOutput, get_abstract_mesh, mesh_lib, Mock, tqdm, copy, ModelRunner, shutil, jax.numpy as jnp, Set, os, subprocess, io, psutil, pybase64, requests, zmq, PIL.Image) and converting f-strings to regular strings in various print and logger.info statements, likely as a result of the new ruff checks.
• New Configuration File: Added a new config.yaml file, which appears to define resource allocation and setup commands, specifically for TPU environments and SSH key management, indicating potential new CI/CD or deployment configurations.
• Test Utilities Update: Updated test utility files (run_jax_loader_test.py, run_qwen3_moe_test.py, run_qwen_test.py) to use importlib.util.find_spec for dependency checks instead of direct imports, and replaced unittest with importlib in some cases.

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[JamesBrianD]

The project.toml file requires additional configuration.

[tool.ruff.lint]
select = ["E", "F", "UP", "B", "SIM", "I", "G"]
ignore = ["F405", "F403", "E402", "E501", "B905","B007","UP032"]

[tool.ruff.format]
docstring-code-format = true

After executing pre-commit run --all-files --show-diff-on-failure, manual modifications are still required to resolve issues with unused f-strings and local variables in the code.

[chhzh123]

@JamesBrianD @Prayer3th It seems the CI crashed after upgrading the JAX version

[chhzh123]

@JamesBrianD Could you help review again and merge? Thanks!

[Prayer3th]

LGTM

[Prayer3th]

Will be merged when CI passed