openwiki-wiki/sources/git-repo.md

type, title, description, resource, tags, timestamp

type	title	description	resource	tags	timestamp
Reference	Git repo — evidence index (Obsidian vault, Robin)	Compact manifest of Robin's Obsidian vault + the local OpenWiki wiki, ingested through the local git-repo connector. Two configured repos: obsidian-vault at /home/ldw/workspace (main branch, HEAD 297f106d, 2026-08-12) and openwiki-wiki at /home/ldw/.openwiki/wiki (main branch, HEAD 1737454, 2026-08-13). This page is a navigation index — content ingestion (paper deep reads, sales scripts, customer files) happens via the Hermes skill and RAGFlow, not here.	~/.openwiki/connectors/git-repo/config.json	git-repo evidence vault openwiki-wiki source 2026-08-13	2026-08-13T18:08:25Z

Git repo — evidence index (Obsidian vault + OpenWiki wiki)

Compact manifest of the two local git repos configured under the git-repo connector: Robin's Obsidian vault and the local OpenWiki wiki. This page is a navigation index — content ingestion (paper deep reads, sales scripts, customer files) happens via the Hermes skill and RAGFlow, not here. Keep this page terse and structural; it should help locate things in the vault, not summarize their content.

Connector

• Source instance: git-repo-1 (configured under ~/.openwiki/connectors/git-repo/config.json)
• Configured repos:
  • obsidian-vault → /home/ldw/workspace (Robin Obsidian vault, on main, HEAD 297f106d2b137af3480261052ff080cbc48d5b48 as of 2026-08-12 — unchanged this fetch).
  • openwiki-wiki → /home/ldw/.openwiki/wiki (the OpenWiki knowledge base itself, on main, HEAD 1737454ad1b4f06ff9958cc9256c0c611262e44a as of 2026-08-13).
• Auth: local paths only — no remote, no credentials.
• Latest fetch: 2026-08-13T18:08:25Z (raw manifest ~/.openwiki/connectors/git-repo/raw/2026-08-13T18-08-25-206Z/manifest.json).
• Source config: ~/.openwiki/connectors/git-repo/config.json
• State: ~/.openwiki/connectors/git-repo/state.json records latestIds per repo; the 2026-08-13 fetch observed vault HEAD unchanged at 297f106d (no new vault commits in the 24-hour window — the 2026-08-12 Liang 2026 cluster of 4 commits is still the most recent vault activity) and bumped openwiki-wiki from c57ead4 (2026-08-12) to 1737454 (2026-08-13, 2 new commits: 8ddc6d9 daily update 2026-08-13 + 1737454 sources-sync 2026-08-13).

obsidian-vault — working-tree status (2026-08-13)

• Branch: main

• HEAD: 297f106d2b137af3480261052ff080cbc48d5b48 (vault HEAD unchanged since the 2026-08-12 fetch — 0 new commits in the 24-hour window).

• Ahead of origin/main: 13 commits new since 2026-08-03 fetch (same as the 2026-08-12 fetch — the 2026-08-12 Liang 2026 cluster of 4 commits is still the most recent vault activity).

• Dirty: yes — the 2026-08-12 untracked file set extended by 2 new untracked files: (a) __pycache__/literature_deepread_v6.cpython-312.pyc — Python compiled cache file from running literature_deepread_v6.py, build noise, ignored; (b) 04-Literature/Deep-Reads/Review/zhou2023_computer_vision_microfluidics.md — first entry in a new Review/ subfolder under 04-Literature/Deep-Reads/ (the file is untracked — Robin has not yet committed it). This is structurally meaningful — see the Notable-entity section below.

• Working-tree status (raw manifest, abbreviated):

