feat(auxiliary): add primary repository auxiliary groups

[nettee]

Summary

• add Auxiliary Group config/state support under .wtk/config.toml and .wtk/worktrees.json
• add wtk auxiliary-group add / wtk ag add and wtk new --ag coordinated worktree creation
• make status/list/remove auxiliary-aware and remove legacy Workspace Mode entrypoints/artifacts

Verification

• cargo check
• cargo test
• uv run pytest e2e/test_auxiliary_group.py
• uv run pytest e2e/test_cli_errors.py e2e/test_repo_mode.py
• uv run pytest e2e/test_pnpm.py
• uv run pytest e2e

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[nettee]

Looper fixer round complete — 72d38e9

• ✅ Review comment on src/worktree.rs (@chatgpt-codex-connector) — thread
  • In src/worktree.rs, coordinated primary rows are now rebuilt with list::repository_row_with_options(..., true, ...) so generated refs/* symlinks no longer set the dirty boolean or dirty label. I also added a regression assertion in e2e/test_auxiliary_group.py covering the JSON list output.

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[nettee]

Looper fixer round complete — d8b7211

• ✅ Review comment on src/worktree.rs (@chatgpt-codex-connector) — thread
  • Updated src/worktree.rs so coordinated removal checks git status --untracked-files=all and ignores only the recorded generated refs/ entries. Added an e2e regression in e2e/test_auxiliary_group.py proving real user files under refs/ now block removal.
• ✅ Review comment on src/auxiliary.rs:308 (@chatgpt-codex-connector) — thread
  • Updated src/auxiliary.rs and src/worktree.rs so auxiliary ref validation re-resolves each auxiliary worktree and requires it to still be on entry.branch, and wtk list now reports that drift as broken. Added an e2e regression covering a switched auxiliary branch.

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[nettee]

Looper fixer round complete — d38044d

• ✅ Review comment on src/worktree.rs:464 (@chatgpt-codex-connector) — thread
  • Added a coordinated primary-branch guard before auxiliary removal in src/worktree.rs, backed by a shared validator in src/auxiliary.rs and an e2e regression that fails removal after switching the primary worktree to another branch.
• ✅ Review comment on src/list.rs (@chatgpt-codex-connector) — thread
  • Updated list dirty-state handling to ignore only the recorded generated auxiliary ref paths, using porcelain output with all untracked entries, and added an e2e regression showing refs/notes.txt still marks the coordinated worktree dirty.

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[nettee]

Looper fixer round complete — da228bb

• ✅ Review comment on src/worktree.rs:355 (@chatgpt-codex-connector) — thread
  • Updated src/worktree.rs so coordinated wtk status validates the primary worktree's current branch with the shared branch guard before emitting status, and added an e2e regression in e2e/test_auxiliary_group.py that fails after switching the primary worktree to another branch.

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[nettee]

Looper fixer round complete — 1672b4b

• ✅ Review comment on src/worktree.rs:480 (@chatgpt-codex-connector) — thread
  • Updated src/worktree.rs to preflight every auxiliary worktree for removability and fail fast if any auxiliary is locked before coordinated removal starts. Added an e2e regression in e2e/test_auxiliary_group.py proving a later locked auxiliary no longer causes partial coordinated deletion.

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[nettee]

Looper fixer round complete — 02c15e8

• ✅ Review comment on src/auxiliary.rs (@chatgpt-codex-connector) — thread
  • Updated src/auxiliary.rs so write_ref now fails fast if refs/ already exists instead of removing it, and added an e2e regression in e2e/test_auxiliary_group.py proving tracked refs/api content is preserved.
• ✅ Review comment on src/auxiliary.rs (@chatgpt-codex-connector) — thread
  • Updated src/auxiliary.rs to parse and decode quoted porcelain v1 paths before comparing ignored generated refs, and added an e2e regression in e2e/test_auxiliary_group.py covering an auxiliary repository basename with whitespace.

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[nettee]

Looper fixer round complete — f110cb2

• ✅ Review comment on src/worktree.rs:265 (@chatgpt-codex-connector) — thread
  • I updated coordinated creation to install per-worktree exclude entries for each generated refs/ symlink in src/auxiliary.rs and call that from src/worktree.rs. I also added an e2e regression in e2e/test_auxiliary_group.py that verifies native git status stays clean and git add . does not stage those refs.

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[nettee]

Looper fixer round complete — 4aa3732

• ✅ Review comment on src/auxiliary.rs (@chatgpt-codex-connector) — thread
  • Replaced the shared info/exclude write in src/auxiliary.rs with a worktree-local excludes file under the linked worktree gitdir, configured through worktree-local Git config. Extended e2e/test_auxiliary_group.py to verify a real refs/api file in the main worktree remains visible during and after coordinated worktree removal.

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[nettee]

Looper fixer round complete — 1a05974

• ✅ Review comment on src/auxiliary.rs:475 (@chatgpt-codex-connector) — thread
  • I now escape generated refs/ ignore entries before writing them in src/auxiliary.rs, so auxiliary names like a* are treated literally. I also added an e2e regression in e2e/test_auxiliary_group.py that proves real paths like refs/actual stay visible and block dirty removal.
• ✅ Review comment on src/auxiliary.rs:498 (@chatgpt-codex-connector) — thread
  • I updated src/auxiliary.rs to preserve any inherited core.excludesFile content by merging it into the generated worktree-local exclude file before configuring the coordinated worktree. I added an e2e regression in e2e/test_auxiliary_group.py showing .DS_Store remains ignored in the coordinated worktree.

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[nettee]

Looper fixer round complete — 0cc07ad

• ✅ Review comment on src/auxiliary.rs:498 (@chatgpt-codex-connector) — thread
  • Updated src/auxiliary.rs so inherited_excludes_path falls back to Git's implicit global ignore path ($XDG_CONFIG_HOME/git/ignore or $HOME/.config/git/ignore) when core.excludesFile is unset, and added an e2e regression in e2e/test_auxiliary_group.py covering the implicit HOME-based ignore file.

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[nettee]

Looper fixer round complete — 5d16b1b

• ✅ Review comment on src/auxiliary.rs (@chatgpt-codex-connector) — thread
  • Updated src/auxiliary.rs so install_ref_excludes only merges an inherited core.excludesFile when that file exists, matching Git's behavior for a missing configured excludes path. Added test_auxiliary_group_new_skips_missing_global_excludes in e2e/test_auxiliary_group.py to cover wtk new --ag with a missing global excludes file.

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[nettee]

Looper fixer round complete — 1dc0890

• ✅ Review comment on src/auxiliary.rs (@chatgpt-codex-connector) — thread
  • Updated src/auxiliary.rs so escape_gitignore_pattern counts trailing spaces once, escapes the non-space prefix, and appends escaped trailing spaces without looping. Added a unit regression covering one and two trailing spaces.
• ✅ Review comment on src/worktree.rs:195 (@chatgpt-codex-connector) — thread
  • Updated src/worktree.rs to reject --base together with --from-current before coordinated branch resolution, matching standalone wtk new behavior. Added an e2e regression in e2e/test_auxiliary_group.py for the coordinated conflict case.

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[nettee]

Looper fixer round complete — f8fbc8b

• ✅ Review comment on src/auxiliary.rs:461 (@chatgpt-codex-connector) — thread
  • Resolved relative inherited core.excludesFile paths against the coordinated primary worktree in src/auxiliary.rs before the existence/read checks. Added an e2e regression in e2e/test_auxiliary_group.py that runs wtk new --ag from a nested subdirectory and confirms inherited ignore rules still apply.

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