Refactor/implement by Claude#2

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Commits on Mar 5, 2026

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test: 未テストサブコマンドへのユニットテスト追加 (13モジュール)

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Commits on Mar 6, 2026

docs: expand CLAUDE.md architecture section with complete module listings

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feat: Implement build subcommands and example scripts

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feat: Enhance place_solvent with 1D-RISM, dual interfaces, and greedy extraction

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example: Add shell scripts for CV calculations and simulation setup

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chore: Archive completed TODO tasks and ignore TODO.md file

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docs: Add AMBER tutorial references to place_solvent module

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