  Status	Path
  A (committed 2026-08-12, e542c977)	04-Literature/Deep-Reads/Liver/2026-08-12_Liang_2026_SciRep_liver_organoid_fibrosis_platform.md — NEW external evidence (Liang Y et al. Sci Rep 2026 DOI 10.1038/s41598-026-42990-2, PMID 41857098, 3 轨道 Hep-Orgs + Cho-Orgs + HSC, DAPT+Dex P1-P10 长程成熟, TGFβ 激活体外纤维化模型; Wiki.js Id=1716, NocoDB Id=770, SeaFile PDF + 7 真图)
  M (committed 2026-08-12, 8699a154)	same Liang 2026 file — page 946 9 项 SOP 重写版 (105+/122- lines)
  M (committed 2026-08-12, aacba7aa)	same Liang 2026 file — frontmatter title 改中文 + 与正文 H1 一致 (1-line touch)
  M (committed 2026-08-12, 297f106d)	same Liang 2026 file — 修齐 page 934 标杆 (H1 去括号/元数据用bold/📄PDF文件名, 5+/4- lines)
  M (committed 2026-08-10)	04-Literature/Deep-Reads/Organoid/2026-07-29_Organoids_disease_modeling_treatment_2026_review.md (Phase A batch frontmatter — volume / pages / authors array; also touched by 6b717aef for related back-link)
  M (committed 2026-08-10)	CelVivo_精读报告_04_bioRxiv_PAH_Metabolomics.md (Phase A batch frontmatter — volume / pages / authors array; also touched by 6b717aef)
  M (committed 2026-08-10)	obsidian-vault/04-Literature/Deep-Reads/3Brain/shin-2024-thalamocortical-organoids-22q11ds.md (Phase A batch frontmatter; also touched by 6b717aef)
  M (committed 2026-08-10)	obsidian-vault/04-Literature/Deep-Reads/Cells/fernandez-vallone-2026-thsdc-brain-organoids.md (Phase A batch frontmatter; also touched by 6b717aef)
  M (committed 2026-08-10)	obsidian-vault/04-Literature/Deep-Reads/NBME-ShapeConformal/literature-liu-2026-nbme-shape-conformal-organoid.md (Phase A batch frontmatter; also touched by 6b717aef)
  M (committed 2026-08-10)	类器官综述_CMOS_HD_MEA_类器官电生理_2026-06-05.md (Phase A batch frontmatter; also touched by 6b717aef)
  M (committed 2026-08-10)	04-Literature/Deep-Reads/wang2024-org-on-chip.md (方案 2 样品 — 6 frontmatter fields + 7 alt descriptions; also touched by 6b717aef)
  A (committed 2026-08-10)	04-Literature/Deep-Reads/MOCs/MOC-类器官与3D培养.md (方案 1 — first MOC file; 95 lines; 沙牛《AI 时代的 Obsidian 公开课》课时 1 pattern; related: already lists [[MOC-3Brain-HD-MEA]] as a forward link)
  ?? (untracked)	02-Clients/Agents/全国经销商地图-2026-0807.md + 7 区域 *2026-0807.md files (8-07 distributor baseline refresh — see below)
  ?? (untracked)	04-Literature/Deep-Reads/Brain/2026-08-06_Parfitt_GM_et_al_NatCommun_2024_DJ1_LOF_midbrain_organoid_PD.md
  ?? (untracked)	Liu2026_NBME_shape_conformal_organoid.md
  ?? (untracked)	Miao2025_Cell_v2.md
  ?? (untracked)	Miao2025_Cell_vascularized_organoid.md
  ?? (untracked)	Microbioreactor_2026_Rosero_FrontBioeng.md
  ?? (untracked)	__pycache__/literature_deepread_v6.cpython-312.pyc — NEW (2026-08-13) Python compiled cache file (build noise from running literature_deepread_v6.py, ignored)
  ?? (untracked)	dify精读进度-20260805.md
  ?? (untracked)	literature_deepread_v6.py
  ?? (untracked)	obsidian-vault/04-Literature/Deep-Reads/Review/zhou2023_computer_vision_microfluidics.md — NEW (2026-08-13) first entry in the new Review/ subfolder (Zhou 2023 computer vision + microfluidics — Robin deep-read in progress, untracked, future-commit candidate)
  ?? (untracked)	obsidian-vault/rustdesk-selfhosted-2026-08-05.md
  ?? (untracked)	retinal_organoid_deep_read_2026-08-07.md
  ?? (untracked)	文悦精读流水线.yml + v2/v3/v4/v5-clean variants

  The 8 untracked *2026-0807.md files in 02-Clients/Agents/ are the 2026-08-07 distributor baseline refresh — see the "Distributor map refresh (2026-08-07)" section below for synthesis. The 2 NEW untracked files this fetch are: (a) Review/zhou2023_computer_vision_microfluidics.md — first entry in a new deep-read subfolder (see Notable-entity entry below); (b) __pycache__/...pyc — build noise, ignored.

Recent commits (latest first)

Date	Hash	Note
2026-08-12	297f106d	literature: 修齐 page 934 标杆 — H1 去括号 / 元数据用 bold / 📄PDF 文件名 (Liang 2026 v3)
2026-08-12	aacba7aa	literature: frontmatter title 改中文 + 与正文 H1 一致 (Liang 2026 v2)
2026-08-12	8699a154	literature: Liang 2026 Sci Rep liver organoid fibrosis - page 946 9 项 SOP 重写版 (Liang 2026 v2; 105+/122- lines; core-question / research-model / 6-finding 3-stage tables / 6 SeaFile Fig / "与我们的产品" 4-star / 4-paper refs / 转发语 / 完整落款)
2026-08-12	e542c977	literature: Liang 2026 Sci Rep liver organoid + fibrosis platform (Id=770 NocoDB) — NEW external evidence (3 轨道 Hep/Cho/HSC + DAPT+Dex P1-P10 长程成熟 + TGFβ 激活 HSC 体外纤维化模型; 7/7 Ollama qwen2.5vl 视觉审核通过; SeaFile 7/7 公网 200 验真; 飞轮 PATCH comm Id=87 + product Id=10 + NocoDB PATCH 770)
2026-08-10	d97b39ed	Phase A 批量：6 篇精读加 Front Matter 6 字段 (doi/journal/year/volume/pages/authors/pmid) — Organoids 2026 review + CelVivo PAH + Shin 2024 + Fernandez Vallone 2026 + Liu 2026 + 类器官综述_CMOS_HD_MEA
2026-08-10	3b929c2f	wang2024 方案 2 样品：6 个 Front Matter 字段 + 7 张图加 alt 描述 — wang2024-org-on-chip.md
2026-08-10	6b717aef	MOC 方案 1 样品：建 1 个 MOC + 7 篇加 Front Matter (related: 反链) — first MOC MOC-类器官与3D培养.md created; 7 papers got related: back-link frontmatter
2026-08-09	a14758b1	精读: Wang 2024 Theranostics 类器官-芯片综述 (7 张配图 + Wiki.js ID 1700) — first Organoid-on-Chip 综述 / 7 大主题板块
2026-08-08	d7df3830	cells paper v2: 双 H1 + 5张真图 (xref) — Fernandez Vallone 2026
2026-08-08	6c16dc05	精读: Fernandez Vallone 2026 Cells hiPSC 脑类器官 THSDC
2026-08-07	65fef021	fix: v2 with SeaFile links — Microbioreactor 2026
2026-08-07	18bee69f	feat: Microbioreactor design 2026 Front Bioeng Biotechnol Mini Review (PMID 42516424)
2026-08-08	1614ccf9	fix: v11 - forwarding per skill template (Liu 2026)
2026-08-08	a7cfb8a4	fix: final - per Research SOP strict + clean internal traces (Liu 2026)
2026-08-08	d1e8c6dd	fix: v5 - per Research SOP + page 946 benchmark (Liu 2026)
2026-08-08	b7882b81	fix: v4 - add forward message (Liu 2026)
2026-08-08	84e93402	fix: v3 - Fig 3 restored from page 6, audit table removed (Liu 2026)
2026-08-08	a69ad9c4	literature: liu 2026 NBME shape-conformal organoid
2026-08-08	1c05eee7	literature: miao 2025 cell organoid vascularization v2
2026-08-08	a0810433	精读: Sharma K 2026 Cell Stem Cell 视网膜类器官血管化RGC存活与功能成熟
2026-07-29	2341383e	fix(hook4): 湖北行去掉 'Robin 8 月出差高发地' 残留 (Robin 真实出差意图)
2026-07-29	aa8fd2bc	fix(hook4): 改标题 '下次出差' → '按 xlsx 缺口', Robin 后续自规划出差路径
2026-07-29	4b237a82	feat(hook): 4 个经销商管理 Hook 升级
2026-07-29	b9da34dc	fix(literature): Organoids 2026 综述 - 按 literature-deep-read-review SOP 重写
2026-07-29	0cd44fa0	feat(literature): 精读 Organoids for disease modeling and treatment 2026 综述
2026-07-28	642e3dc6	feat(agent): 新增代理商技术同事董慧群档案 (推 CelVivo 产品)
2026-07-28	2718e46d	feat(literature): Parate 2020 SCRT — PEMF 增强 MSC 旁分泌功能促软骨再生
2026-07-28	032de92f	feat: 精读 Lee 2025 Front Vet Sci 犬脂肪源 MSC 3D 球体

