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Reference Git repo — evidence index (Obsidian vault + OpenWiki wiki, 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 `09bec36702cdbd8ef1d2644919ca337248ae6bff`, 2026-09-11, **vault HEAD bumped `391e4713` → `09bec367`** in the 2026-09-10T18:19Z → 2026-09-11T18:14Z 24-hour window, **vault silence streak BROKEN after 11 calendar days** — **2 new vault commits** since the 2026-08-31T18:09Z THIRD consecutive 5-paper CelVivo LDR cluster: `1fd63019` 2026-09-10 `feat(literature): Tomas 2026 HGSC carboplatin/PARPi spheroid+organoid deep-read` adding `04-Literature/Deep-Reads/tomas-2026-hgsoc-carboplatin-parpi-spheroid-organoid.md` (Western University HGSC ovarian-cancer precision-medicine deep-read, **0 vendor callouts**, `?? 0` per vendor-mapping discipline, no 3Brain reference per SOP cleanup rule) + `09bec367` 2026-09-11 `literature: 精读 NocoDB Id=3029 Air-liquid interface-centered oxygen engineering in human br (飞轮 v4 自动 sink)` adding `Literature/Deep-Reads/Organoid/vijakumaran2026-brain-organoid-ali-oxygen-engineering.md` (brain-organoid ALI oxygen engineering — first paper routed through the v4 Flywheel auto-sink pipeline)); carry-forward untracked-file set bumps: `Review/zhou2023_computer_vision_microfluidics.md` 29 → **30-day carry-forward** (27 → **28 fetches silent**, stale carry-forward note per 2026-08-28 demotion), `celvivo_commercial/` + `templates/` 24 → **25-day carry-forward** (both confirmed one-off alongside `Review/` at the 2026-08-28 fetch, carrying forward unchanged at the 2026-08-29 + 2026-08-30 + 2026-08-31 + 2026-09-01 + 2026-09-02 + 2026-09-03 + 2026-09-04 + 2026-09-05 + 2026-09-06 + 2026-09-07 + 2026-09-08 + 2026-09-09 + 2026-09-10 + **2026-09-11** fetches), `deepread_40240593/` 17 → **18-day carry-forward** (mtime unchanged across **17 consecutive silent fetches** since creation, working-folder pipeline hypothesis continuing to weaken); and openwiki-wiki at /home/ldw/.openwiki/wiki (main branch, HEAD `55d930ffbc0a658aa335683f0d412496b32af549`, 2026-09-11, **4 new automated wiki commits in the 2026-09-10T18:19Z → 2026-09-11T18:14Z 24-hour window: `299eeab` chore(sources): refresh NocoDB/SeaFile/Wiki.js/RAGFlow counts (sources-sync 2026-09-10 — the **twenty-seventh** consecutive sources-sync re-applying the 2026-08-15 count-data wipe pattern after `7e2072c` 2026-09-09 + `556d937` 2026-09-08 + `56aeb69` 2026-09-07 + `0f8555e` 2026-09-06 + `0be3b8a` 2026-09-05 + `88635ed` 2026-09-04 + `58168e7` 2026-09-03 + `cedbb7f` 2026-09-02 + `0890fdb` 2026-09-01 + `9582dea` 2026-08-31 + `d56da3a` 2026-08-30 + `37d1ba6` 2026-08-29 + `c992dd6` 2026-08-28 + `502281f` 2026-08-27 + `ebb95c0` 2026-08-26 + `1003b92` 2026-08-25 + `127c2dc` 2026-08-24 + `8f8f767` 2026-08-23 + `43d4548` 2026-08-22 + `f6c2576` 2026-08-21 + `bd30339` 2026-08-20 + `dcb53a2` 2026-08-19 + `1fc73ae` 2026-08-18 + `be49285` 2026-08-17 + `997b648` 2026-08-16 + `2507925` 2026-08-15) committed `sources/{nocodb,ragflow,seafile,wikijs}.md`, then `1e6a7cb` chore: daily update 2026-09-10 (per `git show --stat 1e6a7cb` the commit touched 14 files including `.last-update.json` + `open-questions.md` + `quickstart.md` + `sources/README.md` + `sources/git-repo.md` + `sources/hackernews.md` + `sources/index.md` + `sources/nocodb.md` + `sources/ragflow.md` + `sources/seafile.md` + `sources/web-search.md` + `sources/wikijs.md` + `themes.md` + `themes/05-robin-research.md` + `themes/index.md`), then `2bf104e` chore: daily update 2026-09-11 (per `git show --stat 2bf104e` the commit touched 12 files including `.last-update.json` + `quickstart.md` + `sources/README.md` + `sources/hackernews.md` + `sources/literature.md` + `sources/nocodb.md` + `sources/ragflow.md` + `sources/seafile.md` + `sources/web-search.md` + `sources/wikijs.md` + `themes.md` + additional files), then `55d930f` chore(sources): refresh NocoDB/SeaFile/Wiki.js/RAGFlow counts (sources-sync 2026-09-11 — the **twenty-eighth** consecutive sources-sync re-applying the 2026-08-15 count-data wipe pattern); the very next synthesis edits from the HN-1 2026-09-11 + web-search-1 2026-09-11 (skipped) + this git-repo-1 2026-09-11T18:14Z run re-touched files leaving the dirty count at **10 per the manifest `changedFiles` list** — `M .last-update.json` + `M index.md` + `M quickstart.md` + `M sources/hackernews.md` + `M sources/nocodb.md` + `M sources/ragflow.md` + `M sources/seafile.md` + `M sources/web-search.md` + `M sources/wikijs.md` + `M themes.md` — **same shape as the 2026-09-10T18:19Z fetch (10-dirty-file baseline)** because the `55d930f` sources-sync on 2026-09-11 re-touched the 4 source-sync files (`sources/nocodb.md` + `sources/ragflow.md` + `sources/seafile.md` + `sources/wikijs.md`) that the prior daily updates had cleared via commit, plus the CLI metadata cycle re-touched `index.md` + `quickstart.md` (carrying over from the prior metadata cycle) + `.last-update.json` + `sources/hackernews.md` + `sources/web-search.md` + `themes.md` (4 metadata-cycle files); the 10-dirty-file list does not include `sources/git-repo.md` + `sources/README.md` + `sources/literature.md` + `themes/05-robin-research.md` + `themes/index.md` (re-touched by the `1e6a7cb` + `2bf104e` daily updates and the synthesis-layer edits that this run produces) or `commitments.md` + `open-questions.md` + `sources/openwiki-version-drift.md` (not re-touched by either the daily update or the CLI metadata cycle at this fetch); **also `?? NO` (new untracked wiki file — content `Has ?: 0` — appears to be a stray test artifact, no synthesis relevance)**.**. This page is a navigation index — content ingestion (paper deep reads, sales scripts, customer files) happens via the Hermes skill and RAGFlow, not here.
sources
git-repo
vault
wiki
manifest
2026-09-11
2026-09-10
2026-09-09
2026-09-08
2026-09-07
2026-09-06
2026-09-05
2026-09-04
2026-09-03
2026-09-02
2026-09-01
2026-08-31
vault-silence-broken
vault-resumed-after-11d
twenty-seventh-sources-sync
twenty-eighth-sources-sync
twenty-ninth-git-repo-fetch
tomas-2026-hgsoc-parpi-spheroid-organoid
vijakumaran-2026-brain-organoid-ali-oxygen-engineering
flywheel-v4-auto-sink
wiki-4-new-commits
review-templates-celvivo-commercial-confirmed-one-off
deepread-40240593-eighteen-silent-fetches
2026-09-11T18:14:00Z

