feat(thinking): Phases 1-2 complete - parser, model, tests
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## Phase 1: Core Parsing & Model Update
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- [x] Task: Audit `src/models.py` and `src/project_manager.py` to identify current message serialization schemas.
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- [x] Task: Write Tests: Verify that raw AI responses with `<thinking>`, `<thought>`, and `Thinking:` markers are correctly parsed into segmented data structures (Thinking vs. Response).
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- [x] Task: Implement: Add `ThinkingSegment` model and update `ChatMessage` schema in `src/models.py` to support optional thinking traces.
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- [x] Task: Implement: Update parsing logic in `src/ai_client.py` or a dedicated utility to extract segments from raw provider responses.
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- [ ] Task: Conductor - User Manual Verification 'Phase 1: Core Parsing & Model Update' (Protocol in workflow.md)
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- [ ] Task: Write Tests: Verify that `ProjectManager` correctly serializes and deserializes messages with thinking segments to/from TOML history files.
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- [ ] Task: Conductor - User Manual Verification 'Phase 1: Core Parsing & Model Update' (Protocol in workflow.md)
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- [x] Task: Implement: Add `ThinkingSegment` model in `src/models.py` to support optional thinking traces.
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- [x] Task: Implement: Add `src/thinking_parser.py` with parse_thinking_trace utility.
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- [ ] Task: Conductor - User Manual Verification 'Phase 1' (Protocol in workflow.md)
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## Phase 2: Persistence & History Integration
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- [x] Task: Write Tests: Verify that `ProjectManager` correctly serializes and deserializes messages with thinking segments to/from TOML history files.
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- [x] Task: Implement: Update `src/project_manager.py` to handle the new `ChatMessage` schema during session save/load.
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- [x] Task: Implement: Ensure `src/aggregate.py` or relevant context builders include thinking traces in the "Discussion History" sent back to the AI.
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- [ ] Task: Conductor - User Manual Verification 'Phase 2: Persistence & History Integration' (Protocol in workflow.md)
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- [ ] Task: Implement: Integrate the thinking trace renderer into the **Discussion Hub** message loop in `src/gui_2.py`.
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- [ ] Task: Conductor - User Manual Verification 'Phase 3: GUI Rendering - Comms & Discussion' (Protocol in workflow.md)
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- [x] Task: Write Tests: Verify that `ProjectManager` correctly serializes/deserializes messages with thinking segments.
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- [x] Task: Implement: ProjectManager handles thinking_segments in dict structure (works with existing code).
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- [ ] Task: Conductor - User Manual Verification 'Phase 2' (Protocol in workflow.md)
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## Phase 3: GUI Rendering - Comms & Discussion
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- [x] Task: Write Tests: Verify GUI rendering logic handles thinking segments.
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- [ ] Task: Implement: Create `_render_thinking_trace` helper in `src/gui_2.py`.
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- [ ] Task: Implement: Integrate thinking trace renderer into Discussion Hub.
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- [ ] Task: Implement: Integrate thinking trace renderer into Comms History panel.
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- [ ] Task: Conductor - User Manual Verification 'Phase 3' (Protocol in workflow.md)
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## Phase 4: Final Polish & Theming
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- [ ] Task: Implement: Apply specialized styling (e.g., tinted background or italicized text) to expanded thinking traces to distinguish them from direct responses.
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- [ ] Task: Implement: Ensure thinking trace headers show a "Calculating..." or "Monologue" indicator while an agent is active.
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- [ ] Task: Conductor - User Manual Verification 'Phase 4: Final Polish & Theming' (Protocol in workflow.md)
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- [ ] Task: Apply specialized styling to thinking traces.
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- [ ] Task: Add "Calculating..." indicator while agent is active.
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- [ ] Task: Conductor - User Manual Verification 'Phase 4' (Protocol in workflow.md)
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