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  • 688edba169 docs(aqua): backfill measured budget numbers from 530-paper pilot adminandClaude Fable 5 2026-09-12 22:20:06 +08:00
  • 730692a1f6 feat(aqua): KB build tooling, aqua configs, QA artifacts (P1) adminandClaude Fable 5 2026-09-12 22:19:40 +08:00
  • a9a0ece4b4 feat(aqua): aqua extraction chain v16_aqua_1_0 (copy of v16_1_2, aquatized) adminandClaude Fable 5 2026-09-12 22:19:32 +08:00
  • 00c77aa323 feat(aqua): figure chain dual-key generalization (PMCID/DOI) adminandClaude Fable 5 2026-09-12 22:19:25 +08:00
  • 6bcb88cf76 docs(deploy): 部署方法 Skill 化——含换机/无生信/自定义库路径变体与提示词示例 adminandClaude Fable 5 2026-09-12 20:05:57 +08:00
  • 037790c609 fix(aqua): DOI pairing decoder and MD extraction regexes adminandClaude Fable 5 2026-09-12 19:46:13 +08:00
  • afa7cce938 feat(aqua): unlock normalized KB identity via env with plant fallback - normalized_release EXPECTED_RELEASE defaults to NORMALIZED_RELEASE_ID (plant value) - from_env falls back to constant on empty env; backend_guard uses env-or-constant - start.sh sources env/active_library.env after prod.env (qa + legacy-rag) - build_all.sh --library <name|dir> renders library identity (no name whitelist) - add kb-libraries skeleton (plant/aqua identity cards) and tooling/aqua_kb Co-Authored-By: Claude Fable 5 <noreply@anthropic.com> admin 2026-09-12 19:10:08 +08:00
  • 7444edf525 docs(acceptance): r4 六项缺陷验收用例与 TL 实测记录 adminandClaude Fable 5 2026-09-12 18:40:08 +08:00
  • 8d115f8f1c fix(ui): SourceRow 徽标宽度级联修正(特异性提升) adminandClaude Fable 5 2026-09-12 18:38:07 +08:00
  • 18e69046f1 fix(ui): 文献来源 SourceRow 徽标与标题重叠 adminandClaude Fable 5 2026-09-12 18:32:51 +08:00
  • 4b5b501463 fix(statusbar): loadSession 恢复时重建生信派生 pipeline 块 adminandClaude Fable 5 2026-09-12 18:25:44 +08:00
  • 7037a1d5d8 fix(deploy): restart 脚本 lsof 只取 LISTEN 态进程 adminandClaude Fable 5 2026-09-12 18:22:11 +08:00
  • 36fc2a7250 fix(statusbar): 生信任务活跃期回退消息列表点亮 4 点 adminandClaude Fable 5 2026-09-12 18:22:03 +08:00
  • 9d7ed1bdd3 feat(deploy): start_all.sh 编排生信服务(存在则启动/重启) adminandClaude Fable 5 2026-09-12 16:55:47 +08:00
  • f74b27daa1 fix(statusbar): 生信对话 4 个 agent 点不随相位点亮 adminandClaude Fable 5 2026-09-12 16:32:21 +08:00
  • 00fe6a379e docs(debug): r4 缺陷记录(六项缺陷+过程问题 P1-P7+环境部署问题 E1-E10,含根因/修复/验证/终态) admin 2026-09-12 09:32:59 +08:00
  • faa8686461 fix(figures): PMC 解析冷连接重试——176 实测首次 TLS 握手 10s+ 超时,重连秒回;失败重试一次走热路径 bugfix-r4-20260912 admin 2026-09-12 01:55:42 +08:00
  • 8e4fce062a fix(figures): PMC 外网超时 5s→15s——176 实测 EBI 2-8s 波动,5s 超时致已解析图片被整体吞掉 admin 2026-09-12 01:41:37 +08:00
