Centralize bootstrap dependency checks

[chubes4]

Summary

• Extract request-shape runtime gating from data-machine.php into DataMachine\Core\Bootstrap\RuntimeEnvironment.
• Add DataMachine\Core\Bootstrap\DependencyChecker with named checks for Agents API contracts, Action Scheduler, ZipArchive, IMAP, WordPress Abilities, and filesystem writes.
• Wire the Agents API access-store and pending-action observer guards through the shared checker, plus fix two lint-gate blockers surfaced by Homeboy.

Refs #2416.
Refs #2417.

Testing

• php -l data-machine.php inc/bootstrap.php inc/Core/Bootstrap/RuntimeEnvironment.php inc/Core/Bootstrap/DependencyChecker.php tests/bootstrap-runtime-environment-smoke.php tests/frontend-runtime-gate-smoke.php
• php tests/bootstrap-runtime-environment-smoke.php
• php tests/frontend-runtime-gate-smoke.php
• vendor/bin/phpcs data-machine.php inc/bootstrap.php inc/Core/Bootstrap/RuntimeEnvironment.php inc/Core/Bootstrap/DependencyChecker.php tests/frontend-runtime-gate-smoke.php tests/bootstrap-runtime-environment-smoke.php inc/Core/FilesRepository/MediaValidator.php inc/Engine/AI/ConversationManager.php
• homeboy lint --path /Users/chubes/Developer/data-machine@refactor-bootstrap-dependency-checks --extension wordpress
• homeboy test --path /Users/chubes/Developer/data-machine@refactor-bootstrap-dependency-checks --extension wordpress

AI assistance

• AI assistance: Yes
• Tool(s): OpenCode (GPT-5.5)
• Used for: Drafting the bootstrap/dependency-check extraction, smoke coverage, lint fixes, and verification commands; Chris remains responsible for review and merge.

[homeboy-ci]

Homeboy Results — data-machine

Lint

✅ lint — passed

ℹ️ Full options: homeboy docs commands/lint
Deep dive: homeboy lint data-machine --changed-since 424a39a

Artifacts and drill-down

• CI results artifact: homeboy-ci-results-data-machine-lint-quality-Linux-node24 contains immediate command JSON for this action invocation.
• Observation artifact: homeboy-observations-data-machine-lint-quality-Linux-node24 contains exported Homeboy run history for deeper queries.
• Drill-down: download the observation artifact, then run homeboy runs import <dir>, homeboy runs list, and homeboy runs findings <run-id>.
• Artifacts are attached to the workflow run: https://github.com/Extra-Chill/data-machine/actions/runs/26714897904

Test

✅ test — passed

• 247 passed
• 3 skipped

ℹ️ Auto-fix lint issues: homeboy refactor data-machine --from lint --write
ℹ️ Collect coverage: homeboy test data-machine --coverage
ℹ️ Save test baseline: homeboy test data-machine --baseline
ℹ️ Pass args to test runner: homeboy test -- [args]
ℹ️ Full options: homeboy docs commands/test
Deep dive: homeboy test data-machine --changed-since 424a39a

Artifacts and drill-down

• CI results artifact: homeboy-ci-results-data-machine-test-quality-Linux-node24 contains immediate command JSON for this action invocation.
• Observation artifact: homeboy-observations-data-machine-test-quality-Linux-node24 contains exported Homeboy run history for deeper queries.
• Drill-down: download the observation artifact, then run homeboy runs import <dir>, homeboy runs list, and homeboy runs findings <run-id>.
• Artifacts are attached to the workflow run: https://github.com/Extra-Chill/data-machine/actions/runs/26714897904

Audit

✅ audit — passed

• audit — 14 finding(s)
• Total: 14 finding(s)

Deep dive: homeboy audit data-machine --changed-since 424a39a

Artifacts and drill-down

• CI results artifact: homeboy-ci-results-data-machine-audit-quality-Linux-node24 contains immediate command JSON for this action invocation.
• Observation artifact: homeboy-observations-data-machine-audit-quality-Linux-node24 contains exported Homeboy run history for deeper queries.
• Drill-down: download the observation artifact, then run homeboy runs import <dir>, homeboy runs list, and homeboy runs findings <run-id>.
• Artifacts are attached to the workflow run: https://github.com/Extra-Chill/data-machine/actions/runs/26714897904

Tooling versions

• Homeboy CLI: homeboy 0.213.4+bf104bef
• Extension: wordpress from https://github.com/Extra-Chill/homeboy-extensions
• Extension revision: 06cc67ae
• Action: unknown@unknown