Move CLI reference docs to new reference section in mdBook

[Copilot]

• Create a new reference directory in the docs folder
• Move cli.md to reference/cli.md
• Update SUMMARY.md to add a "Reference" section and update the CLI link
• Update CHANGELOG.md to document the change in the Unreleased section
• Build and verify the documentation renders correctly
• Fix relative links in CLI reference to work from the new location
• Update CHANGELOG.md after rebase to move entry to Unreleased section

Original prompt

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This section details on the original issue you should resolve

<issue_title>Docs should have a reference section</issue_title>
<issue_description>The current CLI reference docs shoud be moved to the reference section in the mdbook.</issue_description>

Comments on the Issue (you are @copilot in this section)

Fixes #313

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[Mossaka]

@copilot modify the changelog since I just rebased to the latest main branch

[Copilot]

@copilot modify the changelog since I just rebased to the latest main branch

Updated the changelog in commit 73a5c6a. The entry has been moved from the v0.3.0 section to the [Unreleased] section under "Changed".