feat(codex): make app-server timeouts configurable

[Shimada666]

Summary

• Add agent.codex_app_server_turn_timeout with the existing 600-second default.
• Add agent.codex_app_server_post_tool_quiet_timeout with the existing 90-second default.
• Treat non-positive values as unlimited.
• Apply the configured turn timeout to native Codex app-server compaction as well as normal turns.

Why

The Codex app-server transport currently uses hard-coded host-side deadlines for turns and post-tool silence. These deadlines can terminate otherwise healthy long-running workflows even when the outer gateway inactivity timeout is disabled.

Operators need an explicit way to disable these policy deadlines while retaining user interrupts and subprocess-death detection.

Behavior

The defaults remain unchanged:

agent:
  codex_app_server_turn_timeout: 600
  codex_app_server_post_tool_quiet_timeout: 90

Set either value to 0 to disable that deadline:

agent:
  codex_app_server_turn_timeout: 0
  codex_app_server_post_tool_quiet_timeout: 0

Explicit interruption and Codex subprocess-death detection remain active.

Validation

• scripts/run_tests.sh tests/agent/test_codex_app_server_persist.py tests/run_agent/test_codex_app_server_compaction.py tests/agent/transports/test_codex_app_server_session.py -q
• scripts/run_tests.sh tests/hermes_cli/test_config.py -q
• Ruff checks for all changed Python files
• YAML parsing for cli-config.yaml.example