The 2026-08-12 cluster is a single-paper LDR cycle on Liang Y et al. (2026) Sci Rep DOI 10.1038/s41598-026-42990-2 — a mouse liver organoid platform paper from 澳门科技大学 + 香港大学 that establishes: (i) single-tissue 3-轨道 (Hep-Orgs + Cho-Orgs + HSC) separation; (ii) DAPT (Notch 抑制) + Dexamethasone for P1-P10 长程 稳定成熟 (ALB / PAS / LDL / CYP all stable across 10 passages — single DAPT only sustains P5); (iii) TGFβ 5-7 day activation of qHSC → aHSC (Acta2 / Col1a1 上调); (iv) aHSC 共培养诱导 Hep-Orgs EMT (Snail / Twist / Vimentin ↑; ALB / CK8 ↓; Lgr5 / EpCAM ↓; Ki67 ↓) = 体外肝纤维化模型. The 4 commits are the same single file 04-Literature/Deep-Reads/Liver/2026-08-12_Liang_2026_SciRep_liver_organoid_fibrosis_platform.md walked through Robin's standard 3-stage SOP cycle: (a) e542c977 adds the file (186 lines, single-pass entry); (b) 8699a154 rewrites the same file to the page 946 9 项 SOP 标杆 (105+/122- lines, adding the 6 核心发现 三段式 tables + 6 SeaFile Fig + "与我们的产品" 4-star table + 4-paper 参考文献 + 转发语 + 完整落款 + SeaFile PDF link); (c) aacba7aa + 297f106d are the page 934 修齐 micro-revisions (frontmatter title 改中文 / H1 去括号 / 元数据用 bold 单行 / 📄PDF 文件名 with actual filename) — the same alignment Robin applied across the 2026-08-11 OVB-类器官 cycle. The "与我们的产品" 4-star table on the paper lists CelVivo ClinoStar ⭐⭐⭐⭐ (P1-P10 长程扩增对应 旋转培养 30+ 天无剪切; HSC 静止态在模拟微重力下 7+ 天维持) + CelVivo ClinoReactor ⭐⭐⭐⭐ (单组织 3 轨道分通道灌流; TGFβ 时间程序 精确切换) + CelVivo PhaseHolographic 成像 ⭐⭐⭐ + 3Brain HD-MEA ⭐⭐⭐ (肝-神经互作延伸).

No new vault commits landed in the 2026-08-12T18:08Z → 2026-08-13T18:08Z window — the vault HEAD is unchanged at 297f106d. The 2026-08-12 Liang 2026 cluster remains the most recent committed vault activity. One new uncommitted file appeared in the working tree this fetch: 04-Literature/Deep-Reads/Review/zhou2023_computer_vision_microfluidics.md — the first entry in a new Review/ subfolder (see the Notable-entity section below).

The 2026-08-10 cluster is a frontmatter-hygiene + MOC-discipline sprint rather than new external evidence: (a) Phase A batch (d97b39ed) standardized 6 deep-read notes with the structured 6-field frontmatter (doi / journal / year / volume / pages / authors array / pmid) that the prior notes had been missing; (b) 方案 2 样品 (3b929c2f) added 7 image alt descriptions on top of the 6-field frontmatter for wang2024-org-on-chip.md; (c) MOC 方案 1 样品 (6b717aef) created Robin's first Map-of-Content file (04-Literature/Deep-Reads/MOCs/MOC-类器官与3D培养.md, 95 lines, 沙牛《AI 时代的 Obsidian 公开课》课时 1 pattern) and added related: back-link frontmatter to 7 papers. The MOC's own related: list already names the next planned MOC — [[MOC-3Brain-HD-MEA]] — plus [[02-Clients/Agents/_known_associations]] and [[02-Active-Deals/CellShot-TriArm-Demo-计划-v2-老师版-2026-07-20]], so the MOC pattern is expected to extend.

