docs: resolve Logos vacuum and refresh seed metadata

[4444J99]

Resolves Logos layer VACUUM and refreshes seed.yaml metadata.

[github-actions]

AI Quality Gate Report

Mode: advisory

Category	Errors	Warnings
Duplication	0	50
Security	0	2
Logic	0	6

Duplication

• WARNING adapters/base.py:287 - 8-line normalized block duplicates adapters/base.py:185 (async def complete()
• WARNING adapters/base.py:338 - 8-line normalized block duplicates adapters/base.py:210 (async def stream()
• WARNING adapters/base.py:349 - 8-line normalized block duplicates adapters/base.py:296 (import httpx)
• WARNING adapters/base.py:351 - 8-line normalized block duplicates adapters/base.py:299 (ollama_messages = [])
• WARNING adapters/base.py:352 - 8-line normalized block duplicates adapters/base.py:300 (if system:)
• WARNING adapters/base.py:353 - 8-line normalized block duplicates adapters/base.py:301 (ollama_messages.append({"role": "system", "content": system}))
• WARNING adapters/base.py:354 - 8-line normalized block duplicates adapters/base.py:302 (for msg in messages:)
• WARNING adapters/base.py:559 - 8-line normalized block duplicates adapters/base.py:185 (async def complete()
• WARNING adapters/base.py:643 - 8-line normalized block duplicates adapters/base.py:336 ())
• WARNING adapters/base.py:645 - 8-line normalized block duplicates adapters/base.py:210 (async def stream()
• WARNING adapters/base.py:695 - 8-line normalized block duplicates adapters/base.py:185 (async def complete()
• WARNING adapters/base.py:765 - 8-line normalized block duplicates adapters/base.py:336 ())
• WARNING adapters/base.py:767 - 8-line normalized block duplicates adapters/base.py:210 (async def stream()
• WARNING adapters/base.py:823 - 8-line normalized block duplicates adapters/base.py:185 (async def complete()
• WARNING adapters/base.py:824 - 8-line normalized block duplicates adapters/base.py:288 (self,)
• WARNING adapters/base.py:865 - 8-line normalized block duplicates adapters/base.py:335 (raw_response=data,)
• WARNING adapters/base.py:866 - 8-line normalized block duplicates adapters/base.py:336 ())
• WARNING adapters/base.py:868 - 8-line normalized block duplicates adapters/base.py:210 (async def stream()
• WARNING adapters/base.py:869 - 8-line normalized block duplicates adapters/base.py:339 (self,)
• WARNING adapters/base.py:870 - 8-line normalized block duplicates adapters/base.py:340 (messages: list[LLMMessage],)
• WARNING adapters/base.py:890 - 8-line normalized block duplicates adapters/base.py:842 ("https://api.groq.com/openai/v1/chat/completions",)
• WARNING adapters/base.py:891 - 8-line normalized block duplicates adapters/base.py:843 (headers={)
• WARNING adapters/base.py:892 - 8-line normalized block duplicates adapters/base.py:844 ("Authorization": f"Bearer {self.config.api_key}",)
• WARNING adapters/router.py:554 - 8-line normalized block duplicates adapters/base.py:336 ())
• WARNING adapters/router.py:557 - 8-line normalized block duplicates adapters/router.py:383 (self,)
• WARNING adapters/router.py:558 - 8-line normalized block duplicates adapters/router.py:384 (messages: list[LLMMessage],)
• WARNING adapters/router.py:571 - 8-line normalized block duplicates adapters/router.py:397 (Args:)
• WARNING adapters/router.py:572 - 8-line normalized block duplicates adapters/router.py:398 (messages: Conversation messages)
• WARNING adapters/router.py:583 - 8-line normalized block duplicates adapters/router.py:409 (""")
• WARNING adapters/router.py:584 - 8-line normalized block duplicates adapters/router.py:410 (await self._ensure_initialized())
• WARNING adapters/router.py:587 - 8-line normalized block duplicates adapters/router.py:413 (if provider and classification:)
• WARNING adapters/router.py:588 - 8-line normalized block duplicates adapters/router.py:414 (allowed = CLASSIFICATION_ALLOWED_PROVIDERS.get(classification, set()))
• WARNING adapters/router.py:589 - 8-line normalized block duplicates adapters/router.py:415 (if provider not in allowed:)
• WARNING adapters/router.py:590 - 8-line normalized block duplicates adapters/router.py:416 (raise LLMAdapterError()
• WARNING adapters/router.py:591 - 8-line normalized block duplicates adapters/router.py:417 (f"Provider {provider.value} not allowed for ")
• WARNING adapters/router.py:592 - 8-line normalized block duplicates adapters/router.py:418 (f"classification={classification.value}")
• WARNING adapters/router.py:593 - 8-line normalized block duplicates adapters/router.py:419 ())
• WARNING adapters/router.py:595 - 8-line normalized block duplicates adapters/router.py:422 (supports_native_tools = True)
• WARNING adapters/router.py:596 - 8-line normalized block duplicates adapters/router.py:423 (if provider:)
• WARNING adapters/router.py:597 - 8-line normalized block duplicates adapters/router.py:424 (if not self._providers[provider].available:)
• WARNING agents/archetypes/assemblage.py:11 - 8-line normalized block duplicates agents/archetypes/actor_network.py:11 (""")
• WARNING agents/archetypes/assemblage.py:408 - 8-line normalized block duplicates agents/archetypes/assemblage.py:370 ({)
• WARNING agents/archetypes/bureaucracy.py:12 - 8-line normalized block duplicates agents/archetypes/actor_network.py:11 (""")
• WARNING agents/archetypes/dao.py:12 - 8-line normalized block duplicates agents/archetypes/actor_network.py:11 (""")
• WARNING agents/archetypes/orchestrator.py:318 - 8-line normalized block duplicates agents/archetypes/orchestrator.py:291 (if current:)
• WARNING agents/archetypes/orchestrator.py:319 - 8-line normalized block duplicates agents/archetypes/orchestrator.py:292 (subtasks.append()
• WARNING agents/archetypes/security_analyst.py:10 - 8-line normalized block duplicates agents/archetypes/devops.py:10 (""")
• WARNING agents/archetypes/security_analyst.py:12 - 8-line normalized block duplicates agents/archetypes/devops.py:12 (from future import annotations)
• WARNING agents/archetypes/security_analyst.py:14 - 8-line normalized block duplicates agents/archetypes/devops.py:14 (import logging)
• WARNING agents/learning/entity_extractor.py:217 - 8-line normalized block duplicates agents/learning/entity_extractor.py:110 ("react",)

