GitService.initialize() used checkIsRepo(), which is true whenever the project
dir sits anywhere inside a git working tree. So when a ktx project lived in a
subdirectory of an enclosing repo, ktx skipped `git init` and silently adopted
the enclosing repo as its store.
Every ktx relative path assumes the project dir IS the working-tree root. During
ingest, wiki/SL pages are written through a session worktree (whose root is the
worktree dir, so the page is recorded at repo-relative `wiki/global/<key>.md`)
and then squash-merged into the main worktree. With an adopted enclosing repo,
the main worktree's root is the enclosing git root, so the merge wrote the page
to `<gitRoot>/wiki/global/` — outside the project dir. reindex scans
`<projectDir>/wiki/global/`, found nothing, and wiki_search silently returned
empty (knowledge_pages = 0) even though ingest reported success.
Detect the project dir's own root with checkIsRepo(IS_REPO_ROOT) and initialize
a dedicated repo there unless the project dir is already a repo root. This keeps
adopting a user-created repo when the project dir IS that repo's root, fixes the
silent wiki/SL/memory divergence at its source for every writer, and stops ktx
from committing its scaffold into the user's enclosing repo.
Regression tests cover both layers: a project nested in an enclosing repo gets
its own .git (and the enclosing repo stays untouched), and a wiki page written
through a session worktree + squash-merge lands in the project dir and is
discovered by reindex.