The 2026-08-08 cluster (prior manifest) was the literature flywheel-sync output (Liu 2026, Miao 2025 v2, Sharma 2026) — already indexed on /sources/literature.md. The 2026-08-07 / 2026-08-08 micro-revisions on Liu 2026 (a69ad9c4 → 1614ccf9) are the 8-step SOP rewrite cycle (v3 → v11) Robin re-ran on the same paper.

openwiki-wiki — working-tree status (2026-08-13)

• Branch: main
• HEAD: 1737454ad1b4f06ff9958cc9256c0c611262e44a (the chore(sources): refresh NocoDB/SeaFile/Wiki.js/RAGFlow counts (sources-sync 2026-08-13) commit recorded in this run's window).
• Working-tree state: 8 modified files (uncommitted — pending next CLI orchestration). The dirty file set is the synthesis-layer edits from this same 24-hour window's prior run:
  • Hackernews-1 (2026-08-13T18:00Z, prior run) — MCP Memory using OKF
    • DeepSeek Harness + Codex in ChatGPT Linux desktop refresh on /themes.md agent-memory-architecture Last seen → 2026-08-13; new "Latest update — 2026-08-13 18:00 UTC" section on /sources/hackernews.md; updated quickstart / index status; tag bump. The HN-1 synthesis edits landed in commit 8ddc6d9 (daily update 2026-08-13) — but the residual 8 files in the dirty set carry the in-progress edits from the current git-repo-1 run that will land in the next CLI orchestration commit.
  • Daily source-sync (2026-08-13) — 1737454 source-sync touched /sources/nocodb.md / /sources/ragflow.md / /sources/seafile.md / /sources/wikijs.md (4 source counters incremented). The other 4 dirty files (.last-update.json, quickstart.md, sources/hackernews.md, themes.md) carry the synthesis-layer edits from the prior HN-1 run that landed after 1737454 committed — they were touched during the HN-1 2026-08-13T18:00Z synthesis pass and are pending the next CLI commit.
• Auth: local path only — no remote, no credentials.

Recent commits (latest first)

Date	Hash	Note
2026-08-13	1737454	chore(sources): refresh NocoDB/SeaFile/Wiki.js/RAGFlow counts (sources-sync 2026-08-13)
2026-08-13	8ddc6d9	chore: daily update 2026-08-13 (commitment + quickstart + sources/literature + sources/web-search + themes/01-organoid-equipment + themes/05-robin-research from the HN-1 2026-08-13 synthesis pass)
2026-08-12	c57ead4	chore(sources): refresh NocoDB/SeaFile/Wiki.js/RAGFlow counts (sources-sync 2026-08-12)
2026-08-12	431ee6a	chore: daily update 2026-08-12
2026-08-11	b64ae41	lit: PMID 41536916 Bioactive Materials AIVOs 综述 (Wiki.js 1711)
2026-08-11	523ee7f	lit: PMID 41686639 Cell Reports TNBC DEO + ROCK (Wiki.js 1710)
2026-08-11	9be4f55	lit: PMID 41909700 Front Immunol 2026 类器官-小胶质细胞综述 (Wiki.js 1709)
2026-08-11	cc69ece	lit: PMID 42041571 v4 - 按 literature-deep-read-research 9 项强制格式
2026-08-11	b4bc8d9	lit: PMID 42041571 修正 - 真实PDF + 10张真图链接
2026-08-11	12480ab	lit: 修正 wiki_url 到真实内网地址
2026-08-11	cdc59c5	lit: PMID 42041571 OVB-organoids vs cerebral organoids Cells 2026
2026-08-11	2bcde39	chore(sources): refresh NocoDB/SeaFile/Wiki.js/RAGFlow counts (sources-sync 2026-08-11)
2026-08-11	7556e31	chore: daily update 2026-08-11
2026-08-09	dde053a	auto: 2026-08-09 Wang 2024 Theranostics OrgOC 综述精读入口
2026-08-09	3267338	chore: daily update 2026-08-09
2026-08-09	06f60e1	chore(sources): refresh NocoDB/SeaFile/Wiki.js/RAGFlow counts (sources-sync 2026-08-09)
2026-08-08	c94940c7	feat: add Microbioreactor 2026 v4 (PMID 42516424, ID 1696)
2026-08-08	7f65024	feat: add Microbioreactor 2026 v3 (PMID 42516424)
2026-08-08	ea4f14a	feat: add Microbioreactor 2026 v2 (PMID 42516424)
2026-08-08	a193e46	feat: add Microbioreactor 2026 (PMID 42516424) deep-read entry
2026-08-08	bf90a91	fix: liu 2026 wiki link to main path
2026-08-08	cf1dbe0	fix: liu 2026 final link
2026-08-08	26efd2f	fix: liu 2026 v5 link
2026-08-08	e18993a	fix: liu 2026 v4 link
2026-08-08	b206bd9	fix: liu 2026 v3 link
2026-08-08	c26dbdf	fix: liu 2026 wiki link to v2
2026-08-08	703c3d4	literature: liu 2026 NBME shape-conformal organoid
2026-08-08	1b78735	literature: miao 2025 cell v2
2026-08-08	5adc406	chore(sources): refresh NocoDB/SeaFile/Wiki.js/RAGFlow counts (sources-sync 2026-08-08)
2026-08-08	037c5f3	lit: add Sharma K 2026 Cell Stem Cell vRO retinal organoid (PMID 41529691)
2026-08-07	9e80977	feat(openwiki): complete data flywheel activation (2026-08-07)
2026-08-07	45af5a4	chore(sources): refresh NocoDB/SeaFile/Wiki.js/RAGFlow counts (sources-sync 2026-08-07)
2026-08-07	bcd4a4f	chore(sources): refresh NocoDB/SeaFile/Wiki.js/RAGFlow counts (sources-sync 2026-08-07)
2026-08-07	0bbef0f	feat(openwiki v0.3.1 --update): generate themes 4-5 + index.md + themes/ + sources/ index (2026-08-07)
2026-08-07	285c53b	feat(openwiki v0.3.1): add YAML frontmatter + install-id markers from initial init run (2026-08-07)
2026-07-24	3102e96	feat(sources): 全国 261 家经销商地图 (2026-07-24, 不含敏感信息)

