fix: top-level skill dirs so Claude discovers unprefixed names (#761) * fix: top-level skill dirs so Claude discovers unprefixed names Replace directory symlinks (gstack/qa → qa) with real directories containing a SKILL.md symlink. Claude Code auto-prefixes skills nested under a parent dir symlink, so /plan-ceo-review became "Unknown skill" even with skill_prefix=false. Real dirs fix this. Also syncs package.json version to match VERSION file and updates test assertions to match the new mkdir + ln approach. Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com> * docs: update symlink references to new top-level directory pattern Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com> * test: regression tests for top-level skill directory structure Verifies the invariant that setup/relink creates real directories (not symlinks) at the top level, with SKILL.md symlinks inside. This prevents Claude Code from auto-prefixing skills with gstack- when using --no-prefix. Tests added: - unprefixed skills must be real dirs with SKILL.md symlinks - prefixed skills must also be real dirs with SKILL.md symlinks - old directory symlinks get upgraded to real directories - cleanup functions handle both old symlinks and new dir pattern - link function removes old directory symlinks before mkdir Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com> * test: namespace isolation tests for first install + mode switching Verifies the core invariant: when you pick a prefix mode, ONLY that mode's entries exist. Zero pollution from the other mode. - first install --no-prefix: only flat names, zero gstack-* leaks - first install --prefix: only gstack-* names, zero flat leaks - non-TTY defaults to flat names - switching prefix→no-prefix removes ALL gstack-* entries - switching no-prefix→prefix removes ALL flat entries Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com> * feat: upgrade migration system — versioned fix scripts for broken state Adds gstack-upgrade/migrations/ directory with version-keyed bash scripts that run automatically during /gstack-upgrade (Step 4.75, after ./setup). Each script is idempotent and handles state fixes that setup alone can't cover. First migration: v0.15.2.0.sh runs gstack-relink to fix stale directory symlinks from pre-v0.15.2.0 installs. Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com> * test: migration script validation + v0.15.2.0 end-to-end fix test Tests that migration scripts are executable, parse without syntax errors, follow the v{VERSION}.sh naming convention, and that v0.15.2.0 actually fixes stale directory symlinks by converting them to real directories. Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com> * docs: upgrade migration guide in CONTRIBUTING.md + CLAUDE.md pointer CONTRIBUTING.md: new "Upgrade migrations" section documenting when and how to add migration scripts for broken on-disk state. CLAUDE.md: added note under vendored symlink awareness pointing to CONTRIBUTING.md's migration section when worried about broken installs. Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com> --------- Co-authored-by: Claude Opus 4.6 <noreply@anthropic.com>