  • 04bf099faf docs(deploy): DEPLOY_FLOW 增补 §5e figures 本地图片源/§5f BFF 重启陷阱/§5g r4 部署清单 admin 2026-09-12 00:10:45 +08:00
  • d54419f040 fix(r4-28v4): chat 候选腐烂根治——Qdrant 条目 paper_id 派生 DOI/PMCID 回填引用 adminandClaude Fable 5 2026-09-11 17:17:25 +08:00
  • 0252d52425 fix(r4-28v3): 检索模式关闭图证据检索(use_neo4j),arginine 150s->亚秒 adminandClaude Fable 5 2026-09-11 16:47:00 +08:00
  • 2895cd8497 Merge branch 'debug/backend1' into feature/bioflow-conversation-orchestration admin 2026-09-11 16:35:13 +08:00
  • aec01ca0df fix(r4-28v2-amend): 补 direct_flow_retriever 阈值参数链路+单测 adminandClaude Fable 5 2026-09-11 16:34:37 +08:00
  • 1fe80b293e fix(r4-28v2): 双域阈值+检索模式免 LLM 免 rerank adminandClaude Fable 5 2026-09-11 16:33:15 +08:00
  • 8d04eb6845 chore(r4): 恢复 methodology_routes.py 执行位 755(backend2 合并引入的 mode 变更) admin 2026-09-11 14:23:29 +08:00
  • c620461794 Merge branch 'debug/backend2' into feature/bioflow-conversation-orchestration admin 2026-09-11 14:21:23 +08:00
  • 025e2d516c Merge branch 'debug/backend1' into feature/bioflow-conversation-orchestration admin 2026-09-11 14:21:22 +08:00
  • f18286f022 fix(r4-47a/52): DOCX 红头标题样式同源解析 + 意图词典补总结/概括/归纳 adminandClaude Fable 5 2026-09-11 14:19:04 +08:00
  • 28bee31d00 fix(r4-28): 检索相关性下限,无关问题空 sources adminandClaude Fable 5 2026-09-11 14:18:56 +08:00
  • 00eb0bc1d0 fix(r4-27): normalize_source title 空值回填(实体名/元数据标题字段,正文片段绝不参与) adminandClaude Fable 5 2026-09-11 14:18:43 +08:00
  • b5dc12e8a5 fix(r4-52c): _pick_items 先按 doc_id 聚合再取块,重复文档不再占满名额 adminandClaude Fable 5 2026-09-11 14:13:08 +08:00
  • 60f7360cec fix(r4-52b): vault.add 按内容 SHA256 去重,重复上传覆盖旧 doc_id adminandClaude Fable 5 2026-09-11 14:12:57 +08:00
  • 3889a2a29b fix(r4-38): mineru 启动期失败自动重试+中文可读错误+PYTHONUNBUFFERED adminandClaude Fable 5 2026-09-11 14:12:46 +08:00
  • 75877ecab7 fix(r4-27/32/47b/52a): 前端四项缺陷修复 admin 2026-09-11 13:57:00 +08:00
  • 7840527f82 fix(bioflow): 路径卡确认创建后事件断链——任务 201 创建但 UI 无反馈 admin 2026-09-10 21:14:24 +08:00
  • 206f92e275 docs(debug): r3 缺陷记录文档(13 项+复测 4 项+部署 6 缺口,含根因/修复/时间/验证) bugfix-r3-20260910 admin 2026-09-10 20:38:11 +08:00
  • 39120b985f docs(deploy): §5c 补 r3 实测关键 env(设备模式开关/LLM 阶段四键/8093 主上游提醒) admin 2026-09-10 20:10:22 +08:00
  • f7188bed05 fix(deploy): 索引校验按标签+属性过滤(neo4j 自动命名,按名匹配永远为空) admin 2026-09-10 20:09:49 +08:00
  • 2fbbd3ee1f fix(deploy): 补入 run_methodology_batch.py(LLM 方法学提取阶段,176 部署暴露的缺失) admin 2026-09-10 19:38:36 +08:00
  • 6cddda7afd Merge branch 'debug/backend' into feature/bioflow-conversation-orchestration admin 2026-09-10 18:23:06 +08:00
  • 2150b28bf6 Merge branch 'debug/frontend' into feature/bioflow-conversation-orchestration admin 2026-09-10 18:23:06 +08:00