The wiki repo is the OpenWiki output itself — it persists across update runs. 2 new wiki-side commits landed in the 2026-08-10T18:08Z → 2026-08-12T18:08Z window: (a) 431ee6a (2026-08-12 +0800 02:00, chore: daily update 2026-08-12) and (b) c57ead4 (2026-08-12 +0800 02:30, chore(sources): refresh NocoDB/SeaFile/Wiki.js/RAGFlow counts (sources-sync 2026-08-12)). Between these 2 commits, the wiki HEAD advanced from 2bc03f3 (2026-08-09 sources-sync) to c57ead4. The intervening 6 wiki commits from 2026-08-11 (7556e31 daily + 2bcde39 sources-sync + cdc59c5 / 12480ab / b4bc8d9 / cc69ece PMID 42041571 OVB-organoids deep-read cycle + 9be4f55 PMID 41909700 Front Immunol + 523ee7f PMID 41686639 Cell Reports TNBC + b64ae41 PMID 41536916 Bioactive Materials AIVOs) are between the prior fetch and this one — they all post-date the prior fetch's HEAD but are already in the new HEAD's ancestry. The Liang 2026 wiki sync has not yet landed (the /sources/literature.md short row is in working tree only); the next wiki commit should add a fuller Liang 2026 row when the synthesis pipeline catches up.

Summary of last 24 hours

Window (UTC)	Vault	Wiki
2026-08-12T18:08:49Z → 2026-08-13T18:08:25Z	HEAD 297f106d → 297f106d (0 new commits; the 2026-08-12 Liang 2026 4-commit LDR cycle remains the most recent vault activity)	HEAD c57ead4 → 1737454 (2 new commits: 8ddc6d9 daily update 2026-08-13 + 1737454 sources-sync 2026-08-13)
Net new external evidence	none on the vault side; 1 new untracked file (Review/zhou2023_computer_vision_microfluidics.md — first entry in a new deep-read Review/ subfolder; uncommitted) + 1 noise file (__pycache__/...pyc, ignored)	none — synthesis layer only (HN-1 2026-08-13 MCP Memory using OKF refresh; the HN-1 synthesis edits landed in 8ddc6d9; this run's edits are pending the next CLI commit)
Untracked → committed migrations	none	none — the 8 dirty files (.last-update.json, quickstart.md, sources/hackernews.md, sources/nocodb.md, sources/ragflow.md, sources/seafile.md, sources/wikijs.md, themes.md) are uncommitted synthesis edits from this run, awaiting the next CLI commit cycle

Vault navigation index

The vault uses a numbered top-level layout. Scripts, caches, and temp* working folders are excluded from this index.

Dir	Purpose	Size hint
01-Active-Sales/	Active sales pipeline files (board + per-account)	6 .md
02-Active-Deals/	Deal-level active docs	1 .md
02-Clients/, 02-Contacts/	Client & contact records	sparse
03-Product/	Product briefs (e.g. 3Brain-Maxwell comparison)	1 .md
03-Resources/Agents/	Distributor / agent profiles	a handful
03-Resources/End-Customers/	End-customer dossiers (3Brain MEA accounts, etc.)	11+ .md
03-Resources/ITX-24h-Host/	Personal 24h Hermes-Agent / AI-workflow host build config (2026-07-31 untracked; not yet on main)	1 .md
04-Literature/	Paper deep-reads + curated vendor PDFs	see breakdown
05-Documents/Contracts/	Signed/pending contracts (Celvivo subfolder)	—
05-Documents/Products/	Vendor-facing product docs (Celvivo/Industrial-Customers)	—
05-Documents/{Proposals,Quotes,Visit-Plans}/	Active commercial docs	—
05-Products/	In-house product briefs (MappingLab family)	2 .md
06-Sales/Competitors/	Competitor tracking	—
06-Sales/Configurations/	Product configurations	—
06-Sales/Content/{FAQ,Pain-Points,PPT-Scripts,Success-Stories,Training-Materials,推文模板}/	Sales content library	—
06-Sales/{Price-List,Product-Mapping,Recommendation-Engine}/	Sales tooling	—
99-Templates/	Reusable Obsidian templates	14 .md
memory/	Daily reports, weekly digests, .dreams, archive	147 .md

04-Literature/Deep-Reads/ breakdown

Markdown file counts per deep-read subfolder:

Subfolder	.md count
Organoid/	659
Celvivo/	142
3Brain/	136
Cellink/	129
Organoid-List/	51
Product-Reports/	38
Brain/	11
Brain-Tumor/	9
Cancer/	6
Liver/	6
Other/	6
RegenMed/	1
3Brain MEA/	3
Cardiac/	2
Kidney/	2
Retinal/	1
Microbioreactor/	1 (new as of 2026-08-07 — Rosero 2026 Front Bioeng Biotechnol)
Cells/	1 (new as of 2026-08-08 — Fernandez Vallone 2026 Cells THSDC)
Review/	1 (new as of 2026-08-13 — Zhou 2023 computer vision + microfluidics, untracked)

Total ≈ 1,205 deep-read notes (+1 from the 2026-08-13 cluster: Review/ zhou2023 computer vision + microfluidics, untracked — only counts once committed). The 2026-08-07 / 2026-08-08 cluster (Microbioreactor

• Cells) remains the most recent committed deep-read additions. CelVivo, 3Brain, Cellink, and the broad Organoid/ bucket cover Robin's product KB per the wiki goal focus areas (类器官培养与设备, 3D 生物打印).

Distributor map refresh (2026-08-07)

Robin uploaded a refreshed b7f52af896c1e3a9.xlsx on 2026-08-07 11:11, producing 8 new *2026-0807.md regional files + a new 全国经销商地图-2026-0807.md index + a new product-association index (_known_associations.md) + a new _meta.json reflecting the 259-dealer tally. The 2026-07-24 baseline (*2026-0724.md × 7 + index) remains in the repo but is now stale.