Git repo — evidence index

This page is the compact source-evidence index for the local git-repo connector, which ingests Robin's Obsidian vault (/home/ldw/workspace) and the local OpenWiki wiki (/home/ldw/.openwiki/wiki). Each ingestion run writes a JSON manifest under ~/.openwiki/connectors/git-repo/raw/.

Source config

  • Connector config path: ~/.openwiki/connectors/git-repo/config.json
  • Two configured local repos:
    • obsidian-vault at /home/ldw/workspace (branch: main, HEAD 09bec36702cdbd8ef1d2644919ca337248ae6bff, 2026-09-11 — 37 commits since 2026-08-03 fetch, +2 since 2026-09-09T18:11Z fetch)
    • openwiki-wiki at /home/ldw/.openwiki/wiki (branch: main, HEAD 55d930ffbc0a658aa335683f0d412496b32af549, 2026-09-11 — bumped from 7e2072c via 4 automated commits)
  • Authentication: local path only — no remote, no credentials

Latest manifest

  • ~/.openwiki/connectors/git-repo/raw/2026-09-11T18-14-12-972Z/manifest.json (generated 2026-09-11T18:14:13Z)
  • Vault HEAD: 09bec36702cdbd8ef1d2644919ca337248ae6bff (bumped from 391e4713 at 2026-09-11T18:14Z)
  • Wiki HEAD: 55d930ffbc0a658aa335683f0d412496b32af549 (bumped from 7e2072c at 2026-09-11)
  • 2 new vault commits in the 24-hour window (vault HEAD bumped 391e4713 → 09bec367, vault silence streak BROKEN after 11 calendar days)
  • 4 new automated wiki commits in the 24-hour window (299eeab sources-sync 2026-09-10 — the twenty-seventh consecutive sources-sync + 1e6a7cb daily update 2026-09-10 + 2bf104e daily update 2026-09-11 + 55d930f sources-sync 2026-09-11 — the twenty-eighth consecutive sources-sync)
  • 10 uncommitted wiki files in working tree per the manifest changedFiles list (same shape as the 2026-09-10T18:19Z fetch — M .last-update.json + M index.md + M quickstart.md + M sources/hackernews.md + M sources/nocodb.md + M sources/ragflow.md + M sources/seafile.md + M sources/web-search.md + M sources/wikijs.md + M themes.md)
  • ?? NO — new untracked wiki file (content Has \n?: 0 — stray test artifact; no synthesis relevance)

Carry-forward untracked directories

Directory / file Carry-forward Fetches silent Status
Review/zhou2023_computer_vision_microfluidics.md 30-day 28 stale carry-forward note (confirmed one-off at 2026-08-27 fetch, demoted at 2026-08-28 fetch)
celvivo_commercial/ 25-day 25 stale carry-forward note (confirmed one-off alongside Review/ at 2026-08-28 fetch)
templates/ 25-day 25 stale carry-forward note (confirmed one-off alongside Review/ at 2026-08-28 fetch)
deepread_40240593/ 18-day 17 working-folder pipeline hypothesis continuing to weaken (mtime unchanged across 17 consecutive silent fetches since creation)

Robin 8-07 added — untracked regional agent files (context only)

The 8 untracked regional agent files Robin added on 2026-08-07 (per the source-specific instruction "Track vault + OpenWiki wiki mtime + commits (Robin 8-07 added)") remain in the vault working tree as uncommitted artifacts, with no mtime change observed since the 2026-08-07 baseline:

  • 02-Clients/Agents/全国经销商地图-2026-0807.md
  • 02-Clients/Agents/华东-2026-0807.md
  • 02-Clients/Agents/华北-2026-0807.md
  • 02-Clients/Agents/华南-2026-0807.md
  • 02-Clients/Agents/山东-2026-0807.md
  • 02-Clients/Agents/湖北-2026-0807.md
  • 02-Clients/Agents/西北-2026-0807.md
  • 02-Clients/Agents/西南-2026-0807.md

These files are documented in /sources/distributors-china-2026.md (with privacy rules per /sources/agents.md) — no fresh synthesis update needed at this fetch.

Recent commits — vault (last 7)

The 5 most recent vault commits are the new 2 (Tomas 2026 + Vijakumaran 2026) on top of the 2026-08-31 THIRD consecutive single-day 5-paper CelVivo LDR burst. Vault HEAD bumped 391e4713 → 09bec367 — vault silence streak BROKEN after 11 calendar days:

  1. 09bec367 2026-09-11 — literature: 精读 NocoDB Id=3029 Air-liquid interface-centered oxygen engineering in human br (飞轮 v4 自动 sink) (brain-organoid ALI oxygen engineering — first paper routed through the v4 Flywheel auto-sink pipeline; new file at Literature/Deep-Reads/Organoid/vijakumaran2026-brain-organoid-ali-oxygen-engineering.md)
  2. 1fd63019 2026-09-10 — feat(literature): Tomas 2026 HGSC carboplatin/PARPi spheroid+organoid deep-read (Western University; new file at 04-Literature/Deep-Reads/tomas-2026-hgsoc-carboplatin-parpi-spheroid-organoid.md)
  3. 391e4713 2026-08-31 — deep-read: Yan 2024 Cell Reports TMEM106B SARS-CoV-2 ACE2-independent brain organoids (CelVivo)
  4. 4fca0123 2026-08-31 — deep-read: Miao 2025 Cell vascularized lung/gut organoids (CelVivo ClinoReactor)
  5. fad7e21e 2026-08-31 — deep-read: Nguyen 2024 npj Viruses JEV G4 2022 Australia brain organoids (CelVivo)
  6. 030f31ed 2026-08-31 — deep-read: Aiello 2025 EMBO reports reproducible brain organoids (CelVivo ClinoReactor)
  7. eb24ab72 2026-08-31 — deep-read: Stewart 2023 Front Microbiol BA.5/XBB neurotropic brain organoids (CelVivo)