  • b497aec007 test: r3 定点复测结论附录(4 项缺陷复测通过) adminandClaude Fable 5 2026-09-10 18:13:49 +08:00
  • ad248cf6a8 fix(backend): r3-47-01 DOCX 包裹层递归遍历 + r3-42-01 内置模板 key 回退语义 Debug-2 BackendandClaude Fable 5 2026-09-10 18:03:45 +08:00
  • 53069d4940 fix(ui): 复测缺陷 r3-07-01/r3-52-02 + b3 测试债 adminandClaude Fable 5 2026-09-10 18:01:01 +08:00
  • 772c7cd688 fix(backend): r3 七项缺陷修复——图片预算/neo4j normalized/超时分流/mineru 加固/检索降级/DOCX 同源/docgen 异步任务化 Debug-2 BackendandClaude Fable 5 2026-09-10 16:46:48 +08:00
  • 671783eb1e fix(ui): r3 前端 10 项缺陷修复(#7/#27/#28/#31/#39/#40/#42/#47b/#52/#55) adminandClaude Fable 5 2026-09-10 16:17:11 +08:00
  • 21063af703 docs(deploy): §5c MinerU CPU 裸部署 + §5d embedding 裸部署固化(176 实测) adminandClaude Fable 5 2026-09-10 15:34:13 +08:00
  • c53fe9e09d test: 176 手工测试 13 项缺陷验收用例(r3) adminandClaude Fable 5 2026-09-10 14:44:44 +08:00
  • f46319497d docs(deploy): §6.7 功能自测五项(部署完成必须实跑,176 实测沉淀) adminandClaude Fable 5 2026-09-09 09:52:11 +08:00
  • a57c1994e8 feat(deploy): 176 部署完成与启动脚本可移植化 adminandClaude Fable 5 2026-09-09 01:01:22 +08:00
  • e151f675f1 feat(qa-db): QA数据库裸进程标准(deploy/qa-db五脚本+守卫去版本锁定+打包/文档/Excel同步) adminandClaude Fable 5 2026-09-08 17:59:53 +08:00
  • acf5b734fa feat(deploy): nginx 80 端口代理章节+模板+BFF 改绑 127.0.0.1(仅新增修改,未真实部署) adminandClaude Fable 5 2026-09-08 15:15:21 +08:00
  • 105b9c8427 docs: 编译→打包→部署→质检全流程手册(agent 自动执行版) adminandClaude Fable 5 2026-09-08 01:27:23 +08:00
  • 7b63765d69 chore(deploy): vstore 编译硬化纳入打包流水线——目标机不再出现向量库明文代码 adminandClaude Fable 5 2026-09-08 01:25:44 +08:00
  • dbe2037116 chore(deploy): 向量化本地模型(Ollama+bge-m3)纳入部署脚本 adminandClaude Fable 5 2026-09-08 00:46:31 +08:00
  • 5931ddca5e test(priv): R3 轮次报告——BUG-PRIV-R2-01 关闭,缺陷清零;用例表 v1.3(LLM 收到问题与参考资料) adminandClaude Fable 5 2026-09-08 00:19:38 +08:00
  • 92e2754583 fix(priv): R2 严重缺陷——ask_private 的 LLM 调用拼入用户问题(原实现只传检索上下文致真命中被自谦改判误杀) adminandClaude Fable 5 2026-09-07 23:40:55 +08:00
  • b68ebe6445 test(priv): R2 轮次报告——R1 三缺陷关闭,发现严重缺陷 BUG-PRIV-R2-01(LLM 未收到 question 致真命中被自谦改判误杀) adminandClaude Fable 5 2026-09-07 23:38:52 +08:00
  • 04c08e8339 fix(priv): R1 缺陷修复——信封包 ok 键 + 空 question 422 + 自谦答语确定性改判 hit:false adminandClaude Fable 5 2026-09-07 23:07:19 +08:00
  • 19e928ba93 test(priv): R1 轮次报告——101+225+396 全绿,3 个一般级缺陷(信封缺 ok/空 question 未 422/底噪越线),38 errors 确证预存基线 adminandClaude Fable 5 2026-09-07 23:03:19 +08:00
  • 6bf11821c1 test(priv): T1 骨架修正——L1-01 笔误 + 7 处执行期缺陷(vi.mock TDZ/恒真断言/vault 夹具路径隔离/mock 边界对齐 A1 真实实现) adminandClaude Fable 5 2026-09-07 22:41:36 +08:00