What changed in the 2026-08-07 baseline vs the 2026-07-24 baseline:

Dimension	2026-07-24 (_meta.json)	2026-08-07 (全国经销商地图-2026-0807.md)
Total dealers	261 (明细表口径)	259 (公司数量汇总)
xlsx sha256	3afd448edcf3a9673848da0de2c554e6a4b22d7329b988695ca242c8bc8c10cf	(re-uploaded with 8-04 同名 + 新增 2-3 家)
Region table	华北 74 / 华东 68 / 华南 62 / 山东 25 / 湖北 19 / 西北 6 / 西南 7	华北 72 / 华东 68 / 华南 62 / 山东 25 / 湖北 19 / 西北 6 / 西南 7
华北 count	74	72 (-2)
Hook 4 output	(none)	4 dealer-management hooks + _known_associations.md

The numeric 261 vs 259 difference is still rooted in the 华北 表 74 vs 汇总 72 discrepancy (two unnamed companies — 序号 63 / 67 — leave the 明细表 2 rows above the 汇总表); the 2026-08-07 baseline carries the same data anomaly plus a new structural artifact: 济南成全生物科技 (曹沛起) is registered in both 华北-2026-0807.md and 山东-2026-0807.md (legitimate cross-region duplicate) — this is the only CelVivo ClinoStar agent in the 259-dealer list and is the thread Robin should follow to close the agent-dong-huiqun-celvivo open question.

_known_associations.md (2026-08-07) — product → dealer mapping

The new index file 02-Clients/Agents/_known_associations.md is the canonical hook-4 output Robin needs to evaluate before the next Chinese-region dealer visit. Key mappings surfaced (5 direct hits):

Product line	261-dealer表 命中	关联客户 / 商机
CelVivo (ClinoStar / ClinoReactor)	济南成全生物科技有限公司 (曹沛起) — registered in both 华北 + 山东 (cross-region, 2 次)	董慧群关联 (待 Robin 确认是否同公司)
FemtoBiomed (CellShot / PROLIVA)	0 direct hits (9X Bio / 汇佰生物 is the direct intermediate, not in the 261 dealer list)	TriArm Therapeutics (翁靖傑, 上海 CGT/CAR-T) — 128 万 Phase1 / 8-10 至 8-14 现场 demo
3Brain (HD-MEA)	0 direct hits	—
Cellink (BIO X)	0 direct hits	—
西南医大 心研所 殴贤红	2 dealers: 成都百乐 (杨军, 钻石级 1亿, Bio-Rad / Sartorius / Oxford Nanopore / Cytek / Leica, 覆盖川渝黔藏) + 成都立德赛 (川渝云贵陕)	(待 Robin 决策)

Hook-4 questions (Robin 优先补全, per _known_associations.md):

1. 董慧群 is which specific technical contact at 济南成全 — or is she at a different CelVivo-代理?
2. 西南医大 殴贤红 → 成都百乐 vs 成都立德赛 — which dealer first?
3. 邓昊伦 (02-Contacts/) 蛇类神经方向 → 3Brain HD-MEA 拜访?
4. 261 dealer 表 has 0 3Brain / Cellink 代理 — is the dealer list incomplete, or does Robin need to actively recruit those dealers?

Log these as a new commitment on /commitments.md (distributor-8-07-association-followup) and as updates to /open-questions.md (the agent-dong-huiqun-celvivo question now partially answered — agency identified but personal contact fields still 待补).

Notable entities surfaced by the vault (structural hints only)

• Review/ subfolder — first entry (2026-08-13, uncommitted) — obsidian-vault/04-Literature/Deep-Reads/Review/zhou2023_computer_vision_microfluidics.md is the first file in a new Review/ subfolder under 04-Literature/Deep-Reads/. The file is untracked (Robin has not yet committed it) so the synthesis is provisional, but the path naming convention (zhou2023_computer_vision_microfluidics.md) matches Robin's standard deep-read naming pattern (author-year-keyword-keyword.md). Likely content: Zhou et al. (2023) computer-vision + microfluidics cross-review paper — a review-type paper (rather than an original-research paper) that Robin is collecting as part of his broader organoid + microfluidic cross-anchor reading list. Structural significance: the Review/ subfolder is new — none of the existing 19 subfolders (Organoid/, Celvivo/, 3Brain/, Cellink/, Organoid-List/, Product-Reports/, Brain/, Brain-Tumor/, Cancer/, Liver/, Other/, RegenMed/, 3Brain MEA/, Cardiac/, Kidney/, Retinal/, Microbioreactor/, Cells/) explicitly segregates review-type papers. A Review/ subfolder signals Robin may be formalizing the review-paper stream separately from the original-research stream. No synthesis routes until the file is committed — the deep-read synthesis page + any vendor-mapping should land after Robin commits the file and the standard 8-step LDR pipeline publishes it to Wiki.js / NocoDB / SeaFile. Track on the next git-repo fetch whether (a) the file is committed, (b) the Review/ subfolder accumulates additional entries, and (c) the standard page-946 9 项 SOP + page-934 修齐 alignment is applied.
• Liang 2026 liver organoid fibrosis platform (2026-08-12) — 04-Literature/Deep-Reads/Liver/2026-08-12_Liang_2026_SciRep_liver_organoid_fibrosis_platform.md (170 lines; [[MOC-类器官与3D培养]] already names this paper via related: back-link). The paper is the net-new external evidence this run (git-repo-1 2026-08-12) brought into the vault; see synthesis at /themes/01-organoid-equipment.md § CelVivo evidence (added 2026-08-12) and /commitments.md liang-2026-celvivo-clinostar-positioning. Single-paper LDR cycle: 4 commits (e542c977 → 8699a154 → aacba7aa → 297f106d) walked Robin's standard 3-stage SOP on the same file (186 lines → 105+/122- page 946 rewrite → page 934 修齐 micro-revisions). The 4-star "与我们的产品" table on the paper lists CelVivo ClinoStar ⭐⭐⭐⭐ (P1-P10 长程扩增对应旋转培养 30+ 天无剪切; HSC 静止态在模拟微重力下 7+ 天维持) + CelVivo ClinoReactor ⭐⭐⭐⭐ (单组织 3 轨道分通道灌流; TGFβ 时间程序精确切换) — parallel CelVivo ClinoStar rating 5 to Miao 2025 v2's ClinoStar rating 5 from the 2026-08-08 flywheel-sync, but for liver organoid (long-term maturation + fibrosis modeling) rather than lung organoid (vascularization). 7 SeaFile Fig (Fig1-7) + 4-paper 参考文献 (Huch 2013 / Huch 2015 / Clevers 2016). Customer-entry: 药企临床前 (抗纤维化药筛) + 临床肝活检中心 (1-2 mg → 3 周药敏) + 学术 PI (2D vs 3D 旋转 efficiency). MOC linkage: the paper's related: field already names [[MOC-类器官与3D培养]] (the first MOC, created 2026-08-10) — confirming the MOC pattern is in active use on real deep-reads.
• CelVivo industrial customers program — a dedicated subfolder under 05-Documents/Products/Celvivo/Industrial-Customers/ holds CelVivo_中国工业 客户开发研究报告 (v1 + v2), 客户管线定位_1页图, and 工业客户开发手册-v3. This is a self-contained CelVivo China commercial effort.
• CelVivo sales training cluster — 06-Sales/Content/Training-Materials/ contains a Robin稿生成通字稿 family (v3–v6), a CelVivo赋能培训 PowerPoint family (v1–v9, depth-flavored edits), and a 销售基础话术包 pair. Versions progress from 基础 → 5大管线 → 深度版 → 终稿修正 → 销量仅看.
• 3Brain end-customer dossier set — 11+ dossiers under 03-Resources/End-Customers/ covering 神经所 (上海), 北京大学, 北京天坛医院, 浙大一附院, 中科院昆明动物所, 西南医科大学, 贵州医科大学, plus TCM accounts at 云南中医药大学 and 天津创新中药.
• CelVivo distributor technical contact (2026-07-28, partially resolved 2026-08-07) — 02-Clients/Agents/董慧群.md is the first profile under the 02-Clients/Agents/ bucket (frontmatter type: agent, role: 代理商技术同事, products: CelVivo ClinoStar / ClinoReactor). The 2026-08-07 _known_associations.md index now identifies the CelVivo dealer as 济南成全生物科技 (曹沛起) — the only ClinoStar agent in the 259-dealer list, registered in both 华北 + 山东. Robin still needs to confirm: (a) is 董慧群 the same agency? (b) phone / WeChat / served end-customers / opportunities. The agency-side gap is now closed.
• ITX 24h host build (first observed 2026-07-31; still untracked) — 03-Resources/ITX-24h-Host/ITX_24h_Host_v18_Config_2026-07-31.md is a top-level bucket first observed between the 2026-07-30T18:13 fetch and the 2026-07-31T18:08 fetch; it remains untracked. Single file: Robin's personal 24h server build plan for hosting Hermes Agent + AI workflow stack — mATX + i5-12400 + DDR4-2666 32G + 板载 Realtek 1Gb + Intel PRO/1000 GT 双网卡 NAS 隔离, ¥2,985.82, 10/11 parts arrived, planned hostnames/roles: 192.168.31.100 (主力机 SSH) vs 10.10.10.254 (RAGFlow / NAS RAGFlow API). Workflow-tooling priority LOW (not vendor-anchored), so it does not earn a /themes.md row, but the build remains a source-anchored personal-infra work item and was promoted to /commitments.md as itx-24h-host-build-2026-q3 (Owner: me) for the post-assembly steps (Ubuntu Server 22.04 install + 双网卡静态 IP + Hermes Agent install + 24h soak test).
• Cells + 2026-08-08 cluster — Fernandez Vallone 2026 Cells (hiPSC brain organoids for THSDC chemical screening, NAMs platform) is the first 04-Literature/Deep-Reads/Cells/ entry. New application domain (toxicology + NAMs) compared to the prior Brain / Cancer / Liver buckets. CelVivo + 3Brain application scenarios called out in tags.
• Microbioreactor + 2026-08-07 cluster — Rosero 2026 Front Bioeng Biotechnol Microbioreactor design Mini Review is the first 04-Literature/Deep-Reads/Microbioreactor/ entry. Cross-vendor adjacent (CelVivo ClinoStar / Cellink BIO X / FemtoBiomed CellShot). Landed in NocoDB Robin_Picked_Papers (PMID 42516424, Wiki.js ID 1696).
• Parfitt 2024 Nat Commun (DJ1 LOF midbrain organoid + PD) — untracked file 04-Literature/Deep-Reads/Brain/2026-08-06_Parfitt_GM_et_al_NatCommun_2024_DJ1_LOF_midbrain_organoid_PD.md (15,972 bytes, mtime 2026-08-06). DJ1 LOF through astrocyte lysosomal dysfunction → AGE → α-syn → DA neuron death; CelVivo + 3Brain application scenarios in tags. Not yet on main; pending Robin commit.
• CellSweep — referenced in the wiki goal focus areas; not surfaced as a top-level vault folder in this run, so it likely lives under Work/ or scripts/ (outside the navigation index).
• Phase A metadata batch + first MOC (2026-08-10) — Robin ran a frontmatter-hygiene + MOC-discipline sprint on 2026-08-10: (a) d97b39ed Phase A 批量 standardized 6 deep-read notes with the 6-field frontmatter (doi / journal / year / volume / pages / authors array / pmid) — Organoids 2026 review + CelVivo PAH Metabolomics + Shin 2024 thalamocortical organoids 22q11ds + Fernandez Vallone 2026 Cells THSDC + Liu 2026 NBME shape-conformal organoid + 类器官综述_CMOS_HD_MEA_类器官电生理_2026-06-05; (b) 6b717aef MOC 方案 1 样品 created the first MOC at 04-Literature/Deep-Reads/MOCs/MOC-类器官与3D培养.md (95 lines, 沙牛《AI 时代的 Obsidian 公开课》课时 1 pattern, type: moc) and added related: back-link frontmatter to 7 papers; (c) 3b929c2f wang2024 方案 2 样品 added 7 image alt descriptions on top of the 6-field frontmatter for wang2024-org-on-chip.md. The MOC's own related: list already names [[MOC-3Brain-HD-MEA]] as the next planned MOC, plus [[02-Clients/Agents/_known_associations]] and [[02-Active-Deals/CellShot-TriArm-Demo-计划-v2-老师版-2026-07-20]], so the pattern is expected to extend. None of the changes add new external evidence — the 6 papers already existed on main; this commit set only normalizes their metadata and cross-references. The MOC creation is the first durable structural artifact on the knowledge-graph side and is worth tracking on the next git-repo fetch.

Synthesis policy for this source

• This run (2026-08-13, git-repo-1 18:08Z): 0 new vault commits in the 24-hour window — the vault HEAD is unchanged at 297f106d (the 2026-08-12 Liang 2026 4-commit LDR cluster remains the most recent vault activity). The only vault-side delta is 1 new untracked file: 04-Literature/Deep-Reads/Review/zhou2023_computer_vision_microfluidics.md — the first entry in a new Review/ subfolder under 04-Literature/Deep-Reads/ (see Notable-entity entry above). 1 noise file (__pycache__/...pyc) is ignored. Wiki-side: 2 new wiki commits landed (8ddc6d9 daily update 2026-08-13 + 1737454 sources-sync 2026-08-13), advancing HEAD from c57ead4 (2026-08-12) to 1737454 (2026-08-13). 8 dirty wiki files in the working tree (.last-update.json + quickstart.md + 4 × sources/{hackernews, nocodb, ragflow, seafile, wikijs}.md + themes.md) are synthesis-layer edits from the prior HN-1 2026-08-13 run that landed after 1737454 committed and are pending the next CLI orchestration commit. Wiki edits this run: (a) /sources/git-repo.md (this page) — refreshed HEAD pointers (vault HEAD unchanged, wiki HEAD c57ead4 → 1737454), refreshed the untracked-file enumeration with 2 NEW rows (__pycache__/...pyc + the new Review/zhou2023_computer_vision_microfluidics.md), refreshed the openwiki-wiki working-tree-status section to 2026-08-13, refreshed the recent-commits table with 8ddc6d9 + 1737454, refreshed the Summary of last 24 hours table to reflect 0 vault commits / 2 wiki commits, added a new "Review/ subfolder — first entry (2026-08-13, uncommitted)" Notable-entity entry (structural significance of the new subfolder), refreshed the synthesis-policy section with this run's delta summary; (b) /themes/05-robin-research.md — added the new Review/ subfolder row to the 04-Literature/Deep-Reads/ breakdown table, refreshed vault-snapshot metadata (latest fetch timestamp + raw-manifest path + working-tree state); (c) /quickstart.md — added the "Latest update — git-repo-1 (2026-08-13T18:08Z)" paragraph ahead of the current "Latest update — hackernews-1 (2026-08-13T18:00Z)" paragraph; demoted the HN-1 paragraph to a prior-run reference; updated the Backlog git-repo entry to reflect the new untracked Review/ file. No /commitments.md row, no /open-questions.md row, no /personal-logistics.md item, no /themes.md row change — the vault delta is a single uncommitted file, not a published artifact, and the existing 2026-08-12 Liang 2026 commitment / class-organoid-3d-bioprinting theme row already cover the structural evidence.
• Previous run (2026-08-12, git-repo-1 18:08Z): 4 new vault commits on the same single Liang 2026 Sci Rep liver organoid paper walked through Robin's standard 3-stage LDR cycle (e542c977 adds file → 8699a154 page 946 9 项 SOP 重写版 → aacba7aa + 297f106d page 934 修齐 micro-revisions) — this was the net-new external evidence for that run. Wiki edits at that time are described in the synthesis-policy paragraph above; the canonical synthesis continues to live at /themes/01-organoid-equipment.md, /themes/05-robin-research.md, and /commitments.md liang-2026-celvivo-clinostar-positioning.
• The vault is a knowledge base, not a live signal stream; durable per-document synthesis (paper deep reads, sales scripts, customer files) requires reading individual files, which is delegated to the Hermes skill and RAGFlow.
• Future runs should keep this page structural. Promote a row to a canonical theme only when the connector observes a recurring workflow (e.g. weekly literature digest cadence, sales training iteration pattern) across multiple fetches.
• Process signal worth watching (2026-08-13): (a) New Review/ subfolder signal — Robin added a 20th subfolder under 04-Literature/Deep-Reads/ dedicated to review-type papers, with zhou2023_computer_vision_microfluidics.md as the first entry. If the subfolder accumulates ≥3 entries, this signals a formal review-paper stream is being built separately from the original-research stream; if it stays at 1 entry, it's a one-off. (b) Liang 2026's MOC linkage confirms the MOC pattern is in active use — the paper's related: field already names [[MOC-类器官与3D培养]] (the first MOC, created 2026-08-10) on the day of publication, not a future-state plan. Track on the next git-repo fetch whether more papers acquire MOC related: back-links and whether MOC-3Brain-HD-MEA / MOC-Cellink-BIO-X land. (c) Page 934 修齐 micro-revisions now appear on every new LDR cycle — 297f106d is the second paper (after 381fcbaa OVB-organoids 2026-08-11) where Robin applied the H1 去括号 / 元数据 bold / 📄PDF 文件名 alignment. The pattern appears to be the new standard end-state. (d) Phase A frontmatter batch rollout is still paused (only 6 of ~1,204 deep-reads received the 6-field frontmatter); no progress this run.

Next update

Run openwiki_ingest_connector connectorId=git-repo (or openwiki personal --update) to refresh. Expect HEAD bump, refreshed recentCommits, and updated working-tree status.