Recent commits — wiki (last 5)

  1. 55d930f 2026-09-11 — chore(sources): refresh NocoDB/SeaFile/Wiki.js/RAGFlow counts (sources-sync 2026-09-11, twenty-eighth consecutive sources-sync)
  2. 2bf104e 2026-09-11 — chore: daily update 2026-09-11 (12 files modified per git show --stat 2bf104e)
  3. 1e6a7cb 2026-09-10 — chore: daily update 2026-09-10 (14 files modified per git show --stat 1e6a7cb)
  4. 299eeab 2026-09-10 — chore(sources): refresh NocoDB/SeaFile/Wiki.js/RAGFlow counts (sources-sync 2026-09-10, twenty-seventh consecutive sources-sync)
  5. 7e2072c 2026-09-09 — chore(sources): refresh NocoDB/SeaFile/Wiki.js/RAGFlow counts (sources-sync 2026-09-09, twenty-sixth consecutive sources-sync)

Synthesis-policy — this run

  • Vault delta: 2 new vault commits (Tomas 2026 + Vijakumaran 2026) — vault silence streak BROKEN after 11 calendar days since the 2026-08-31 THIRD consecutive 5-paper CelVivo LDR cluster. Both new papers route through the standard 04-Literature/Deep-Reads/<application-domain>/<DOI>.md pattern. The v4 Flywheel auto-sink pipeline (visible in the 09bec367 commit message "飞轮 v4 自动 sink") is the first observation of Robin's LDR pipeline v4 in action — the v3 SOP was 9 steps (per the 2026-08-25 9aa2af4c vendor-mapping retrofit); the v4 auto-sink iterates the SOP with an automated commit/sink step.
  • Wiki delta: automated maintenance only (CLI metadata cycle + sources-sync + daily update + sources-sync). The 4 new wiki commits are routine: 2 daily updates + 2 sources-syncs (the standard cadence).
  • Synthesis-layer impact:
    • Vault silence streak BROKEN — flips the narrative from "11 calendar days of vault silence" to "vault resumed after 11-day pause" + "2 new vault commits since the 2026-08-31 cluster" + "v4 Flywheel auto-sink pipeline first observation"
    • /sources/literature.md gets a new 2026-09-11 (Vijakumaran 2026 brain-organoid ALI oxygen engineering — first v4 Flywheel auto-sink entry) row; the Tomas 2026 entry was added in a prior run (2026-09-10 row already present)
    • /themes.md class-organoid-3d-bioprinting row gets Last-seen refresh 2026-08-25 → 2026-09-11 + Evidence count bump 37+ → 39+ (Tomas 2026 + Vijakumaran 2026 = 2 new entries)
    • /themes/05-robin-research.md vault-snapshot metadata refreshed + 04-Literature/Deep-Reads/ breakdown table updated with Vijakumaran 2026 row + the 4 carry-forward untracked directories bumped to 30/25/25/18-day carry-forward
    • /quickstart.md gets a new "Latest update — git-repo-1 (2026-09-11T18:14Z)" paragraph + the description frontmatter mentions the 2026-09-11T18:14Z git-repo-1 fetch + the vault silence streak broken + the 2 new vault commits + the 4 new wiki commits + the 30/25/25/18-day carry-forward bump
    • /sources/index.md + /sources/README.md get their git-repo.md description entries refreshed
  • Wiki edits: see the corresponding "Latest update — git-repo-1 (2026-09-11T18:14Z)" paragraph on /quickstart.md for the full delta list.

Previous run

  • 2026-09-09T18:11Z — vault HEAD unchanged at 391e4713, 2 new wiki commits (f7450e9 + 7e2072c — the twenty-sixth consecutive sources-sync), 10-dirty-file baseline, the 4 carry-forward untracked directories bumped to 29/24/24/17-day carry-forward. See /themes/05-robin-research.md + /quickstart.md for the full synthesis of that run.
  • 2026-09-10T18:19Z — manifest written by a prior ingestion cycle but no corresponding wiki update (the wiki HEAD was still 299eeab at the 2026-09-10T18:19Z manifest timestamp, between the 7e2072c 2026-09-09 sources-sync and the 1e6a7cb 2026-09-10 daily update). The 2026-09-10T18:19Z manifest observed the same vault HEAD 391e4713 (vault still silent at that timestamp).
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