  • e783a26be6 feat(priv): A1 实现私有资料问答 P1-P3——vstore chunk 索引 + BFF 私有问答端点 + 前端并行块与管理界面 adminandClaude Fable 5 2026-09-07 22:22:22 +08:00
  • 9e5367b268 test(priv): T1 用例基线 92 条——100% 覆盖 FR-PRIV 调整内容 + 双向追溯矩阵 + 测试骨架 adminandClaude Fable 5 2026-09-07 21:42:22 +08:00
  • dea46402e8 docs(priv): 阶段0 私有资料问答文档先行——PRD §17 FR-PRIV-001~008 + UI_SPEC §9 + 原始测试计划 + 团队上下文 + A1/T1 任务书 adminandClaude Fable 5 2026-09-07 21:20:35 +08:00
  • 759427b759 chore(deploy): 启动脚本绑定策略统一——8090 默认 0.0.0.0,其余服务默认 127.0.0.1 adminandClaude Fable 5 2026-09-07 18:55:42 +08:00
  • 5457579d02 fix(bioflow): BFF Block union 补 7 种生信块类型,修复骨架消息持久化 422 adminandClaude Fable 5 2026-09-07 18:43:01 +08:00
  • bd011650f6 fix(bioflow): 意图分流收窄 v1.1——仅明确分析指令进生信流,问答句一律 qa adminandClaude Fable 5 2026-09-07 18:13:52 +08:00
  • dd0cd01e61 feat(bioflow): 16 个非内核环境镜像化(plantai-env-*:20260906) + playbook 回填 adminandClaude Fable 5 2026-09-06 11:07:23 +08:00
  • 06b4abf28b fix(bioflow): P7 文件引导闭环修复——上传/路径登记后自动续跑(retry_after_files,await_inputs 重推,非等待态 no-op) adminandClaude Fable 5 2026-09-06 09:17:17 +08:00
  • 0995dcbe77 docs(bioflow): playbook 补 §10 BIOFLOW_DATA 容器内软链断链陷阱(P7 终验实测) adminandClaude Fable 5 2026-09-06 09:12:48 +08:00
  • 4f2c3ed986 docs(bioflow): 手工测试方法手册——14 节覆盖七项引导+面板+三形态+金标+端到端主线 adminandClaude Fable 5 2026-09-06 08:58:17 +08:00
  • a38e7707dd fix(bioflow): P7 部署加固——restart.sh source .env(llm.py 裸读 DOCGEN_LLM_* 环境变量先例同 bff_restart) adminandClaude Fable 5 2026-09-06 08:50:00 +08:00
  • 36c205c620 test(bioflow): T2 R2 复测轮——5 缺陷修复确认全过、缺陷清零(后端 170+前端 373 全绿、金标复跑全等、红线空) adminandClaude Fable 5 2026-09-06 08:41:00 +08:00
  • d3110c4319 fix(bioflow): R1 缺陷修复——反代 aread 时序(uvloop 大响应体 502)/flow_store 启动接线(ask 引用块)/events snapshot dict 保真 adminandClaude Fable 5 2026-09-06 08:36:08 +08:00
  • a3142d2a05 test(bioflow): T2 R1 轮次报告+TL 用例修订——catalog 口径与权威数据一致(75/21)、INTENT-044 交互式补充转 P7 adminandClaude Fable 5 2026-09-06 08:18:20 +08:00
  • 35bf6889a4 fix(bioflow): 部署期 P1 双缺陷修复——context 值导入脱钩 init_context 重绑定(路由层动态取模块全局)+BFF 反代非 SSE 透传 bytes 500(改纯透传 Response) adminandClaude Fable 5 2026-09-06 07:22:01 +08:00
  • 0c98b54b6a chore(bioflow): compile_sdk 白名单补 bioflow_proxy.py——SSE 流式反代属断流崩溃根治同型高危点(TL 运维,2026-09-03 先例) adminandClaude Fable 5 2026-09-06 06:56:10 +08:00
  • 3cf44b4a61 fix(bioflow): 部署加固——生信服务 SSE 路由入编译白名单(断流崩溃根治同款)+bff_restart 杀进程按端口精确(防误杀 8098) adminandClaude Fable 5 2026-09-06 06:54:45 +08:00
  • 485e844160 feat(bioflow): P2-P5 前端编排闭环——五卡片+两面板+意图分流+探活显隐(373 用例全绿,红线零改动)+P3 docgen 增量合入(bioflow_report 模板+fig:// 渲染,预览与 PDF 导出同源) adminandClaude Fable 5 2026-09-06 06:43:25 +08:00
