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• LABLOOP · Master Plan v6 — The Cartographer's Path: from program manager to published AI scientist for biotech
  heir homework against an answer key you wrote yourself | FermLit corpus, schema, 50-paper gold set, a measured extraction agent, Technical Report 1 | 8 | | III | 9-13 | **From sample to census** | Going from a pilot survey of 50 households to a national census, with a second audi root65×
• Week 06 — human gold standard
  # Week 06 — human gold standard [**Full learning notebook: explanations, step-by-step challenges, stashes and evidence**](./learning-notebook.md) · [NotebookLM export](./notebooklm.txt) Status: NOT_STARTED. execution-plan/weeks/week-06-human-gold-standard24×
• LABLOOP · Master Plan v5 — From program manager to published AI scientist for biotech
  T1[Thesis project FermLit: LLM agents read 2,000 fermentation papers, human-validated gold set] P1[Paper 1 · bioRxiv wk16: FermLit dataset + method + what papers fail to report] P2[Paper 2 · arXiv wk20 endorsed: hybrid soft sensors under data scarcity] S --> I1 -- root19×
• LABLOOP W06 — human gold standard: full learning notebook
  # LABLOOP W06 — human gold standard: full learning notebook Prepared 2026-09-23 for Peter Ciancaglini. This is a study and execution guide; it does not record that you completed the work. Keep your existing note execution-plan/weeks/week-06-human-gold-standard15×
• Programme progress
  ](./weeks/week-05-fermlit-corpus-and-schema/specs.md) — NOT_STARTED - [ ] Week 06: [human gold standard](./weeks/week-06-human-gold-standard/specs.md) — NOT_STARTED - [ ] Week 07: [measured extraction agent](./weeks/week-07-measured-extraction-agent/specs.md) — NOT_STARTED - [ ] execution-plan11×
• LABLOOP W07 — measured extraction agent: full learning notebook
  KS.md) · [NotebookLM upload text](./notebooklm.txt) [Previous notebook](../week-06-human-gold-standard/learning-notebook.md) · [Next notebook](../week-08-technical-report-gate/learning-notebook.md) ## 1. The week in plain language: what, why and where it leads Now the reading execution-plan/weeks/week-07-measured-extraction-agent6×
• Week 07 — measured extraction agent
  an-v6.md#week-7--the-extraction-agent-measured) · [Previous week review](../week-06-human-gold-standard/review.md) · [Next week](../week-08-technical-report-gate/specs.md) ## Outcome and relevance This week delivers the three concrete artifacts below and the supporting learning execution-plan/weeks/week-07-measured-extraction-agent6×
• Graph Report - biotech_skilling (2026-09-29)
  Week 04 — batchlens first release - Week 05 — fermlit corpus and schema - Week 06 — human gold standard - Week 07 — measured extraction agent - Week 08 — technical report gate - Week 09 — fermlit scale up - Week 10 — annotation agreement and analysis - Week 11 — fermlit dataset e graphify-out6×
• Graph Report - biotech_skilling (2026-09-29)
  Week 04 — batchlens first release - Week 05 — fermlit corpus and schema - Week 06 — human gold standard - Week 07 — measured extraction agent - Week 08 — technical report gate - Week 09 — fermlit scale up - Week 10 — annotation agreement and analysis - Week 11 — fermlit dataset e graphify-out/2026-09-296×
• LABLOOP W10 — annotation agreement and analysis: full learning notebook
  aptions and plots. **Dependency map from the existing programme.** - ← **From:** week 6 gold set + second annotator; week 9 2,000 records. - → **Feeds:** week 11 (formal completeness result), week 13 (Paper 1 skeleton figures), week 14 (Methods), week 16 (conformal prediction e execution-plan/weeks/week-10-annotation-agreement-and-analysis5×
• Week 06 commitment
  End date: not set. Available hours: confirm (planned ceiling 10). Primary outcome: human gold standard. Minimum that keeps the next gate alive: 50 gold JSONs. ## Deliverables to commit - [ ] `annotation-guidelines.md`: Each annotated value has a source sentence and document lo execution-plan/weeks/week-06-human-gold-standard4×
