docs: update fix_plan.md - mark B3.3 protein support as complete
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- [x] **B3.1**: 自动检测上传文件类型(.fna/.fa/.faa/.fasta)
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- [x] **B3.2**: 根据文件类型设置 sequence_type (nucl/prot)
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- [ ] **B3.3**: 修改 pipeline 脚本支持蛋白序列输入
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- [x] **B3.3**: 修改 pipeline 脚本支持蛋白序列输入
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## 中优先级 (P1) - 增强功能
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## 已完成
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- [x] 初始版本提交 - 简化架构 + 轮询改造
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- [x] **2025-01-13**: Backend API enhancements - tasks router, download/delete endpoints, concurrency control, queue management
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- [x] **2025-01-13 #1**: Backend API enhancements - tasks router, download/delete endpoints, concurrency control, queue management
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- [x] **2025-01-13 #2**: Pipeline script enhancement - protein file (.faa) support with automatic type detection
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## 参考文档
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