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Research Assistant acec4a67eb feat: integrate update command into literature_pipeline.py 
- Add 'update' subcommand to check and install updates from GitHub
- Support both git pull and zip download modes
- Auto-backup before update, auto-rollback on failure
- Protect user data (03_Resources/, 05_Bases/, .env, AGENTS.md)
- Add paperforge.json for version tracking
- Add standalone update.py as alternative entry point
- Fix 'all' worker to only run Lite workers
- Add missing imports (sys, tempfile, hashlib, subprocess, zipfile)
2026-04-22 19:03:49 +08:00
command feat: add agent commands deployment 2026-04-21 23:40:07 +08:00
docs docs: remove outdated audit and modular design docs 2026-04-21 23:56:45 +08:00
pipeline/worker/scripts feat: integrate update command into literature_pipeline.py 2026-04-22 19:03:49 +08:00
scripts feat: dynamic AGENTS.md generation with custom paths in setup.py 2026-04-22 17:39:17 +08:00
skills/literature-qa sync: auto-update from Full version (prepare command, chart-reading guides, first_author/journal/impact_factor) 2026-04-22 18:41:26 +08:00
templates cleanup: remove obsolete 文献阅读.md template 2026-04-21 23:04:26 +08:00
.gitignore Initial commit: Literature workflow for medical research 2026-04-21 20:50:17 +08:00
AGENTS.md feat: dynamic AGENTS.md generation with custom paths in setup.py 2026-04-22 17:39:17 +08:00
paperforge.json feat: integrate update command into literature_pipeline.py 2026-04-22 19:03:49 +08:00
README.md feat: add prepare command and chart-type detection for /LD-deep 2026-04-22 17:33:53 +08:00
requirements.txt Add workflow script deployment to setup.py 2026-04-21 20:59:14 +08:00
update.py feat: integrate update command into literature_pipeline.py 2026-04-22 19:03:49 +08:00

README.md

Literature Workflow for Medical Research

基于 Obsidian + Zotero + PaddleOCR 的医学文献精读工作流，支持自动 OCR、深度阅读笔记生成和队列管理。

快速开始

方式一：让 Agent 帮你配置（推荐）

复制以下内容，粘贴给你的 AI Agent，它会自动完成全部配置：

Install and configure the literature workflow by following the instructions here:
https://raw.githubusercontent.com/YOUR-USERNAME/YOUR-REPO/main/docs/INSTALLATION.md

Agent 会问你几个问题，然后自动完成安装、配置和验证。

方式二：手动安装

需要：

  • Python 3.10+
  • Zotero（安装 Better BibTex 插件）
  • Obsidian
  • PaddleOCR API Key
# 1. 克隆仓库
git clone https://github.com/YOUR-USERNAME/YOUR-REPO.git
cd YOUR-REPO

# 2. 安装 Python 依赖
pip install -r requirements.txt

# 3. 运行安装脚本
python setup.py

功能特性

  • /LD-deep — 深度精读（Keshav 三阶段阅读法）
  • 自动 OCR 提取（PaddleOCR-VL API）
  • 图表类型智能识别（20 种图表类型自动检测）
  • 图表质量审查指南（14 种图表类型的专业审查清单）
  • Zotero 双向同步
  • 文献队列管理（Base 集成）

文档

License

MIT License — 允许商业使用，需保留版权声明。