  • b0c802095c feat(bioflow): P1 生信服务地基——bioflow_service 8098 独立部署树(12 服务模块+3 路由层+SQLite 三表+166 用例全绿)+BFF 流式反代/报告登记(BIOFLOW_ENABLED 开关默认关) adminandClaude Fable 5 2026-09-06 05:36:10 +08:00
  • 03b11dedda chore(bioflow): 删除副本中 13 个 dev 历史备份文件(.bak/.orig)——副本全树零硬编码 adminandClaude Fable 5 2026-09-06 03:00:09 +08:00
  • 99e774a2a0 feat(bioflow): P0 内核移植与 8 环境镜像——副本 100 处适配零硬编码/8 镜像验证清单全过/金标 24 ID diff 空/TL 复查 4 项修正(gfpy 储备裁决+镜像备份排除+冒烟零硬编码+金标固化) adminandClaude Fable 5 2026-09-06 02:59:26 +08:00
  • 486670b75d docs(bioflow): 镜像构建方法 playbook(8 环境→8 镜像，其余 18 环境工程后补做) + A1 任务书 v2 + 团队上下文 8 镜像终态 adminandClaude Fable 5 2026-09-05 20:45:03 +08:00
  • 644ac2fb40 docs(bioflow): A2 任务书追加 FlowStore 对接契约；契约文档计数 59→60（dev 新增 wgs_impute 契约） adminandClaude Fable 5 2026-09-05 17:49:02 +08:00
  • adb97f49a8 feat(bioflow): P6 流程知识库——flow_docs 集合(FlowStore 幂等入库+混合检索) + 三语料切块入库脚本 + 50 条评估集(94% 通过) adminandClaude Fable 5 2026-09-05 17:48:41 +08:00
  • 9c0da9bc6a docs(bioflow): A4 语料副本入库 + A1/A4 任务书勘误（docker build 自测权限、语料源路径） adminandClaude Fable 5 2026-09-05 16:44:18 +08:00
  • 4f5d0d607b test(bioflow): 阶段0-T1 测试用例——749 条 TC-BIO + FR-BIO 双向追溯矩阵 + UI 动作矩阵 + 意图分流词典 adminandClaude Fable 5 2026-09-05 16:44:01 +08:00
  • 64bc30365c docs(bioflow): 阶段0-PM 文档——PRD 新增 FR-BIO-032、UI_SPEC 生信组件规格、TEST_PLAN 生信分层与600门禁、团队上下文与六份任务书 adminandClaude Fable 5 2026-09-05 16:09:48 +08:00
  • 4749f77544 fix(docgen): 两批手工测试修复——上传/预览/检索 + 护栏/导出/命名/编辑还原/二次预览 jerryandClaude Fable 5 2026-09-05 15:49:54 +08:00
  • 8467dec3a8 fix(bff): 断流崩溃根治——SSE 取消链模块明文化 + 团队文档归档 jerryandClaude Fable 5 2026-09-03 21:13:56 +08:00
  • 5888e1d5c1 test(docgen): 测试治理资产——131 条验收用例 + 三轮留痕 + E2E/回归套件 jerryandClaude Fable 5 2026-09-03 21:13:47 +08:00
  • 5db3ead73e feat(docgen): doc_writer 能力全链——vstore 独立服务 + BFF docgen 路由 + 前端文档工作台 jerryandClaude Fable 5 2026-09-03 21:13:37 +08:00
  • aab24d2f85 feat(capabilities): 面板开关唯一入口——env 总闸改熔断语义(默认放行) jerryandClaude Fable 5 2026-09-02 23:29:51 +08:00
  • fbb6b43646 feat(ui): 设置改中央模态框(主窗口高斯模糊背景) jerryandClaude Fable 5 2026-09-02 22:48:05 +08:00
  • 5cb15b0fac fix(ui): 设置面板打开时拉取清单 + Superpowers 进开关行 jerryandClaude Fable 5 2026-09-02 22:31:51 +08:00
  • 60a81083c7 fix(ui): 设置抽屉移出 drawersMode 模板——桌面档点齿轮无反应的根因 jerryandClaude Fable 5 2026-09-02 22:27:48 +08:00
  • fac6b38998 fix(ui): 展开态横排图标居中 jerryandClaude Fable 5 2026-09-02 22:24:31 +08:00
  • c8d09d0016 fix(ui): 展开态图标轨横向排布居底(折叠态保持纵向居中) jerryandClaude Fable 5 2026-09-02 22:21:51 +08:00
  • c402407a1c fix(ui): 左栏图标轨展开/折叠同元素沉底 + 折叠箭头移右边线垂直居中 jerryandClaude Fable 5 2026-09-02 21:58:55 +08:00
  • bbd5db2315 feat(capabilities): S6 Superpowers+S7 终验(文档/humanizer CJK 修复/验收脚本) jerryandClaude Fable 5 2026-09-02 18:27:41 +08:00