Security

• WARNING titan/persistence/checkpoint.py:218 - pickle-load: review generated code for unsafe default
• WARNING titan/persistence/checkpoint.py:221 - pickle-load: review generated code for unsafe default

Logic

• WARNING dashboard/app.py:584 - while True block has no obvious break, return, or raise
• WARNING hive/topology.py:1348 - if/else branches are identical for Compare(left=Subscript(value=Attribute(value=Name(id='source', ctx=Load()), attr
• WARNING titan/api/inquiry_ws.py:173 - while True block has no obvious break, return, or raise
• WARNING titan/cli.py:1148 - while True block has no obvious break, return, or raise
• WARNING titan/workflows/narrative_synthesizer.py:404 - if/else branches are identical for Compare(left=Name(id='style', ctx=Load()), ops=[Eq()], comparators=[Attribute(va
• WARNING titan_mcp/server.py:214 - if/else branches are identical for Compare(left=Attribute(value=Name(id='session', ctx=Load()), attr='agent_type',

Advisory mode does not block merge. Review findings before strict mode is enabled.

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[chatgpt-codex-connector]

Fix active Logos links to point inside this repo

With this section now marked ACTIVE, the relative links immediately below are expected to lead to the populated docs/logos/ records, but from these root-level Markdown files ../docs/logos/... resolves one directory above the repository instead of to the tracked files under docs/logos/ (verified with git ls-tree -r showing docs/logos/telos.md, etc.). Readers following the newly active Logos documentation links in CLAUDE.md and the same block in GEMINI.md will hit the wrong location unless the links drop the leading ../.

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