74 lines
2.6 KiB
Markdown
74 lines
2.6 KiB
Markdown
# BtToxin Pipeline 开发任务清单
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## 当前阶段: CRISPR-Cas 模块开发 (P0)
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### Phase 1: 基础设施与检测
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- [x] **C1.1**: 创建 `crispr_cas` 目录结构 (scripts, docs, tests)
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- [x] **C1.2**: 激活 `pixi.toml` 中的 `[feature.crispr]` 环境依赖
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- [x] **C1.3**: 实现 `crispr_cas/scripts/detect_crispr.py` (CRISPRCasFinder 包装器)
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- [x] **C1.4**: 编写检测模块单元测试 `tests/test_detect_crispr.py`
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### Phase 2: 融合分析 (Fusion Analysis)
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- [x] **C2.1**: 实现 `crispr_cas/scripts/fusion_analysis.py` (Spacer-Toxin 关联)
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- [x] **C2.2**: 实现基因组位置映射逻辑
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- [x] **C2.3**: 编写融合分析测试 `tests/test_fusion_analysis.py`
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### Phase 3: 整合与可视化
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- [x] **C3.1**: 修改 `bttoxin_shoter.py` 集成 CRISPR 评分参数
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- [x] **C3.2**: 更新 `plot_shotter.py` 添加 CRISPR 可视化面板
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- [ ] **C3.3**: 更新 API 支持 CRISPR 参数输入 (Backend pending)
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## 已完成 (上一阶段)
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- [x] **2025-01-14**: Docker 部署修复与上线 (Traefik/Postgres/Redis)
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- [x] **2025-01-14**: 后端国际化 (i18n)
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- [x] **2025-01-14**: 文档更新 (AGENTS.md, DOCKER_DEPLOYMENT.md)
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- [x] **2025-01-14**: 基础功能 (F1-F5, B1-B3)
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## 参考文档
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## 参考文档
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- Shotter 算法原理: `docs/shotter_math_full_zh_typora.md`
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- CRISPR 实现计划: `docs/CRISPR_IMPLEMENTATION_PLAN.md`
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- UI/UX 设计计划: `docs/UI_UX_DESIGN_PLAN.md`
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- 现有前端代码: `frontend/src/`
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- Pixi 环境配置: `pixi.toml`
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## 部署状态
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### 当前状态 (2025-01-14)
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- **Traefik**: ✅ Running (traefik:v3.5.3)
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- **Domain**: ✅ Configured (bttiaw.hzau.edu.cn)
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- **SSL/HTTPS**: ✅ Working (self-signed cert)
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- **Routing**: ✅ Traefik routing to domain OK
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- **Docker Build**: ✅ **SUCCESS** - Image built and service running
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- **Health Check**: ✅ Passed (internal curl test)
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### 部署问题 (已解决)
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**Fixed**:
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- Docker registry 401 error: Switched to `docker.m.daocloud.io`
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- Frontend build errors: Fixed missing icons and types
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- Backend dependencies: Added missing python packages
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- Import errors: Fixed missing classes in backend models
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### 部署步骤
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**Standard Deployment**
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```bash
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# Build and start services
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docker compose -f docker/compose/docker-compose.traefik.yml up -d --build
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# View logs
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docker logs -f bttoxin-pipeline
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```
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### 完整部署流程
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Once registry issue is resolved:
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1. Build production image: `docker build -f docker/dockerfiles/Dockerfile.traefik -t bttoxin-prod .`
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2. Deploy with docker-compose: `docker-compose -f docker/compose/docker-compose.traefik.yml up -d`
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3. Verify deployment: `curl -k https://bttiaw.hzau.edu.cn`
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4. Check logs: `docker logs bttoxin-pipeline`
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