Literature Review

Planning (once):

1. Read abstracts.txt.
2. Reorder progress.txt entries foundational-first. Do not mark any paper done.

Reading (sequential, once per paper):

1. Read progress.txt → pick next unreviewed paper.
2. Read learning.txt for accumulated themes/gaps.
3. Extract paper: uv run python3 tools/extract_pdf.py <input.pdf>.
4. Read templates/research_note.md for format; append new entry to research_note.md. Append only; do not read research_note.md.
5. Append to learning.txt (format from templates/learning.txt). Note contradictions; avoid restating existing themes.
6. Mark paper done in progress.txt with one-line note.

Synthesis (once, after all papers done):

1. Read research_note.md and learning.txt.
2. Read templates/synthesis.md for format.
3. Overwrite synthesis.md with all three sections: Synthesis, Contradictions, Open Questions.

Writing style (all sub-agents):

• concise by sacrificing grammer but avoid ambiguity
• define jargon
• LaTeX for equations (display mode for key ones)
• max 3 sentences/paragraph
• paragraph-based narrative
• no bullets/tables
• conversational tone

Writing style (learning.txt):

• speak aloud your thought process as you read each paper.
• keep the reflection conncise and focused on insights/themes/gaps.
• if any issue in tool usage, note it here and move on.

Stop Conditions

• All papers reviewed + synthesis.md written
• Sub-agent fails repeatedly → escalate to user
• User cancels