project_zeta_q3_eps_iota_S5_fibo_sssom_2026_05_02

ζ-Q3 ε.ι S5 FIBO SSSOM alignment 3-mapping spike — outcome-VALIDATED 2026-05-02

Outcome

outcome-VALIDATED — kill-condition NOT MET on any of 4 clauses. End-to-end pipeline sssom validate → sssom convert → robot merge → robot reason --reasoner ELK runs cleanly on a 3-mapping TSV authored against actual FIBO IRIs. Total compute time ~5.77 s across 4 toolchain steps. All 3 mappings preserved through pipeline. No unsatisfiable / inconsistent reports.

Verdict: ε.ι Layer 2 lock-frame (“ω.η SSSOM-mediated cross-ontology alignment via inherit.sssom.tsv” — locked 2026-05-02 at Q-004) survives the actual-FIBO-IRI test. Toolchain (sssom-py 0.4.19 + ROBOT 1.9.6 + ELK) production-ready for Phase-1 Sprint S2 incremental authoring; no architectural change required.

Findings

Step	Tool	Wall-clock	Output	Exit
1	sssom validate inherit-fibo.sssom.tsv	1.71 s	(empty stderr)	0
2	sssom convert ... --output-format owl	1.85 s	2,266 B Turtle	0
3	java -jar robot.jar merge	1.07 s	6,166 B RDF/XML	0
4	java -jar robot.jar reason --reasoner ELK	1.14 s	6,166 B (identical to merge)	0
Total	—	~5.77 s	—	—

3 mappings authored:

• inherit:FinancialInstrument skos:exactMatch fibo-fbc-pas-fpas:FinancialInstrument (0.95 confidence)
• inherit:RealProperty skos:closeMatch fibo-fnd-arr-asmt:Asset (0.80; SKOS-correctly weaker than exactMatch since FIBO Asset is more general)
• inherit:Liability skos:exactMatch fibo-fnd-acc-aeq:Liability (0.90)

5 FIBO IRIs pre-verified by orchestrator at 2026-05-02T~14:55 BST all HTTP 200. mapping_justification: semapv:LexicalMatching per SSSOM 1.0.

ELK produced no new inferences (output identical to merge) — expected because SKOS predicates are annotation-level not TBox-level; richer test (FIBO loaded as ontology import + reason) is Phase-1 Sprint S2 follow-on, out-of-scope per plan §3 Task 5 Step 6.

Implications for ε.ι Layer 2 lock-time framing

ω.η Q-004 lock 2026-05-02 set ε.ι Layer 2 lock-frame as: “single-upper BFO 2020 OWL inheritance + SSSOM-mediated PROV-O + IAO alignment in inherit.sssom.tsv”. S5 evidence STANDS this lock-frame at FIBO extension level:

1. SSSOM TSV authoring is mechanical — 3 alignments authored in <5 min; production cohort 30-50 alignments × ~5 min/each ≈ 2.5-4 hours junior-engineer.
2. Toolchain CI integration is fast — total 5.77 s for 3 mappings; linear extrapolation to 50 mappings ≈ 30-60 s — well under 5 min CI gate budget.
3. No architectural pivot required — sssom-py 0.4.19 + ROBOT 1.9.6 + ELK matches production toolchain pin (consistent with arch-state §11 S2 + S2.5 + S2.6 + S3 toolchain pins).
4. A-22 SSSOM-canonical pin EXTENSION candidate at Phase E Task 13 lock-time: add per-source-ontology rows for FIBO 2024.06 + LADM (Phase-1.5 trigger) alongside existing CCO + IAO + IOF + PROV-O.

Cross-references

• T-file: ~/off-github/library/projects/inherit/T-spike-eps-iota-S5-fibo-sssom-2026-05-02.md v1.0 (22 KB, 199 lines)
• arch-state v3.24 → v3.25 §11 S5 row LANDED + Changelog row + lastmod 2026-05-02T15:32
• Q-003 v1.6 → v1.7 §10 S5 row LANDED + CHANGELOG entry + lastmod 2026-05-02T15:32
• MEMORY.md +1 entry (this file)
• Active-work-log entry updated (S5 in-flight → S5 closed)
• Companion spike artefacts at /tmp/spike-s5-fibo/: inherit-fibo.sssom.tsv (1,203 B; 3 mappings + curie_map metadata), inherit-fibo.owl (2,266 B; sssom-py-emitted Turtle/OWL), inherit-fibo-merged.owl (6,166 B; ROBOT merge), inherit-fibo-reasoned.owl (6,166 B; ROBOT reason ELK), validate/convert/merge/reason logs

Methodological observations

1. First spike to validate the SSSOM toolchain end-to-end on actual FIBO IRIs — S2 / S2.5 / S2.6 used schema-automator / owlready2 directly for ontology loading; S3 + S4 used Catala + LinkML codegen; ROBOT was not in any prior spike’s loop. S5 closes a distinct path through the ε.ι aspirational synthesis architecture.
2. First spike to apply strict-vs-spirit reading discipline IN ADVANCE rather than reactively — pre-S5 checked all 4 kill clauses for framing artefacts (per S3 + S2.6 pattern); none found; outcome cleanly VALIDATED with no MITIGATED ambiguity. Discipline now operates as a pre-flight check.
3. Orchestrator pre-verification of FIBO IRIs honoured — saves spike-runner ~15s; trust-but-verify spot-check viable if needed.
4. Plain outcome-VALIDATED (not WITH-METHODOLOGICAL-SUBSTITUTION nor WITH-PROVISIONING-NOTE) — first clean VALIDATED in the FIBO/SSSOM-toolchain-test category. Demonstrates that when substrate + measurement instrument + kill clauses are all well-framed, plain VALIDATED suffices.
5. Parallel-session contention surfaced — S5 ran in parallel with S2.9b pgvector follow-on; both wrote to arch-state in close succession (15:30-15:32 BST). Edit tool’s stale-Read detection aborted my edits with “modified since read” until I re-read; re-reads showed S2.9b’s updates landed cleanly; my edits then applied without conflict. Pattern: serialise-via-Edit-stale-detection works for low-frequency contention without explicit locking. Refined-prompt v3.7 candidate: document this pattern for downstream parallel spike-runners.
6. Logging-contract closed within same session — continues post-S2 + S2.5 + S2.6 + S3 + S2.10 + S4 + S2.9 + S2.9b discipline; 9 spikes consecutively.

Honesty caveats

• Scope-limit: ROBOT reason ran on SSSOM-emitted OWL alone (3 alignment axioms + ontology metadata), NOT on FIBO loaded as an ontology import. Full FIBO reason-time test deferred to Phase-1 Sprint S2 follow-on (~1 day).
• ELK produced no new inferences — expected because SKOS predicates are annotation-level not TBox-level; not a defect.
• Placeholder ORCID orcid:0000-0000-0000-0000 used per plan; production replaces with real ORCIDs (richard-task #214 cohort).
• Single-reasoner-validated — only ELK exercised; HermiT and Whelk pre-staged as alternatives but NOT exercised because kill-condition not met.
• Step 2 re-verification skipped per orchestrator pre-verification table.