sds / overcommit / 42968091646

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Support hook side effects without stashing repository changes (#939)

Pre-commit and commit-msg hooks can now modify, create, remove, and
stage files without losing their changes during cleanup. Unstaged edits
are saved to a durable binary patch and hidden with a reverse
application; cleanup reapplies that patch without changing HEAD, the
index, the stash, or merge/cherry-pick metadata. Hooks retain native Git
behavior: only edits they explicitly stage enter the commit, and their
edits survive failed or interrupted runs.

If restoration conflicts with hook edits, the commit fails while
preserving both the hook changes and a patch with recovery instructions.
Patches survive garbage collection and forced termination, and
successful cleanup removes them. File modification times are restored
for unchanged files while hook edits remain visible to watchers.

The existing behavior tests remain, including deletion/rename and
configuration-error recovery regressions. Tests tied to stash commands
and legacy stash emulation were replaced with patch failure and recovery
tests. New regression coverage includes actual commits, first commits,
hook failures/exceptions/interruptions, index changes, alternate
indexes, worktrees, binary files, unusual paths, symlinks/type changes,
CRLF conversion, executable modes, conflicting edits, and shell-safe
recovery commands. Interrupt messages now describe patch recovery
instead of pointing to the stash. `AGENTS.md` and contributor guidance
require 100% line coverage; CI now enforces it after combining all
shard/platform reports.

Validation:
- Complete local suite: **2,169 examples, 0 failures**.
- Local exact coverage gate: **3,844/3,844 executable lines (100%)**.
- `bundle exec overcommit --run`: passed, including RuboCop.
- All **21 GitHub checks passed**, including Ruby 3.3/3.4/4.0 on Linux
and Windows, the final CI gate, and Coveralls. Combined CI coverage:
**3,846/3,846 executable lines (100%)**.

This removes the stash/... (continued)

76 of 76 new or added lines in 4 files covered. (100.0%)

3846 of 3846 relevant lines covered (100.0%)

3333.61 hits per line