Activation reaches plugin discovery before the application dependencies
exist. Give PM its own locked Python project and runtime so it can install
or repair the application without importing that dependency tree.
Keep PM outside the application workspace. A shared uv workspace resolves
the application graph and cannot provide this isolation. Route mutations
through an isolated worker and preserve transaction callbacks, cancellation,
custom package registrations, and correlated receipts.
Use the same runtime builder for source installs and packaged payloads.
Keep offline wheelhouse support in that builder. Nix builds the independent
PM lock as a separate derivation. Refuse lazy-disabled bootstrap before
installing tools or dependencies.
Move first-party YAML readers and writers to ruamel. Keep the application
lock's transitive PyYAML requirements for third-party packages.
Verification:
- Focused canonical Python suite: 177 passed, 1 host-gated skip.
- Electron backend probes: 12 passed. Electron typecheck passed.
- Both uv locks, scoped lint, Bash syntax, and whitespace checks passed.
- Cold activation, corrupt-app repair, offline staging, and relocation ran.
- Built and exercised the Nix PM runtime and standalone YAML merge script.
Six broader caller test files retain the same 24 failing test IDs as an
archive of HEAD. The existing real-home guard blocks those tests before
they can exercise the affected paths. No full-suite pass is claimed.
Native Windows signing and full Bionic package execution remain unverified.
AST-driven pass over every subprocess.run/Popen/check_output/check_call/call
with text=True (or universal_newlines=True) and no explicit encoding=:
append encoding='utf-8', errors='replace' at the kwarg site. 136 call
sites across 28 files (cli.py, hermes_cli/main.py, tools_config.py,
environments, computer_use, gateway, scripts, skills helpers, agent/*).
Together with the salvaged #55339/#60741 commits this closes out issue
#53428's bug class; the salvaged #60751 linter rule in
check-windows-footguns.py now enforces it repo-wide (verified: 807 files
scanned, zero findings).
Add the flag-gated compute-host supervisor, delta/control protocol, PPID orphan guard, inline fail-open path, synthetic GIL-heavy turn seam, and AC-4 certify harness.
Verified on current origin/main: 343 focused tests pass; Ruff and diff checks pass; 360s AC-4 run with six heavy lanes passes at 6.11ms serving p99 with zero stalls and valid load.
Co-authored-by: Kyzcreig <9063726+Kyzcreig@users.noreply.github.com>
