fix(workbench): keep repository inventory and snapshots within the target

[mldangelo-oai]

Summary

Keep generated repository inventories and Git snapshots inside the selected repository target.

Changes

• Share the canonical-directory containment check across diff inventory, ranking previews, and Git snapshots.
• Keep committed revision history and deleted inventory rows available, reject unsafe changed-file inventories, and retain empty-preview ranking rows where appropriate.
• Preserve selected nested roots, internal Windows junctions, equivalent filesystem spellings, vanished staged paths, and nonblocking progress estimates.
• Use one snapshot rejection path and retain distinct alias-aware parent and final-leaf checks before ranking previews. Keep the existing synthetic path and snapshot regression coverage.

Testing

• Current-main integration c9c12142: pnpm run types, pnpm run format, and pnpm run build — passed.
• pnpm pack, the static package contract, and bounded installed public SDK/CLI import, version, and help checks — passed. All packed bundled-plugin files match the committed source.
• The original six-file PR patch and bundled-plugin bytes are unchanged by the main merge.
• Prior exact head 648c1525: focused inventory/ranking/compact-diff checks passed (11 passed, 2 expected platform skips); the full randomized SDK suite passed (1,294 passed, 11 skipped, 0 failed, 9,150 assertions).
• Runtime-confinement scenarios, the full SDK suite, and the full installed-package smoke were not rerun for this mechanical integration. Fresh pushed-head cross-platform CI remains required.
• Fresh source-only native prepublish review — three independent passes and an independent verifier, with no remaining findings.

Risk and rollout

Ordinary files, selected target roots, deleted history, existing missing-file handling, and supported diff modes retain their behavior. Both bundled-plugin version declarations are 0.1.21 in this standalone branch. If another plugin-changing PR lands first, refresh against main and increment both declarations together to the next unused version so already-staged plugins refresh correctly. Fresh pushed-head CI remains required.

Public disclosure review

Newly authored material was reviewed for public disclosure. Existing automated review comments contain access-restricted report references; maintainer cleanup remains outstanding.

• No customer, partner, prospect, or user identities, data, or identifying details are included.
• No credentials, personal data, private source, scan findings, or nonpublic links or tickets are included.
• I reviewed the branch name, title, description, commits, changes, comments, logs, screenshots, attachments, and links for public disclosure.

[mldangelo-oai]

@codex review

[chatgpt-codex-connector]

Codex Review: Didn't find any major issues. Already looking forward to the next diff.

Reviewed commit: 995da43fbf

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[chatgpt-codex-connector]

Security review completed. No security issues were found in this pull request.

Reviewed commit: 995da43fbf

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[mldangelo-oai]

@codex review

Please review the current head, 648c15254b1bfc371fa75c17b0e02c5586307d6a.

[chatgpt-codex-connector]

Codex Review: Didn't find any major issues. More of your lovely PRs please.

Reviewed commit: 648c15254b

ℹ️ About Codex in GitHub

Your team has set up Codex to review pull requests in this repo. Reviews are triggered when you

• Open a pull request for review
• Mark a draft as ready
• Comment "@codex review".

If Codex has suggestions, it will comment; otherwise it will react with 👍.

Codex can also answer questions or update the PR. Try commenting "@codex address that feedback".

[chatgpt-codex-connector]

Security review completed. No security issues were found in this pull request.

Reviewed commit: 648c15254b

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ℹ️ About Codex security reviews in GitHub

This is an experimental Codex feature. Security reviews are triggered when:

• You comment "@codex security review"
• A regular code review gets triggered (for example, "@codex review" or when a PR is opened), and you’re opted in so security review runs alongside code review

Once complete, Codex will leave suggestions, or a comment if no findings are found.

[mldangelo-oai]

@codex review

Please review commit c9c121420b905d454736bbb13311b605037c33a7.

[chatgpt-codex-connector]

Security review completed. No security issues were found in this pull request.

Reviewed commit: c9c121420b

View security finding report

Only the user who started this review can view the report in Codex.

ℹ️ About Codex security reviews in GitHub

This is an experimental Codex feature. Security reviews are triggered when:

• You comment "@codex security review"
• A regular code review gets triggered (for example, "@codex review" or when a PR is opened), and you’re opted in so security review runs alongside code review

Once complete, Codex will leave suggestions, or a comment if no findings are found.

[chatgpt-codex-connector]

Codex Review: Didn't find any major issues. What shall we delve into next?

Reviewed commit: c9c121420b

ℹ️ About Codex in GitHub

Your team has set up Codex to review pull requests in this repo. Reviews are triggered when you

• Open a pull request for review
• Mark a draft as ready
• Comment "@codex review".

If Codex has suggestions, it will comment; otherwise it will react with 👍.

Codex can also answer questions or update the PR. Try commenting "@codex address that feedback".