ReadScorerOutput error was silently discarded during resume merge,
risking partial data loss on TOCTOU file changes. Also clean up
compare command construction to pass RunE directly to NewCommand.
Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
All 28 commands now accessible as exported lem.Run* functions.
Prerequisite for CLI framework migration.
Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>