Precommit: Prettify tools directory (Part I)

[Growl1234]

Reminder

• I have read AGENTS.md and docs/developers_guide/agent_governance.md.
• I have linked an issue or explained why this PR does not need one.
• I have added adequate unit tests and/or case tests, or explained why not.
• I have listed the exact verification commands run and their results.
• I have described user-visible behavior changes, including INPUT parameter changes.
• I have explained core-module impact for ESolver, HSolver, ElecState, Hamilt, Operator, Psi, or other source/ changes.
• I have requested any needed governance exception below.

Linked Issue

Fix #

Unit Tests and/or Case Tests for my changes

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What's changed?

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Governance Notes

• INPUT/docs changes:
• Core module impact:
• Exceptions requested: