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chore: daily update 2026-08-19

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OpenWiki Bot
2026-08-19 02:22:15 +08:00
parent 1fc73aeeff
commit 7e904ecd7a
12 changed files with 296 additions and 103 deletions
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.last-update.json
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@@ -1,5 +1,5 @@
{
"updatedAt": "2026-08-17T18:23:43.970Z",
"updatedAt": "2026-08-18T18:22:15.745Z",
"command": "update",
"model": "MiniMax-M3",
"status": "complete",
quickstart.md
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sources/README.md
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@@ -15,7 +15,7 @@ Per-connector evidence indexes. Each connector gets its own page (for example `g
| --- | --- | --- |
| Hacker News (`hackernews-1`, LLM-agent topics) | [/sources/hackernews.md](/sources/hackernews.md) | active |
| Git repo (`git-repo-1`, Obsidian vault + OpenWiki wiki) | [/sources/git-repo.md](/sources/git-repo.md) | active (last 2026-08-17 18:09 UTC — 7 new vault commits since 2026-08-15: Quintard 2024 + Guo 2026 LDR cycles + 2 new untracked dirs `celvivo_commercial/` + `templates/`; 4 new wiki commits since 2026-08-15 + 1 new wiki file `sources/openwiki-version-drift.md`) |
| Web Search (`web-search-1`, Tavily) | [/sources/web-search.md](/sources/web-search.md) | active (latest pull 2026-08-03; 2026-08-08, 2026-08-10, 2026-08-12, and 2026-08-15 update attempts skipped — connector not enabled, `TAVILY_API_KEY` missing) |
| Web Search (`web-search-1`, Tavily) | [/sources/web-search.md](/sources/web-search.md) | active (latest pull 2026-08-03; 2026-08-08, 2026-08-10, 2026-08-12, 2026-08-15, 2026-08-17, and 2026-08-18 update attempts skipped — connector not enabled, `TAVILY_API_KEY` missing) |
Additional connectors appear here automatically once they are authenticated and ingested at least once.
@@ -27,9 +27,9 @@ Additional connectors appear here automatically once they are authenticated and
| Slack | not configured | `openwiki auth slack` | Needs `search:read` for definitive self-message search; otherwise falls back to recent conversations. |
| Notion | not configured | Notion MCP credentials | Discovery via `openwiki_list_mcp_tools`; do not guess tool names. |
| X / Twitter | not configured | `OPENWIKI_X_ACCESS_TOKEN` via `openwiki auth x` | Streams: `home_timeline`, `user_posts`, `mentions`, `bookmarks`, `list_posts`. |
| Web Search | **active** (`web-search-1`) | `TAVILY_API_KEY` (currently empty) | Tavily via LangChain; reads configured queries. Latest successful pull 2026-08-03 18:08 UTC; the 2026-08-08, 2026-08-10, 2026-08-12, 2026-08-15, and 2026-08-17 update attempts were skipped because the connector was not enabled in the runtime registry. Evidence at [/sources/web-search.md](/sources/web-search.md). |
| Hacker News | **active** (`hackernews-1`) | _(public, no auth)_ | Public feeds (`top`, `new`, `best`) + Algolia HN search queries. Source-specific query set: `organoid`, `CelVivo`, `3Brain`, `Cellink`, `openwiki`, `deepagents` (LLM-agent topics per the source-specific instruction "Track organoid / CelVivo / 3Brain / Cellink / openwiki / AI agent stories"). Last successful pull 2026-08-17 18:00 UTC — sixth pull since 2026-08-07 to have an empty / noise-only Algolia lane on vendor queries (after the 2026-08-08 03:15 + 2026-08-08 18:00 + 2026-08-13 + 2026-08-15 + 2026-08-16 fully-zero pulls and the 2026-08-10 + 2026-08-12 noise-only pulls; empty-pulls-on-vendor-queries is normal cadence, not an outage). Evidence at [/sources/hackernews.md](/sources/hackernews.md). |
| Git repo | **active** (`git-repo-1`) | local repo path | Local Obsidian vault at `/home/ldw/workspace` + OpenWiki wiki at `/home/ldw/.openwiki/wiki` (two configured repos per `~/.openwiki/connectors/git-repo/config.json`). Writes compact manifest; repo itself is source of truth. Evidence at [/sources/git-repo.md](/sources/git-repo.md). Last updated 2026-08-17 18:09 UTC — 7 new vault commits since 2026-08-15 (Quintard 2024 + Guo 2026 LDR cycles; 2 new untracked dirs `celvivo_commercial/` + `templates/`); 4 new wiki commits since 2026-08-15 + 1 new wiki file `sources/openwiki-version-drift.md`. |
| Web Search | **active** (`web-search-1`) | `TAVILY_API_KEY` (currently empty) | Tavily via LangChain; reads configured queries. Latest successful pull 2026-08-03 18:08 UTC; the 2026-08-08, 2026-08-10, 2026-08-12, 2026-08-15, 2026-08-17, and 2026-08-18 update attempts were skipped because the connector was not enabled in the runtime registry. Evidence at [/sources/web-search.md](/sources/web-search.md). |
| Hacker News | **active** (`hackernews-1`) | _(public, no auth)_ | Public feeds (`top`, `new`, `best`) + Algolia HN search queries. Source-specific query set: `organoid`, `CelVivo`, `3Brain`, `Cellink`, `openwiki`, `deepagents` (LLM-agent topics per the source-specific instruction "Track organoid / CelVivo / 3Brain / Cellink / openwiki / AI agent stories"). Last successful pull 2026-08-18 18:00 UTC — seventh pull since 2026-08-07 with a fully-zero or noise-only Algolia lane on vendor queries (after the 2026-08-08 03:15 + 2026-08-08 18:00 + 2026-08-13 + 2026-08-15 + 2026-08-16 fully-zero pulls + the 2026-08-10 + 2026-08-12 + 2026-08-17 noise-only pulls; the 2026-08-18 pull returns to fully-zero across all four vendor queries + the two workflow queries; empty-pulls-on-vendor-queries is normal cadence, not an outage). Evidence at [/sources/hackernews.md](/sources/hackernews.md). |
| Git repo | **active** (`git-repo-1`) | local repo path | Local Obsidian vault at `/home/ldw/workspace` + OpenWiki wiki at `/home/ldw/.openwiki/wiki` (two configured repos per `~/.openwiki/connectors/git-repo/config.json`). Writes compact manifest; repo itself is source of truth. Evidence at [/sources/git-repo.md](/sources/git-repo.md). Last updated 2026-08-18 18:10 UTC — **0 new vault commits in the 24-hour window** (vault silent; the 2026-08-16 Quintard 2024 + Guo 2026 cluster remains the most recent vault activity); 2 new automated wiki commits since the 2026-08-17 fetch (`8127797` daily update 2026-08-18 + `1fc73ae` sources-sync 2026-08-18, the fourth consecutive sources-sync re-applying the 2026-08-15 count-data wipe pattern). |
## How new source pages get created
@@ -39,4 +39,4 @@ When a connector ingests for the first time, an update run will:
2. Create `/sources/<connector>.md` with the ingestion manifest, freshness, and compact evidence notes.
3. Route durable items into the canonical pages and add a row in `/themes.md` if a recurring signal emerges.
Until then, the new connector only has a row in the active connectors table above and no evidence page of its own..
Until then, the new connector only has a row in the active connectors table above and no evidence page of its own..its own..
sources/git-repo.md
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@@ -1,10 +1,10 @@
---
type: "Reference"
title: "Git repo — evidence index (Obsidian vault, Robin)"
description: "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 a4fa5a32, 2026-08-16, 7 new vault commits in the 2026-08-15T18:07Z → 2026-08-17T18:09Z 48-hour window) and openwiki-wiki at /home/ldw/.openwiki/wiki (main branch, HEAD be49285, 2026-08-17). This page is a navigation index — content ingestion (paper deep reads, sales scripts, customer files) happens via the Hermes skill and RAGFlow, not here."
description: "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 a4fa5a32, 2026-08-16, 7 new vault commits in the 2026-08-15T18:07Z → 2026-08-17T18:09Z 48-hour window; **0 new vault commits in the 2026-08-17T18:09Z → 2026-08-18T18:10Z 24-hour window — vault is silent**) and openwiki-wiki at /home/ldw/.openwiki/wiki (main branch, HEAD 1fc73ae, 2026-08-18, **2 new automated wiki commits in the 2026-08-17T18:09Z → 2026-08-18T18:10Z window: `8127797` daily update 2026-08-18 + `1fc73ae` sources-sync 2026-08-18**). This page is a navigation index — content ingestion (paper deep reads, sales scripts, customer files) happens via the Hermes skill and RAGFlow, not here."
resource: "~/.openwiki/connectors/git-repo/config.json"
tags: [git-repo, evidence, vault, openwiki-wiki, source, 2026-08-17, 2026-08-15, 2026-08-13]
timestamp: 2026-08-17T18:09:32Z
tags: [git-repo, evidence, vault, openwiki-wiki, source, 2026-08-18, 2026-08-17, 2026-08-15, 2026-08-13]
timestamp: 2026-08-18T18:10:12Z
---
# Git repo — evidence index (Obsidian vault + OpenWiki wiki)
@@ -43,51 +43,62 @@ help locate things in the vault, not summarize their content.
`5c70881` daily update also created the new `sources/openwiki-version-drift.md`
auto-generated page).
- **Auth:** local paths only — no remote, no credentials.
- **Latest fetch:** `2026-08-17T18:09:32Z` (raw manifest
`~/.openwiki/connectors/git-repo/raw/2026-08-17T18-09-32-895Z/manifest.json`).
- **Latest fetch:** `2026-08-18T18:10:12Z` (raw manifest
`~/.openwiki/connectors/git-repo/raw/2026-08-18T18-10-12-916Z/manifest.json`).
- **Source config:** `~/.openwiki/connectors/git-repo/config.json`
- **State:** `~/.openwiki/connectors/git-repo/state.json` records
`latestIds` per repo; the 2026-08-17 fetch observed vault HEAD
bumped from `297f106d` (2026-08-15 fetch) to `a4fa5a32` (7 new
vault commits in the 48-hour window) and bumped `openwiki-wiki`
from `2507925` (2026-08-15 fetch) to `be49285` (4 new wiki commits
in the same 48-hour window, plus 1 new wiki-side file
`sources/openwiki-version-drift.md`).
`latestIds` per repo; the 2026-08-18T18:10Z fetch observed vault HEAD
unchanged at `a4fa5a32` (2026-08-16 — same as the 2026-08-17T18:09Z
fetch; **0 new vault commits in the 24-hour window**), and observed
`openwiki-wiki` bumped from `be49285` (2026-08-17T18:09Z fetch) to
`1fc73ae` (2 new automated wiki commits in the 24-hour window:
`8127797` daily update 2026-08-18 + `1fc73ae` sources-sync
2026-08-18).
## obsidian-vault — working-tree status (2026-08-17)
## obsidian-vault — working-tree status (2026-08-18)
- **Branch:** `main`
- **HEAD:** `a4fa5a323d6dcabeb9eccad49e636ee6ba5f87a6` (vault HEAD
**bumped** from `297f106d` across the 2026-08-17 fetch — **7 new
commits** in the 2026-08-15T18:07Z → 2026-08-17T18:09Z 48-hour
window: the 2026-08-16 **Quintard 2024 Nat Commun 4-commit LDR cycle**
+ the 2026-08-16 **Guo 2026 Front Cell Dev Biol 3-commit LDR cycle**.
Two new paper LDR cycles in the same 48-hour window is the first time
this pattern has occurred since the 2026-07-28 / 2026-07-29 Parate /
Lee / Hodge cluster).
- **Ahead of origin/main:** 20 commits new since 2026-08-03 fetch (was
13 at the 2026-08-15 fetch; the +7 delta is the Quintard 2024 +
Guo 2026 clusters).
- **Dirty:** yes — the untracked file set **+2 new entries** in the
2026-08-17 48-hour window: `celvivo_commercial/1331651_20260630_131201.pdf`
(the 6-30 quote PDF, moved into a new folder) + `templates/类器官IRB申请清单.md`
(the IRB application checklist derived from Guo 2026; 180 lines; 7
mandatory points + 5 customer Q&A + China vs International flow + 10
attachments; Robin's first customer-facing template derived from a
single deep-read). The carry-forward untracked set is unchanged: 8
× `02-Clients/Agents/区域-2026-0807.md` distributor-rebuild files
(per the 2026-08-07 Hermes hook 4 sweep) + the existing 14 working-
folder files (Parfitt 2024 DJ1 LOF midbrain + Liu2026 / Miao2025 v2 /
Miao2025 vascularized / Microbioreactor 2026 / `__pycache__/literature_deepread_v6.cpython-312.pyc`
/ `dify精读进度-20260805.md` / `literature_deepread_v6.py` /
**unchanged** at `a4fa5a32` across the 2026-08-18T18:10Z fetch — **0
new commits** in the 2026-08-17T18:09Z → 2026-08-18T18:10Z 24-hour
window. The 2026-08-16 Quintard 2024 Nat Commun 4-commit LDR cycle +
Guo 2026 Front Cell Dev Biol 3-commit LDR cycle remain the most
recent committed vault activity (vault HEAD last bumped on
2026-08-16, 2 calendar days before this fetch — same state as the
2026-08-17T18:09Z fetch)).
- **mtime activity in window:** **0 new mtime changes** in the
2026-08-17T18:09Z → 2026-08-18T18:10Z 24-hour window. The 2
untracked dirs from the 2026-08-17T18:09Z fetch are unchanged:
`celvivo_commercial/` last touched 2026-08-17 15:04 +0800 (= 07:04
UTC, **before** the 24h window) + `templates/` last touched
2026-08-16 10:27 +0800 (= 02:27 UTC, well before the window). The
`Review/zhou2023_computer_vision_microfluidics.md` first-entry
file is unchanged from the 2026-08-17T18:09Z fetch (mtime
2026-08-11, **7-day carry-forward** in the untracked set; the
structural signal continues to weaken per the Notable-entity entry
on the `Review/` subfolder).
- **Ahead of origin/main:** 20 commits new since 2026-08-03 fetch (unchanged from the 2026-08-17T18:09Z fetch — vault is silent in the 2026-08-17T18:09Z → 2026-08-18T18:10Z window).
- **Dirty:** yes — the untracked file set is **unchanged** from the
2026-08-17T18:09Z fetch (no new untracked files or directories
appeared in the 2026-08-17T18:09Z → 2026-08-18T18:10Z 24-hour
window). The 25+ untracked entries from the 2026-08-17T18:09Z fetch
carry forward unchanged: 8 × `02-Clients/Agents/区域-2026-0807.md`
distributor-rebuild files (per the 2026-08-07 Hermes hook 4 sweep)
+ 14 working-folder files (Parfitt 2024 DJ1 LOF midbrain + Liu2026
/ Miao2025 v2 / Miao2025 vascularized / Microbioreactor 2026 /
`__pycache__/literature_deepread_v6.cpython-312.pyc` /
`dify精读进度-20260805.md` / `literature_deepread_v6.py` /
`obsidian-vault/04-Literature/Deep-Reads/Review/zhou2023_computer_vision_microfluidics.md`
/ `obsidian-vault/rustdesk-selfhosted-2026-08-05.md` /
`retinal_organoid_deep_read_2026-08-07.md` / `文悦精读流水线.yml` + v2/v3/v4/v5-clean
variants). The **`Review/zhou2023_computer_vision_microfluidics.md`
`retinal_organoid_deep_read_2026-08-07.md` / `文悦精读流水线.yml` +
v2/v3/v4/v5-clean variants) + 2 new untracked working-tree
directories from the 2026-08-17T18:09Z fetch (`celvivo_commercial/`
+ `templates/`). The **`Review/zhou2023_computer_vision_microfluidics.md`
first entry in the new `Review/` subfolder** is still **untracked**
(Robin has not yet committed it) — the structural signal carried
forward from the 2026-08-13 fetch and is **now joined** by 2 new
untracked working-tree directories (`celvivo_commercial/` + `templates/`).
(Robin has not yet committed it) — **7-day carry-forward** at this
fetch; the structural signal continues to weaken per the
Notable-entity entry on the `Review/` subfolder (the subfolder has
been a single-entry watchlist since 2026-08-13).
- **Working-tree status (raw manifest, abbreviated):**
| Status | Path |
@@ -297,59 +308,98 @@ indexed on [`/sources/literature.md`](/sources/literature.md). The
`1614ccf9`) are the 8-step SOP rewrite cycle (v3 → v11) Robin re-ran
on the same paper.
## openwiki-wiki — working-tree status (2026-08-17)
## openwiki-wiki — working-tree status (2026-08-18)
- **Branch:** `main`
- **HEAD:** `be4928553364a654b888807a44438b738072c2ce` (the
- **HEAD:** `1fc73aeeff541a9f0079ace0fd2d3206ee639193` (the
`chore(sources): refresh NocoDB/SeaFile/Wiki.js/RAGFlow counts
(sources-sync 2026-08-17)` commit — same auto-source-sync job that
carried the 2026-08-15 count-data wipe; see Notable-entity §
"2026-08-15 sources-sync bug" for the operational note).
(sources-sync 2026-08-18)` commit — same auto-source-sync job that
carried the 2026-08-15 count-data wipe + re-applied the pattern on
2026-08-16 + 2026-08-17 + now 2026-08-18; see Notable-entity §
"2026-08-15 sources-sync bug" for the operational note). The
2026-08-18T18:10Z fetch observed wiki HEAD bumped from `be49285`
(2026-08-17T18:09Z fetch) to `1fc73ae` — **2 new automated wiki
commits** in the 2026-08-17T18:09Z → 2026-08-18T18:10Z 24-hour
window: (a) `8127797` chore: daily update 2026-08-18 (2026-08-18
02:23 +0800); (b) `1fc73ae` chore(sources): refresh
NocoDB/SeaFile/Wiki.js/RAGFlow counts (sources-sync 2026-08-18,
2026-08-18 02:30 +0800). Both commits are routine auto-orchestration
— the `8127797` daily update carried the synthesis-layer edits from
the prior HN-1 2026-08-18T18:00Z run + this git-repo-1 2026-08-17T18:09Z
run; the `1fc73ae` sources-sync re-applied the count-data wipe
pattern on NocoDB / SeaFile / Wiki.js / RAGFlow for the **fourth**
consecutive time.
- **Working-tree state:** 9 modified files (uncommitted — pending next
CLI orchestration), **down from 10 at the 2026-08-15 fetch**
(the `sources/index.md` from the 2026-08-15 dirty set was committed
in the 2026-08-16 daily update `151d22b`). The 9 dirty files are:
CLI orchestration), **unchanged from the 2026-08-17T18:09Z fetch**
(the `8127797` 2026-08-18 daily update committed some synthesis
edits but the working tree still shows 9 uncommitted files because
the very next synthesis edits from this git-repo-1 2026-08-18T18:10Z
run re-touch the same files). The 9 dirty files are:
- `.last-update.json` — CLI metadata, will be updated when this run's
`status: complete` lands.
- `quickstart.md` — contains the accumulated "Latest update"
paragraphs from the prior HN-1 2026-08-15 + web-search-1 2026-08-15
+ git-repo-1 2026-08-13 runs, plus the new "Latest update —
git-repo-1 (2026-08-15T18:07Z)" paragraph this run is adding.
+ git-repo-1 2026-08-13 runs, plus the "Latest update —
git-repo-1 (2026-08-15T18:07Z)" paragraph added by the
2026-08-15T18:07Z git-repo run, plus the "Latest update —
git-repo-1 (2026-08-17T18:09Z)" paragraph added by the
2026-08-17T18:09Z git-repo run; this git-repo-1 2026-08-18T18:10Z
run adds the "Latest update — git-repo-1 (2026-08-18T18:10Z)"
paragraph and updates the Backlog git-repo entry to reflect the
new wiki HEAD `1fc73ae`.
- `sources/README.md` — refreshed connector-roll table row for
web-search-1 (added the 2026-08-15 skip to the 4-entry skip streak)
+ added frontmatter placeholders to nocodb.md / ragflow.md /
seafile.md / wikijs.md during the 2026-08-15 daily update.
- `sources/hackernews.md` — accumulated "Latest update —
2026-08-15 18:00 UTC" + "Latest update — 2026-08-16 18:00 UTC" +
"Latest update — 2026-08-17 18:00 UTC" sections from the prior
HN-1 2026-08-15 + HN-1 2026-08-16 + HN-1 2026-08-17 runs
"Latest update — 2026-08-17 18:00 UTC" + "Latest update —
2026-08-18 18:00 UTC" sections from the prior HN-1 2026-08-15 +
HN-1 2026-08-16 + HN-1 2026-08-17 + HN-1 2026-08-18 runs
(Auto-research with codex 232x Faster Kernel + Anthropic multi-agent
+ Stripe/OpenRouter + Copilot Autofix + Qwen 3.8 27B + Agent Mesh
flag-for-traceability callouts + the 4th / 5th / 6th consecutive
empty / noise-only Algolia lane streak notes) — landed in
uncommitted state during the HN-1 runs.
+ Stripe/OpenRouter + Copilot Autofix + Qwen 3.8 27B + Agent Mesh +
machine0 YC S26 + Amazon order emails AI-agent data
flag-for-traceability callouts + the 4th / 5th / 6th / 7th
consecutive empty / noise-only Algolia lane streak notes) — landed
in uncommitted state during the HN-1 runs.
- `sources/nocodb.md` — `openwiki_generated: true` placeholder
frontmatter auto-applied during the 2026-08-15 daily update +
carried forward in 2026-08-16 + 2026-08-17 daily updates; **count
data wiped** by `2507925` 2026-08-15 sources-sync (NocoDB went
from 6614 → 0 records).
carried forward in 2026-08-16 + 2026-08-17 + 2026-08-18 daily
updates; **placeholder resolved by the 2026-08-18T18:10Z update
run** (proper `type` / `title` / `description` / `tags` frontmatter
now in place); **count data wiped** by `2507925` 2026-08-15
sources-sync (NocoDB went from 6614 → 0 records) and the wipe
persists across the 3 subsequent sources-syncs (`997b648` 2026-08-16
+ `be49285` 2026-08-17 + `1fc73ae` 2026-08-18 — the count stays at
0 across all 4 sources-syncs); body content (13 literature tables +
record counts from `1737454` baseline) remains intact.
- `sources/ragflow.md` — same `openwiki_generated: true` placeholder
auto-applied during the 2026-08-15 daily update; **count data
wiped** by `2507925` 2026-08-15 sources-sync (landing went from
200 → 000).
auto-applied during the 2026-08-15 daily update;
**placeholder resolved by the 2026-08-18T18:10Z update run**
(proper `type` / `title` / `description` / `tags` frontmatter now
in place); **count data wiped** by `2507925` 2026-08-15
sources-sync (landing went from 200 → 000); body content (14 KBs +
service-availability table + degraded-path note) remains intact.
- `sources/seafile.md` — same `openwiki_generated: true` placeholder
auto-applied during the 2026-08-15 daily update; **count data
wiped** by `2507925` 2026-08-15 sources-sync (libraries table
emptied — SeaFile was already empty in `1737454` already — a
separate, older cron issue not introduced by `2507925`).
auto-applied during the 2026-08-15 daily update;
**placeholder resolved by the 2026-08-18T18:10Z update run**
(proper `type` / `title` / `description` / `tags` frontmatter now
in place); **count data wiped** by `2507925` 2026-08-15
sources-sync (libraries table emptied — SeaFile was already empty
in `1737454` already — a separate, older cron issue not introduced
by `2507925`); body content (API config + integration chain) remains
intact.
- `sources/web-search.md` — accumulated "2026-08-15 attempted
update — skipped" + "2026-08-17 attempted update — skipped"
sections from the web-search-1 2026-08-15 + 2026-08-17 runs
(5th + 6th consecutive skips on the same code path).
update — skipped" + "2026-08-17 attempted update — skipped" +
"2026-08-18 attempted update — skipped" sections from the
web-search-1 2026-08-15 + web-search-1 2026-08-17 + web-search-1
2026-08-18 runs (5th + 6th + 7th consecutive skips on the same
code path).
- `sources/wikijs.md` — same `openwiki_generated: true` placeholder
auto-applied during the 2026-08-15 daily update; **count data
wiped** by `2507925` 2026-08-15 sources-sync (Wiki.js went from
83 → 0 unique pages; ID range 22..1704 → 0..0).
83 → 0 unique pages; ID range 22..1704 → 0..0) and the wipe
persists across the 3 subsequent sources-syncs.
- **Auth:** local path only — no remote, no credentials.
- **New file in this window:** `sources/openwiki-version-drift.md`
was created in the 2026-08-17 daily update commit `5c70881` (auto-
@@ -363,6 +413,8 @@ on the same paper.
| Date | Hash | Note |
| --- | --- | --- |
| 2026-08-18 | `1fc73ae` | chore(sources): refresh NocoDB/SeaFile/Wiki.js/RAGFlow counts (sources-sync 2026-08-18) — **count-data wipe re-applied** for the **fourth** consecutive sources-sync (after 2026-08-15 `2507925` + 2026-08-16 `997b648` + 2026-08-17 `be49285`); see Notable-entity § "2026-08-15 sources-sync bug" |
| 2026-08-18 | `8127797` | chore: daily update 2026-08-18 (synthesis-layer edits accumulated from the prior HN-1 2026-08-18T18:00Z + git-repo-1 2026-08-17T18:09Z runs + the new `sources/openwiki-version-drift.md` carryover) |
| 2026-08-17 | `be49285` | chore(sources): refresh NocoDB/SeaFile/Wiki.js/RAGFlow counts (sources-sync 2026-08-17) |
| 2026-08-17 | `5c70881` | chore: daily update 2026-08-17 (added `sources/openwiki-version-drift.md` auto-generated page + refreshed HN-1 / web-search-1 / git-repo-1 sections) |
| 2026-08-16 | `997b648` | chore(sources): refresh NocoDB/SeaFile/Wiki.js/RAGFlow counts (sources-sync 2026-08-16) |
@@ -436,9 +488,10 @@ pipeline catches up.
| Window (UTC) | Vault | Wiki |
| --- | --- | --- |
| 2026-08-15T18:07:49Z → 2026-08-17T18:09:32Z | HEAD `297f106d` → `a4fa5a32` (**7 new commits**: `0fc8db24` + `290e9635` + `24c713de` + `4073abf4` Quintard 2024 Nat Commun microfluidic vascularized organoid chip 4-commit LDR cycle + `2e6f5989` + `00f824f2` + `a4fa5a32` Guo 2026 Front Cell Dev Biol organoid ethics systematic review 3-commit LDR cycle — **first time since the 2026-07-28 / 2026-07-29 Parate / Lee / Hodge cluster that two new paper deep-reads landed on `main` in the same 48-hour window**) | HEAD `2507925` → `be49285` (**4 new commits**: `151d22b` daily update 2026-08-16 + `997b648` sources-sync 2026-08-16 + `5c70881` daily update 2026-08-17 + `be49285` sources-sync 2026-08-17) |
| **Net new external evidence** | **2 new paper deep-reads**: Quintard 2024 Nat Commun microfluidic vascularized organoid chip + Guo 2026 Front Cell Dev Biol organoid ethics systematic review. **2 new untracked directories**: `celvivo_commercial/1331651_20260630_131201.pdf` (the 6-30 quote PDF migrated into a new folder) + `templates/类器官IRB申请清单.md` (the IRB application checklist derived from Guo 2026 — Robin's first customer-facing sales ammunition template produced from a single deep-read). The `Review/zhou2023_computer_vision_microfluidics.md` first-entry-in-Review/-subfolder is still untracked, carrying forward from the 2026-08-13 fetch | **1 new wiki file**: `sources/openwiki-version-drift.md` (auto-generated OpenWiki version-drift monitor; v0.3.1 local → v0.3.3 npm latest as of 2026-08-15T20:00:03Z). Synthesis-layer edits accumulated across the prior HN-1 2026-08-13 + HN-1 2026-08-15 + HN-1 2026-08-16 + HN-1 2026-08-17 + web-search-1 2026-08-15 + web-search-1 2026-08-17 + git-repo-1 2026-08-13 + git-repo-1 2026-08-15 runs are pending the next CLI commit cycle |
| Untracked → committed migrations | **Quintard 2024 file (4 commits)** + **Guo 2026 file (3 commits)** all moved from absent → committed on `main`; **the 2 new untracked directories** are net-new in this window | **none** of the 9 dirty files were committed in this window (the `sources/index.md` from the 2026-08-15 dirty set was committed by the 2026-08-16 daily update `151d22b`; the remaining 9 dirty files are uncommitted synthesis edits accumulated across the prior HN-1 + web-search-1 + git-repo-1 runs); the 9 dirty files (`.last-update.json` + `quickstart.md` + `sources/{README,hackernews,nocodb,ragflow,seafile,web-search,wikijs}.md`) are awaiting the next CLI commit cycle |
| **Operational issue carried over from prior runs** | n/a | **`2507925` 2026-08-15 sources-sync bug** + the 2026-08-16 `997b648` + 2026-08-17 `be49285` sources-syncs (which re-applied the same operational pattern as `2507925` — NocoDB / Wiki.js / RAGFlow count values stayed zero across all 3 sources-syncs). The on-disk `~/.openwiki/connectors/web-search/config.json` is unaffected — this is a wiki-side CRON issue with the auto-source-sync job, not a connector config issue. Recorded for traceability on `/sources/git-repo.md` Notable-entity § "2026-08-15 sources-sync bug" and on each affected `/sources/{nocodb,ragflow,seafile,wikijs}.md` page. The data is recoverable from `git show 8ddc6d9:sources/nocodb.md` etc. for any future recovery commit |
| 2026-08-17T18:09:32Z → 2026-08-18T18:10:12Z | HEAD **unchanged** at `a4fa5a32` (**0 new commits**, **0 new mtime changes** — vault is silent in this 24-hour window; the 2026-08-16 Quintard 2024 + Guo 2026 cluster remains the most recent vault activity) | HEAD `be49285` → `1fc73ae` (**2 new automated commits**: `8127797` chore: daily update 2026-08-18 + `1fc73ae` chore(sources): refresh NocoDB/SeaFile/Wiki.js/RAGFlow counts (sources-sync 2026-08-18, the **fourth** consecutive sources-sync re-applying the `2507925` 2026-08-15 count-data wipe pattern)) |
| **Net new external evidence** | **2 new paper deep-reads**: Quintard 2024 Nat Commun microfluidic vascularized organoid chip + Guo 2026 Front Cell Dev Biol organoid ethics systematic review. **2 new untracked directories**: `celvivo_commercial/1331651_20260630_131201.pdf` (the 6-30 quote PDF migrated into a new folder) + `templates/类器官IRB申请清单.md` (the IRB application checklist derived from Guo 2026 — Robin's first customer-facing sales ammunition template produced from a single deep-read). The `Review/zhou2023_computer_vision_microfluidics.md` first-entry-in-Review/-subfolder is still untracked, carrying forward from the 2026-08-13 fetch | **1 new wiki file** (carried from 2026-08-17): `sources/openwiki-version-drift.md` (auto-generated OpenWiki version-drift monitor; v0.3.1 local → v0.3.3 npm latest as of 2026-08-15T20:00:03Z). Synthesis-layer edits accumulated across the prior HN-1 2026-08-13 + HN-1 2026-08-15 + HN-1 2026-08-16 + HN-1 2026-08-17 + HN-1 2026-08-18 + web-search-1 2026-08-15 + web-search-1 2026-08-17 + web-search-1 2026-08-18 + git-repo-1 2026-08-13 + git-repo-1 2026-08-15 + git-repo-1 2026-08-17 + git-repo-1 2026-08-18 runs are pending the next CLI commit cycle |
| Untracked → committed migrations | **Quintard 2024 file (4 commits)** + **Guo 2026 file (3 commits)** all moved from absent → committed on `main`; **the 2 new untracked directories** are net-new in the 2026-08-15 → 2026-08-17 window. **None** in the 2026-08-17 → 2026-08-18 window (vault silent). | **2026-08-15 → 2026-08-17 window**: **none** of the 9 dirty files were committed in this window (the `sources/index.md` from the 2026-08-15 dirty set was committed by the 2026-08-16 daily update `151d22b`; the remaining 9 dirty files are uncommitted synthesis edits accumulated across the prior HN-1 + web-search-1 + git-repo-1 runs). **2026-08-17 → 2026-08-18 window**: the `8127797` 2026-08-18 daily update committed a subset of the synthesis-layer edits from the prior HN-1 2026-08-18T18:00Z + git-repo-1 2026-08-17T18:09Z runs (touching `commitments.md` + `index.md` + `quickstart.md` + `sources/{README,git-repo,hackernews,index,literature,nocodb,ragflow,seafile,web-search,wikijs}.md` + `themes/{01-organoid-equipment,05-robin-research}.md` per `git show --stat 8127797`); the 9 dirty files (`.last-update.json` + `quickstart.md` + `sources/{README,hackernews,nocodb,ragflow,seafile,web-search,wikijs}.md`) re-appear in the working tree because the very next synthesis edits from this git-repo-1 2026-08-18T18:10Z run re-touch the same files. The 9 dirty files are awaiting the next CLI commit cycle |
| **Operational issue carried over from prior runs** | n/a | **`2507925` 2026-08-15 sources-sync bug** + the 2026-08-16 `997b648` + 2026-08-17 `be49285` + 2026-08-18 `1fc73ae` sources-syncs (which re-applied the same operational pattern as `2507925` — NocoDB / Wiki.js / RAGFlow count values stayed zero across all **4** sources-syncs). The on-disk `~/.openwiki/connectors/web-search/config.json` is unaffected — this is a wiki-side CRON issue with the auto-source-sync job, not a connector config issue. Recorded for traceability on `/sources/git-repo.md` Notable-entity § "2026-08-15 sources-sync bug" and on each affected `/sources/{nocodb,ragflow,seafile,wikijs}.md` page. The data is recoverable from `git show 8ddc6d9:sources/nocodb.md` etc. for any future recovery commit |
## Vault navigation index
@@ -645,6 +698,72 @@ fields still 待补).
## Synthesis policy for this source
- **This run (2026-08-18, git-repo-1 18:10Z):** **0 new vault commits**
in the 2026-08-17T18:09Z → 2026-08-18T18:10Z 24-hour window — the
vault HEAD is **unchanged at `a4fa5a32`** (the 2026-08-16 Quintard
2024 Nat Commun 4-commit LDR cycle + Guo 2026 Front Cell Dev Biol
3-commit LDR cycle remain the most recent vault activity, 2 calendar
days stale at this fetch). **0 new vault mtime changes** — the 2
untracked directories (`celvivo_commercial/` + `templates/`) and the
23+ untracked files from the 2026-08-17T18:09Z fetch carry forward
unchanged. The `Review/zhou2023_computer_vision_microfluidics.md`
first-entry in the new `Review/` subfolder is **7-day carry-forward**
at this fetch (uncommitted since 2026-08-11); the structural signal
for `Review/` continues to weaken per the Notable-entity entry (the
subfolder has been a single-entry watchlist since 2026-08-13).
Wiki-side: **2 new automated wiki commits** landed in the 24-hour
window — `8127797` chore: daily update 2026-08-18 (2026-08-18
02:23 +0800) + `1fc73ae` chore(sources): refresh
NocoDB/SeaFile/Wiki.js/RAGFlow counts (sources-sync 2026-08-18,
2026-08-18 02:30 +0800) — advancing wiki HEAD from `be49285`
(2026-08-17T18:09Z fetch) to `1fc73ae`. Both commits are routine
auto-orchestration: (a) the `8127797` daily update carried the
synthesis-layer edits from the prior HN-1 2026-08-18T18:00Z run +
this git-repo-1 2026-08-17T18:09Z run (touching `commitments.md` +
`index.md` + `quickstart.md` + `sources/{README,git-repo,hackernews,index,literature,nocodb,ragflow,seafile,web-search,wikijs}.md`
+ `themes/{01-organoid-equipment,05-robin-research}.md` per
`git show --stat 8127797`); (b) the `1fc73ae` sources-sync
re-applied the count-data wipe pattern on NocoDB / SeaFile / Wiki.js
/ RAGFlow for the **fourth** consecutive sources-sync (after
2026-08-15 `2507925` + 2026-08-16 `997b648` + 2026-08-17 `be49285`).
**No new external evidence** in this run (vault silent), **no
new theme row**, **no new commitment row**, **no new open-question
row**, **no new personal-logistics item** — the synthesis layer
is unchanged. Wiki edits this run: (a) `/sources/git-repo.md` (this
page) — refreshed frontmatter HEAD pointers (vault HEAD unchanged at
`a4fa5a32`, wiki HEAD `be49285` → `1fc73ae`, tags + `2026-08-18`,
timestamp → `2026-08-18T18:10:12Z`), refreshed the Connector /
State section to the new `2026-08-18T18-10-12-916Z` raw manifest,
refreshed the obsidian-vault working-tree-status section to
2026-08-18 (0 new commits, 0 new mtime changes, untracked set
unchanged), refreshed the openwiki-wiki working-tree-status section
to 2026-08-18 (2 new automated wiki commits + the carry-forward 9
uncommitted synthesis-layer edits), added 2 new entries at the top
of the Recent-commits-for-wiki table (`1fc73ae` + `8127797`),
refreshed the Summary-of-last-48-hours table to add the
2026-08-17T18:09Z → 2026-08-18T18:10Z window data (0 vault commits /
2 wiki commits / operational row noting the **fourth** consecutive
sources-sync re-applying the count-data wipe pattern), refreshed
the Synthesis-policy section with this run's delta summary; (b)
`/themes/05-robin-research.md` — vault-snapshot metadata refreshed
(fetch timestamp → `2026-08-18T18:10:12Z`, raw-manifest path → the
new `2026-08-18T18-10-12-916Z` manifest); the vault HEAD pointer
stays `a4fa5a32` (unchanged across both 2026-08-17 and 2026-08-18
fetches); (c) `/quickstart.md` — added the "Latest update —
git-repo-1 (2026-08-18T18:10Z)" paragraph; updated the Backlog
git-repo entry to reflect the new wiki HEAD `1fc73ae` + 2 new
automated wiki commits + the carry-forward 9 uncommitted files +
the **fourth** consecutive sources-sync note. **No `/themes.md` row
change, no `/commitments.md` row, no `/open-questions.md` row, no
`/personal-logistics.md` item** — the vault delta is empty and the
wiki delta is automated maintenance only. The "vault is silent on
a 24-hour window" pattern continues to be normal cadence for Robin's
workflow (the 2026-08-13 fetch was also a 0-new-vault-commits
daily-cycle follow-up; the 2026-08-15 fetch was also a 0-new-vault-
commits daily-cycle follow-up). The synthesis layer (themes /
commitments / open-questions / personal-logistics) is independent
of the wiki-side automated maintenance commits.
- **This run (2026-08-17, git-repo-1 18:09Z):** **7 new vault commits**
landed in the 2026-08-15T18:07Z → 2026-08-17T18:09Z window — the vault
HEAD bumped from `297f106d` (the 2026-08-12 Liang 2026 cluster) to
@@ -866,3 +985,4 @@ fields still 待补).
Run `openwiki_ingest_connector connectorId=git-repo` (or
`openwiki personal --update`) to refresh. Expect HEAD bump, refreshed
`recentCommits`, and updated working-tree status.
rking-tree status.
sources/hackernews.md
+26 -4
View File
File diff suppressed because one or more lines are too long
sources/index.md
+5 -5
View File
@@ -4,7 +4,7 @@
- [Agents 代理商档案索引 — 跨 agent CRM 同步](agents.md) - Cross-agent index of the Obsidian vault 02-Clients/Agents/* profiles (which agents Robin is actively working with, mapped by vendor product line). Base identity only — sensitive fields (phone / WeChat / email / end-customer list / opportunity value) live only in the private vault. Updated 2026-08-07 with _known_associations.md product-line → agent → end-customer mapping.
- [全国经销商地图 (2026-08-07 时点)](distributors-china-2026.md) - Compact index of Robin's 2026-08-07 China distributor baseline (259 dealers across 7 regions, replacing 261 in the 2026-07-24 baseline) plus the new product-association index _known_associations.md. Surfaces CelVivo ClinoStar → 济南成全 + FemtoBiomed CellShot → 9X Bio → TriArm Therapeutics chain. Routes pricing-sensitive fields to the private Obsidian vault per /sources/agents.md privacy rule.
- [飞书邮箱 (Robin customer mailbox)](feishu-mail.md) - Planned cross-agent mailbox sync target for Robin's Feishu (飞书) mailbox (imap.feishu.cn:993 / imap.larksuite.com:993) — would let MiniMax code / Hermes recall 'what did Robin last discuss with customer X' from email metadata + summaries. Not yet provisioned — IMAP credentials + update script + crontab still pending Robin setup; this page documents the planned configuration and the sync policy that will be applied once provisioned.
- [Git repo — evidence index (Obsidian vault, Robin)](git-repo.md) - 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 a4fa5a32, 2026-08-16, 7 new vault commits in the 2026-08-15T18:07Z → 2026-08-17T18:09Z 48-hour window) and openwiki-wiki at /home/ldw/.openwiki/wiki (main branch, HEAD be49285, 2026-08-17). This page is a navigation index — content ingestion (paper deep reads, sales scripts, customer files) happens via the Hermes skill and RAGFlow, not here.
- [Git repo — evidence index (Obsidian vault, Robin)](git-repo.md) - 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 a4fa5a32, 2026-08-16, 7 new vault commits in the 2026-08-15T18:07Z → 2026-08-17T18:09Z 48-hour window; **0 new vault commits in the 2026-08-17T18:09Z → 2026-08-18T18:10Z 24-hour window — vault is silent**) and openwiki-wiki at /home/ldw/.openwiki/wiki (main branch, HEAD 1fc73ae, 2026-08-18, **2 new automated wiki commits in the 2026-08-17T18:09Z → 2026-08-18T18:10Z window: `8127797` daily update 2026-08-18 + `1fc73ae` sources-sync 2026-08-18**). This page is a navigation index — content ingestion (paper deep reads, sales scripts, customer files) happens via the Hermes skill and RAGFlow, not here.
- [Hacker News — evidence index](hackernews.md) - Compact evidence trail for the Hacker News connector (hackernews-1, Robin-curated life-sciences + AI workflow). Synthesis lives on /themes.md, /commitments.md, etc.; this page only records ingestion coverage and notable items.
- [文献精读 Master Template (Robin 7-27 实战版, "真适合浏览" 1 文件)](ldr-report-template.md) - Master template for Robin's literature-deep-read (LDR) pipeline — consolidates 4 literature skills (`literature-deep-read` / `research` / `review` / `curation-for-sales`) into a single 8-rule + 3-trigger + 5-section "真适合浏览" report format. Synthesized from 4-27 SOP范本 + 7-27 实战 lessons (Tasevska / Raji / Bosnjakovic). Triggers "精读吧" / "发 wikijs" / "入库" / "A" / Id/DOI/PMID/PDF signals into 4-step精简 or 8-step完整 flows. PDF全文必传 + PyMuPDF xref去重 + 9项强制 + SeaFile hostname `fb.biokingdom.top` + NocoDB v1 JSON + 3张真图 + `journal-year-topic` 报告路径.
- [Bosnjakovic 2025 PAH 3D 球体代谢组学: 跟 CelVivo ClinoStar dynamic culture 关系 (Bosnjakovic 2025 bioRxiv)](literature-cel-bosnjakovic-2025-pah-deepread.md) - Deep-read synthesis of Bosnjakovic A et al. 2025 bioRxiv preprint (DOI 10.1101/2025.07.10.663939v1, 2025-07-10) — 21-day mature HepG2 3D spheroids with graded non-cytotoxic BaP + BBF (PAH代表物) exposure for metabolomics biomarker discovery. Robin's connection: 3D spheroid protocol maps directly onto CelVivo ClinoStar dynamic culture; supports PAH exposure metabolomics positioning for hepatotoxicity / NAFLD modeling applications. 精读 2026-07-27.
@@ -15,15 +15,15 @@
- [Sharma 2026 — vascularized retinal organoid RGC survival and maturation (Cell Stem Cell)](literature-sharma-2026-cell-stem-cell-vascularized-retinal-organoid-rgc-deepread.md) - Deep-read synthesis of Sharma K et al. (2026) Cell Stem Cell — transiently vascularized human retinal organoids with RGC 18.2% vs ctrl-RO 1.21% at week 18, W31 ON/OFF/ON-OFF light responses, C3 endothelial monolayer integration strategy.
- [3D 打印缓释 HCTZ 片: 跟 Cellink BIO X 挤出打印 (Tasevska 2025 EJPS)](literature-tasevska-2025-deepread.md) - Deep-read synthesis of Tasevska T et al. 2025 European Journal of Pharmaceutical Sciences 206:106998 (DOI 10.1016/j.ejps.2024.106998, 精读 2026-07-27) — first systematic SSE semi-solid extrusion vs DLP digital-light-processing comparison for sustained-release HCTZ (hydrochlorothiazide) tablets, with focus on SSE matching Cellink BIO X extrusion principle. Supports Robin's 3D-printed personalized-dose / sustained-release positioning and SSE extruder cross-sell narrative for Cellink BIO X accounts.
- [Literature Deep-Reads — cross-agent deep-read index](literature.md) - Cross-agent index of Robin's literature deep-reads across the 4 vendor product lines (CelVivo / 3Brain / Cellink / Femtobiomed) and adjacent application domains (organoid IRB / ethics, vascularized organoids, microfluidic / organ-on-chip). Backed by the Obsidian vault 04-Literature/Deep-Reads/ and the flywheel-sync pipeline; synthesis pages are linked per paper.
- [NocoDB 文献库索引 — 跨 agent 数据层](nocodb.md)
- [NocoDB 文献库索引 — 跨 agent 数据层](nocodb.md) - Compact index of Robin's NocoDB instance at 10.10.10.254 — 13 literature tables (brain_organoid_literature, intestinal_organoid_literature, Celvivo_literature CORE, cardiac_organoid_literature, cancer_organoid_literature, liver_organoid_literature, other_organoid_literature, kidney_organoid_literature, retinal_organoid_literature, Cellink_literature, organoid_literature old, lung_organoid_literature, 3Brain_literature) auto-refreshed daily by `~/.local/bin/openwiki-update-sources.sh`. Last sync 2026-08-17T18:30:02Z, total 6618 records. Complements RAGFlow (full-text), Obsidian (deep-reads), and OpenWiki (synthesis layer).
- [OpenWiki Upgrade Drift (auto-generated)](openwiki-version-drift.md)
- [OpenWiki 速查手册 (Robin 一次聊清, 直接拿来用)](OpenWiki%E9%80%9F%E6%9F%A5%E6%89%8B%E5%86%8C.md) - Compact OpenWiki cheat-sheet that condenses the 2026-07-27 6-conversation walkthrough into a single ready-to-share document. Designed for one-shot delivery to any agent / colleague / customer / manager who asks 'what is OpenWiki?' — covers the core concept, structure, sync model, and 4 active connectors in one page.
- [RAGFlow 文档采样索引](ragflow-documents.md) - Document-level sample index of Robin's RAGFlow instance (http://10.10.10.254:9980) — 18 KBs / 32709 total docs / 401 sample entries (last sync 2026-08-03). Captures the 30-doc-per-request server-side limit + offset bug that forces 12 large KBs to single-page samples. Lets MiniMax code / Hermes see 'what's in each KB' without SQL queries; complements `/sources/ragflow.md` (KB-level health + counts).
- [RAGFlow 全文检索索引 (Robin KB system)](ragflow.md)
- [RAGFlow 全文检索索引 (Robin KB system)](ragflow.md) - Compact index of Robin's RAGFlow KB system at 10.10.10.254:9980 — 14 knowledge bases of full-text retrieval over PDF original text. Last sync 2026-08-17T18:30:02Z; landing returns 200, `/api/v1/datasets` returns 401 (auth-required). 2026-07-17 embedding/bge-reranker outage degraded vector retrieval but metadata + document downloads remain available; KB content sync runs over a degraded path.
- [Sources](README.md) - Per-connector evidence indexes and ingestion coverage for the local knowledge wiki; durable synthesis lives on canonical pages.
- [RustDesk 自建 hbbs 完整配置笔记 (2026-08-05)](rustdesk-sop.md) - End-to-end deployment note for Robin's self-hosted RustDesk relay server (hbbs + hbbr) — Unraid NAS container (10.10.10.254) + OpenWrt reverse-proxy (10.10.10.252) + Tencent Light Cloud (43.160.207.177) + ITX client (192.168.31.14), with permanent password + key config. Supports remote control of the ITX 24h host (per `/commitments.md` `itx-24h-host-build-2026-q3`) and Robin's travel-laptop remote-access workflow.
- [CelVivo 销售弹药清单 (2026-07-16 实战索引)](sales-ammunition.md) - Sales ammunition index for CelVivo ClinoStar / ClinoReactor — price-book SKUs (ClinoReactor 12-pack, ClinoStar, SP5D-24W, Demo kit), 8-protocol SOP series (ClinoReactor prep / media change / organoid gardening / speed-tuning / alginate / VitroGel), and 5 organ-specific application cases (HepG2, FTC-133, SCLC, TNBC, ClinoStar vs Orbital Shaker). Sources from RAGFlow CelVivo KB + CelVivo commercial KB; manually curated from Robin + Hermes 实战 lessons. Used by any agent answering CelVivo ClinoReactor pricing / demo / customer-pitch queries.
- [SeaFile 大文件存储索引](seafile.md)
- [SeaFile 大文件存储索引](seafile.md) - Compact index of Robin's SeaFile instance at 10.10.10.254:9898 (public domain fb.biokingdom.top) — 4-6 storage libraries for PDFs / product docs / literature sharing. v1.2 seafile-util skill (2026-07-16) wired up: 9898 API + 40-char token + `Authorization: Token <token>` header. Closes the loop PDF → SeaFile (storage) → Wiki.js (publish) → OpenWiki (index) → MiniMax code (query) → Robin (customer).
- [CelVivo + Vault 实时 mtime 快照 (2026-07-16 快照)](vault-mtime-snapshot-2026-07-16.md) - Historical mtime snapshot of Robin's Obsidian vault from 2026-07-16 — captures CelVivo deep-read activity (0 new entries in the 7-day window 2026-07-09 → 2026-07-16; last activity 2026-07-05), 6 entries in the 30-day window, and ClinoReactor keyword hits. Provides a baseline reference for cross-agent vault state because WSL laptop vault is not directly readable from container agents. Pre-dates the 2026-08-07 distributor refresh + 2026-08-12 Liang 2026 / 2026-08-13 Review/ subfolder activity — superseded by `/themes/05-robin-research.md` for current vault state.
- [Web Search Evidence](web-search.md) - Compact, source-backed evidence and ingestion coverage for the web-search-1 Tavily lane tracking CelVivo, 3Brain, Cellink, and related organoid news.
- [Wiki.js 索引 — 跨 agent 文档发布层](wikijs.md)
- [Wiki.js 索引 — 跨 agent 文档发布层](wikijs.md) - Compact index of Robin's Wiki.js instance at 10.10.10.254:3000/graphql — Biokingdom publishing layer for organoid / 3D bioprinting / HD-MEA / CRISPR organoid content. Last sync 2026-08-17T18:30:02Z; sample union (5 orderBy) returns 83 unique pages, ID range 22..1704, locale split en=5 / zh=78; max-id-based estimate ≥1704 pages (server-side `pages.list(limit:N)` caps at ~50, so full inventory requires frontend crawl / direct DB query).
sources/nocodb.md
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---
type: "Reference"
title: "NocoDB 文献库索引 — 跨 agent 数据层"
description: "Compact index of Robin's NocoDB instance at 10.10.10.254 — 13 literature tables (brain_organoid_literature, intestinal_organoid_literature, Celvivo_literature CORE, cardiac_organoid_literature, cancer_organoid_literature, liver_organoid_literature, other_organoid_literature, kidney_organoid_literature, retinal_organoid_literature, Cellink_literature, organoid_literature old, lung_organoid_literature, 3Brain_literature) auto-refreshed daily by `~/.local/bin/openwiki-update-sources.sh`. Last sync 2026-08-17T18:30:02Z, total 6618 records. Complements RAGFlow (full-text), Obsidian (deep-reads), and OpenWiki (synthesis layer)."
tags: [nocodb, source, cross-agent-data, organoid-literature, 2026-08-17]
---
# NocoDB 文献库索引 — 跨 agent 数据层
> 数据源: NocoDB 13 个文献库 + 2 个公司库 (实时,每次 OpenWiki cron 跑时更新)
sources/ragflow.md
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---
type: "Reference"
title: "RAGFlow 全文检索索引 (Robin KB system)"
description: "Compact index of Robin's RAGFlow KB system at 10.10.10.254:9980 — 14 knowledge bases of full-text retrieval over PDF original text. Last sync 2026-08-17T18:30:02Z; landing returns 200, `/api/v1/datasets` returns 401 (auth-required). 2026-07-17 embedding/bge-reranker outage degraded vector retrieval but metadata + document downloads remain available; KB content sync runs over a degraded path."
tags: [ragflow, source, full-text-retrieval, rag, 2026-08-17]
---
# RAGFlow 全文检索索引 (Robin KB system)
> 数据源: RAGFlow (http://10.10.10.254:9980/) 14 个 KB 全文检索结果
sources/seafile.md
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---
type: "Reference"
title: "SeaFile 大文件存储索引"
description: "Compact index of Robin's SeaFile instance at 10.10.10.254:9898 (public domain fb.biokingdom.top) — 4-6 storage libraries for PDFs / product docs / literature sharing. v1.2 seafile-util skill (2026-07-16) wired up: 9898 API + 40-char token + `Authorization: Token <token>` header. Closes the loop PDF → SeaFile (storage) → Wiki.js (publish) → OpenWiki (index) → MiniMax code (query) → Robin (customer)."
tags: [seafile, source, file-storage, biokingdom, 2026-08-17]
---
# SeaFile 大文件存储索引
> 数据源: SeaFile (http://10.10.10.254:9898/) 共 N 个资料库
sources/web-search.md
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type: "Reference"
title: "Web Search Evidence"
description: "Compact, source-backed evidence and ingestion coverage for the web-search-1 Tavily lane tracking CelVivo, 3Brain, Cellink, and related organoid news."
tags: [source, web-search, tavily, celvivo, 3brain, cellink, organoids, 2026-08-12, 2026-08-15, 2026-08-16, 2026-08-17]
tags: [source, web-search, tavily, celvivo, 3brain, cellink, organoids, 2026-08-12, 2026-08-15, 2026-08-16, 2026-08-17, 2026-08-18]
---
# Web Search Evidence
> Connector: `web-search-1` (Tavily). This page records compact, relevant evidence from Tavily pulls; search results are discovery leads, not vendor-confirmed announcements. Latest successful pull: 2026-08-03 18:08 UTC. The 2026-08-08, 2026-08-10, 2026-08-12, 2026-08-15, and 2026-08-17 update attempts were skipped because the connector is disabled and `TAVILY_API_KEY` is not present; no new 24-hour evidence was available on any of these five runs.
> Connector: `web-search-1` (Tavily). This page records compact, relevant evidence from Tavily pulls; search results are discovery leads, not vendor-confirmed announcements. Latest successful pull: 2026-08-03 18:08 UTC. The 2026-08-08, 2026-08-10, 2026-08-12, 2026-08-15, 2026-08-17, and 2026-08-18 update attempts were skipped because the connector is disabled and `TAVILY_API_KEY` is not present; no new 24-hour evidence was available on any of these six runs.
## 2026-08-18 attempted update — skipped
- **Status:** skipped. `web-search-1` is not enabled; the connector reports that `enabled=true` must be set in `~/.openwiki/connectors/web-search/config.json`.
- **Authentication:** `TAVILY_API_KEY` is not present, so no Tavily request was made.
- **Coverage:** no raw data files were written for this attempted 24-hour window. The nightly searxng-fallback slot (`~/.openwiki/connectors/web-search/raw/2026-08-17T18-35-03-searxng-fallback/`) is also empty — no web-search evidence of any kind landed in the 24-hour window. No new CelVivo, 3Brain, Cellink, or organoid findings were available for synthesis; the latest successful pull remains 2026-08-03 18:08 UTC.
- **Synthesis:** no changes were made to `/themes.md`, `/commitments.md`, `/open-questions.md`, or `/personal-logistics.md` from this source attempt.
- **Operational note (cross-check):** the on-disk `~/.openwiki/connectors/web-search/config.json` does show `enabled: true` plus 6 Chinese-language queries (`CelVivo ClinoStar ClinoReactor 类器官培养新进展`, `3Brain HD-MEA 高密度微电极阵列 电生理`, `Cellink BIO X 3D生物打印 类器官`, `Femtobiomed CellShot 流式电转 精准医疗`, `类器官 vendor 2026年新发布`, `MiniMax M3 智能体 Hermes`). The agent runtime still reports the connector as disabled, so there is a discrepancy between disk config and runtime registry. This is an operational concern (connector enable / auth / re-registration), not a wiki-synthesis concern, and is recorded here for traceability rather than triggering wiki edits. The 2026-08-08, 2026-08-10, 2026-08-12, 2026-08-15, and 2026-08-17 runs hit the same blocker; this is the **sixth consecutive skip on the same code path**.
## 2026-08-17 attempted update — skipped
@@ -15,7 +23,7 @@ tags: [source, web-search, tavily, celvivo, 3brain, cellink, organoids, 2026-08-
- **Authentication:** `TAVILY_API_KEY` is not present, so no Tavily request was made.
- **Coverage:** no raw data files were written for this attempted 24-hour window. The nightly searxng-fallback slot (`~/.openwiki/connectors/web-search/raw/2026-08-16T18-35-03-searxng-fallback/`) is also empty — no web-search evidence of any kind landed in the 24-hour window. No new CelVivo, 3Brain, Cellink, or organoid findings were available for synthesis; the latest successful pull remains 2026-08-03 18:08 UTC.
- **Synthesis:** no changes were made to `/themes.md`, `/commitments.md`, `/open-questions.md`, or `/personal-logistics.md` from this source attempt.
- **Operational note (cross-check):** the on-disk `~/.openwiki/connectors/web-search/config.json` does show `enabled: true` plus 6 Chinese-language queries (`CelVivo ClinoStar ClinoReactor 类器官培养新进展`, `3Brain HD-MEA 高密度微电极阵列 电生理`, `Cellink BIO X 3D生物打印 类器官`, `Femtobiomed CellShot 流式电转 精准医疗`, `类器官 vendor 2026年新发布`, `MiniMax M3 智能体 Hermes`). The agent runtime still reports the connector as disabled, so there is a discrepancy between disk config and runtime registry. This is an operational concern (connector enable / auth / re-registration), not a wiki-synthesis concern, and is recorded here for traceability rather than triggering wiki edits. The 2026-08-08, 2026-08-10, 2026-08-12, and 2026-08-15 runs hit the same blocker; this is the **fifth consecutive skip on the same code path**.
- **Operational note (cross-check):** the on-disk `~/.openwiki/connectors/web-search/config.json` does show `enabled: true` plus 6 Chinese-language queries (`CelVivo ClinoStar ClinoReactor 类器官培养新进展`, `3Brain HD-MEA 高密度微电极阵列 电生理`, `Cellink BIO X 3D生物打印 类器官`, `Femtobiomed CellShot 流式电转 精准医疗`, `类器官 vendor 2026年新发布`, `MiniMax M3 智能体 Hermes`). The agent runtime still reports the connector as disabled, so there is a discrepancy between disk config and runtime registry. This is an operational concern (connector enable / auth / re-registration), not a wiki-synthesis concern, and is recorded here for traceability rather than triggering wiki edits. The 2026-08-08, 2026-08-10, 2026-08-12, and 2026-08-15 runs hit the same blocker; the 2026-08-18 run hit the same blocker too. This was the **fifth consecutive skip on the same code path at the time of the 2026-08-17 attempt** (and the sixth skip including the 2026-08-18 follow-up).
## 2026-08-15 attempted update — skipped
@@ -23,7 +31,7 @@ tags: [source, web-search, tavily, celvivo, 3brain, cellink, organoids, 2026-08-
- **Authentication:** `TAVILY_API_KEY` is not present, so no Tavily request was made.
- **Coverage:** no raw data files were written for this attempted 24-hour window. No new CelVivo, 3Brain, Cellink, or organoid findings were available for synthesis; the latest successful pull remains 2026-08-03 18:08 UTC.
- **Synthesis:** no changes were made to `/themes.md`, `/commitments.md`, `/open-questions.md`, or `/personal-logistics.md` from this source attempt.
- **Operational note (cross-check):** the on-disk `~/.openwiki/connectors/web-search/config.json` does show `enabled: true` plus 6 Chinese-language queries (`CelVivo ClinoStar ClinoReactor 类器官培养新进展`, `3Brain HD-MEA 高密度微电极阵列 电生理`, `Cellink BIO X 3D生物打印 类器官`, `Femtobiomed CellShot 流式电转 精准医疗`, `类器官 vendor 2026年新发布`, `MiniMax M3 智能体 Hermes`). The agent runtime still reports the connector as disabled, so there is a discrepancy between disk config and runtime registry. This is an operational concern (connector enable / auth / re-registration), not a wiki-synthesis concern, and is recorded here for traceability rather than triggering wiki edits. The 2026-08-08, 2026-08-10, and 2026-08-12 runs hit the same blocker; the 2026-08-17 run hit the same blocker too. This was the fourth consecutive skip on the same code path at the time of the 2026-08-15 attempt (and the fifth skip including the 2026-08-17 follow-up).
- **Operational note (cross-check):** the on-disk `~/.openwiki/connectors/web-search/config.json` does show `enabled: true` plus 6 Chinese-language queries (`CelVivo ClinoStar ClinoReactor 类器官培养新进展`, `3Brain HD-MEA 高密度微电极阵列 电生理`, `Cellink BIO X 3D生物打印 类器官`, `Femtobiomed CellShot 流式电转 精准医疗`, `类器官 vendor 2026年新发布`, `MiniMax M3 智能体 Hermes`). The agent runtime still reports the connector as disabled, so there is a discrepancy between disk config and runtime registry. This is an operational concern (connector enable / auth / re-registration), not a wiki-synthesis concern, and is recorded here for traceability rather than triggering wiki edits. The 2026-08-08, 2026-08-10, and 2026-08-12 runs hit the same blocker; the 2026-08-17 and 2026-08-18 runs hit the same blocker too. This was the fourth consecutive skip on the same code path at the time of the 2026-08-15 attempt (and the sixth skip including the 2026-08-17 and 2026-08-18 follow-ups).
## 2026-08-12 attempted update — skipped
@@ -580,3 +588,11 @@ on the existing `3brain-coreplate-2026-conference-positioning` verification comm
- **Tavily answer-text quality:** the 3Brain answer is now correct (first time in 11 pulls); the Cellink Lumen X answer is substantive; the Hermes/M3 answer is partially fabricated ("release date of June 1, 2026") — treat as untrusted. Connector-side quality flag for future pulls: continue to treat Tavily answer text as untrusted; trust the underlying URL + score + published_date.
- **Operational note for the connector:** Tavily is back online after a 3-day outage streak. The pull 8 / pull 9 / pull 10 advice to check `TAVILY_API_KEY`, Tavily status, and rate-limit posture no longer applies — the lane is functional again. No connector-side configuration change is required.
- **Coverage:** fetched `2026-08-03T18:08:50.866Z`; 10 queries; raw `~/.openwiki/connectors/web-search/raw/2026-08-03T18-07-31-803Z/web-search-results.json`; instance `web-search-1`.
queries; raw `~/.openwiki/connectors/web-search/raw/2026-08-03T18-07-31-803Z/web-search-results.json`; instance `web-search-1`.
ion commitment. No new commitment; existing commitment Notes are extended.
3. **CelVivo ClinoStar 2 / Thailand Lab 2026** — independent confirmation from an Indian distributor event page on the existing `celvivo-clinostar-2-nams-demo-2026` verification commitment. No new commitment; existing commitment Notes are extended.
- **Workflow tooling refreshes:** `agent-memory-architecture` Last seen → 2026-08-03 (akitaonrails/ai-memory research doc added). `hermes-agent-v0-19-quicksilver` and `MiniMax-m3` evidence columns refreshed with same-week artifacts (Last seen unchanged at 2026-08-03 from the HN pull).
- **Tavily answer-text quality:** the 3Brain answer is now correct (first time in 11 pulls); the Cellink Lumen X answer is substantive; the Hermes/M3 answer is partially fabricated ("release date of June 1, 2026") — treat as untrusted. Connector-side quality flag for future pulls: continue to treat Tavily answer text as untrusted; trust the underlying URL + score + published_date.
- **Operational note for the connector:** Tavily is back online after a 3-day outage streak. The pull 8 / pull 9 / pull 10 advice to check `TAVILY_API_KEY`, Tavily status, and rate-limit posture no longer applies — the lane is functional again. No connector-side configuration change is required.
- **Coverage:** fetched `2026-08-03T18:08:50.866Z`; 10 queries; raw `~/.openwiki/connectors/web-search/raw/2026-08-03T18-07-31-803Z/web-search-results.json`; instance `web-search-1`.
queries; raw `~/.openwiki/connectors/web-search/raw/2026-08-03T18-07-31-803Z/web-search-results.json`; instance `web-search-1`.
sources/wikijs.md
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---
type: "Reference"
title: "Wiki.js 索引 — 跨 agent 文档发布层"
description: "Compact index of Robin's Wiki.js instance at 10.10.10.254:3000/graphql — Biokingdom publishing layer for organoid / 3D bioprinting / HD-MEA / CRISPR organoid content. Last sync 2026-08-17T18:30:02Z; sample union (5 orderBy) returns 83 unique pages, ID range 22..1704, locale split en=5 / zh=78; max-id-based estimate ≥1704 pages (server-side `pages.list(limit:N)` caps at ~50, so full inventory requires frontend crawl / direct DB query)."
tags: [wikijs, source, publishing-layer, biokingdom, graphql, 2026-08-17]
---
# Wiki.js 索引 — 跨 agent 文档发布层
> 数据源: Wiki.js (http://10.10.10.254:3000/graphql) Biokingdom 实例
themes/05-robin-research.md
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type: "Reference"
title: "Theme 5 · Robin's personal research (vendor deep reads + sales ammunition + CRM)"
description: "Synthesis page for Robin's personal research portfolio — Obsidian vault + literature deep-read pipeline + sales ammunition + China distributor map + active CRM profiles + work-rhythm snapshots. Output routes into vendor themes 01 (organoid-equipment) and 02 (bioprinting)."
tags: [theme, research, vault, deep-read, sales, crm, life-sciences, 2026-08-17, 2026-08-15, 2026-08-13]
timestamp: 2026-08-17T18:09:32Z
tags: [theme, research, vault, deep-read, sales, crm, life-sciences, 2026-08-18, 2026-08-17, 2026-08-15, 2026-08-13]
timestamp: 2026-08-18T18:10:12Z
---
# Theme 5 · Robin's personal research (vendor deep reads + sales ammunition + CRM)
@@ -51,7 +51,7 @@ The diagram shows Robin's research substrate: a single Obsidian vault with 8 buc
## Knowledge substrate: Obsidian vault
Snapshot from [`/sources/git-repo.md`](/sources/git-repo.md) (last fetch 2026-08-17T18:09:32Z):
Snapshot from [`/sources/git-repo.md`](/sources/git-repo.md) (last fetch 2026-08-18T18:10:12Z):
| Field | Value |
| --- | --- |
@@ -61,9 +61,9 @@ Snapshot from [`/sources/git-repo.md`](/sources/git-repo.md) (last fetch 2026-08
| Ahead of origin/main | 20 commits new since 2026-08-03 fetch (was 13 at the 2026-08-15 fetch; the +7 delta is the Quintard 2024 + Guo 2026 clusters) |
| Auth | local path only — no remote, no credentials |
| Working-tree state | dirty (23 untracked files + 2 new untracked directories — `celvivo_commercial/1331651_20260630_131201.pdf` + `templates/类器官IRB申请清单.md` — both untracked; the `Review/zhou2023_computer_vision_microfluidics.md` first-entry-in-Review/-subfolder is still-uncommitted, carrying forward from the 2026-08-13 fetch) |
| Raw manifest | `~/.openwiki/connectors/git-repo/raw/2026-08-17T18-09-32-895Z/manifest.json` |
| Raw manifest | `~/.openwiki/connectors/git-repo/raw/2026-08-18T18-10-12-916Z/manifest.json` |
| **Latest cluster (2026-08-16, replacing the 2026-08-12 Liang 2026 cluster)** | **Quintard 2024 Nat Commun + Guo 2026 Front Cell Dev Biol 7-commit LDR cluster** (`0fc8db24` Quintard adds file 189 lines → `290e9635` -v2 → `24c713de` -v3 → `4073abf4` -v4 → `2e6f5989` Guo adds file 170 lines → `00f824f2` -v2 → `a4fa5a32` -v3) — **net-new external evidence** (DOI 10.1038/s41598-026-42990-2, PMID 41857098, mouse liver 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) |
| **Latest uncommitted artifact (2026-08-13 → 2026-08-17, multi-file)** | `04-Literature/Deep-Reads/Review/zhou2023_computer_vision_microfluidics.md` (carry-forward untracked from 2026-08-13) + **2 new untracked directories added at the 2026-08-17 fetch**: `celvivo_commercial/1331651_20260630_131201.pdf` (6-30 quote PDF migrated into new folder) + `templates/类器官IRB申请清单.md` (180-line IRB application checklist derived from Guo 2026; Robin's first customer-facing template produced from a single deep-read — see the new Templates subtree below) |
| **Latest uncommitted artifact (2026-08-13 → 2026-08-17, multi-file, unchanged at the 2026-08-18T18:10Z fetch)** | `04-Literature/Deep-Reads/Review/zhou2023_computer_vision_microfluidics.md` (carry-forward untracked from 2026-08-13, now at **7-day carry-forward** at the 2026-08-18 fetch — file mtime `2026-08-11 16:31:54 +0800` so mtime-based carry-forward is 7 days; first-observation-date-based carry-forward is 5 days; structural signal continues to weaken per `/sources/git-repo.md` Notable-entity entry) + **2 new untracked directories added at the 2026-08-17 fetch**: `celvivo_commercial/1331651_20260630_131201.pdf` (6-30 quote PDF migrated into new folder) + `templates/类器官IRB申请清单.md` (180-line IRB application checklist derived from Guo 2026; Robin's first customer-facing template produced from a single deep-read — see the new Templates subtree below) |
### Vault navigation index (top-level folders)
@@ -413,4 +413,5 @@ These are source-anchored but not vendor-anchored — they live here for traceab
| Where does Cellink output land? | [`/themes/02-bioprinting.md`](/themes/02-bioprinting.md) |
| What does Quintard 2024 say about vascularized organoid chips? | `obsidian-vault/Literature/Deep-Reads/Organoid/quintard_2024_vasorganoid_chip.md` (vault path; deep-read synthesis not yet split out to `/sources/`) |
| What does Guo 2026 say about organoid IRB ethics? | `obsidian-vault/Literature/Deep-Reads/Organoid/guo_2026_organoid_ethical_review.md` (vault path; deep-read synthesis not yet split out to `/sources/`) |
| What's the IRB application checklist for organoid research? | `templates/类器官IRB申请清单.md` v1.0 (vault path; untracked) ||th; deep-read synthesis not yet split out to `/sources/`) |
| What's the IRB application checklist for organoid research? | `templates/类器官IRB申请清单.md` v1.0 (vault path; untracked) ||