• Week 10 — annotation agreement and analysis
  III · Threads: B, M, FL · Next gate: 13** **Where this week sits.** - ← **From:** week 6 gold set + second annotator; week 9 2,000 records. - → **Feeds:** week 11 (formal completeness result), week 13 (Paper 1 skeleton figures), week 14 (Methods), week 16 (conformal prediction e execution-plan/weeks/week-10-annotation-agreement-and-analysis4×
• Graph Report - biotech_skilling (2026-09-19)
  Week 04 — batchlens first release - Week 05 — fermlit corpus and schema - Week 06 — human gold standard - Week 07 — measured extraction agent - Week 08 — technical report gate - Week 09 — fermlit scale up - Week 10 — annotation agreement and analysis - Week 11 — fermlit dataset e graphify-out/2026-09-194×
• Graph Report - biotech_skilling (2026-09-20)
  Week 04 — batchlens first release - Week 05 — fermlit corpus and schema - Week 06 — human gold standard - Week 07 — measured extraction agent - Week 08 — technical report gate - Week 09 — fermlit scale up - Week 10 — annotation agreement and analysis - Week 11 — fermlit dataset e graphify-out/2026-09-204×
• Graph Report - biotech_skilling (2026-09-20)
  Week 04 — batchlens first release - Week 05 — fermlit corpus and schema - Week 06 — human gold standard - Week 07 — measured extraction agent - Week 08 — technical report gate - Week 09 — fermlit scale up - Week 10 — annotation agreement and analysis - Week 11 — fermlit dataset e graphify-out/2026-09-234×
• LABLOOP — full weekly learning notebooks
  ) | [W05 stash](http://127.0.0.1:5000/learn?stash=LABLOOP-W05%20Notebook) | | 06 | [human gold standard](./weeks/week-06-human-gold-standard/learning-notebook.md) | [TXT](./weeks/week-06-human-gold-standard/notebooklm.txt) | [W06 stash](http://127.0.0.1:5000/learn?stash=LABLOOP-W execution-plan3×
• LABLOOP: week-by-week execution
  orpus and schema](./weeks/week-05-fermlit-corpus-and-schema/specs.md) | — | | 06 | [human gold standard](./weeks/week-06-human-gold-standard/specs.md) | — | | 07 | [measured extraction agent](./weeks/week-07-measured-extraction-agent/specs.md) | — | | 08 | [technical report gate] execution-plan2×
• LABLOOP v7 roadmap: hybrid, lead-first
  -|---|---| | 11 | FermLit related work and schema | week-05 | `RELATED.md` | | 12 | Human gold standard (**30 papers**, down from 50) | week-06 | 30 gold JSONs | | 13 | Measured extraction agent | week-07 | the F1 table, whatever it says | | 14 | Scale-up to a few hundred papers execution-plan2×
• LABLOOP W05 — fermlit corpus and schema: full learning notebook
  /week-04-batchlens-first-release/learning-notebook.md) · [Next notebook](../week-06-human-gold-standard/learning-notebook.md) ## 1. The week in plain language: what, why and where it leads FermLit begins by turning research papers into a well-defined collection and schema. A co execution-plan/weeks/week-05-fermlit-corpus-and-schema2×
• LABLOOP W03 — statistical batch monitoring: full learning notebook
  → **Feeds:** week 4 (hours-to-detection and false-alarm rate), week 8 (technical report "golden batch" section), week 17 (hours-to-detection per model in Paper 2), week 33-35 (batchlens alarms trigger labdocs deviation drafts). - ⟳ **Returns in:** every Loop Audit (week 29): "ho execution-plan/weeks/week-03-statistical-batch-monitoring1×
• Week 05 review and handoff
  ding. Updates to root PROGRESS / LOG / TODAY completed: [ ] [Next week](../week-06-human-gold-standard/specs.md) execution-plan/weeks/week-05-fermlit-corpus-and-schema1×
• Week 05 — fermlit corpus and schema
  week review](../week-04-batchlens-first-release/review.md) · [Next week](../week-06-human-gold-standard/specs.md) ## Outcome and relevance This week delivers the three concrete artifacts below and the supporting learning/branding/opportunity pack. The scientific or commercial o execution-plan/weeks/week-05-fermlit-corpus-and-schema1×