Outline
The manuscript (manuscript.md) now embodies the full structure; this file is the one-line map and the drafted-vs-TODO status, not a second copy of the prose.
One-Sentence Version
Foundry compiles curated workflow-construction knowledge into target-specific agent skills, preserving provenance between human-inspectable sources and executable agent procedures.
Reader
Bioinformatics readers interested in workflow interoperability, agent-assisted workflow authoring, and provenance of generated scientific artifacts.
Positioning
Lead with the knowledge-to-skill compiler idea, not the website. The site is the human view of the same content.
Section status
| Manuscript section | Status |
|---|---|
| Abstract | drafted; headline result line pending case studies |
| Introduction (integration tax → LLM failures → monolithic skills → KB-as-compiler) | drafted |
| Architecture, Decomposition, Casting Compiler, Schema-Driven Trust, Corpus Grounding, Progressive Disclosure, Portability | drafted from white paper |
| Evidence / Case Studies | scaffold only — see case-study.md, evidence.md |
| Comparisons (wiki, skill bundle, generated docs, RAG, prior monolithic skills) | drafted |
| Discussion + Limits and Honest Risks | drafted |
| Methods | drafted from project docs |
| Availability | TODO — public-posture decision needed |
| Supporting Information | plan listed; fills as case studies land |
| References / Figures | drafted; see references.yml and figures.md for open items |