Add devops centralization handoff notes (for the operations-repo move) - #164
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Consolidates the lessons, procedures, and decisions from the v0.4.0 Blazegraph-removal rollout into provision/CENTRALIZATION_NOTES.md, so the planned centralization of devops into geneontology/operations can pick them up: the manual GO-CAM index-file generation procedure (gocam-py), deploy process + gotchas (--network host, docker compose v2, USE_CLOUDFLARE, no version endpoint), the Cloudflare->CloudFront->S3 publishing/cache topology and cutover, the rollout record (issues #135-#163, release v0.4.0), and the open follow-ups. Adds a pointer from AGENTS.md (CLAUDE.md). Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>
Adds the v0.4.0 -> v0.4.1 ribbon regression to the handoff notes: the GOlr relabel of the molecular_function root GO:0003674 broke the annotation_class_label self-join in get_ontology_subsets_by_id (KeyError -> 500 on every goslim_agr ribbon call), fixed by resolving aspect roots by stable GO ID (ASPECT_ROOTS, #167). Captures it as an architecture lesson (§1: key on GO IDs not labels; the break was a GOlr data condition identical on v0.3.x/v0.4.0, so an API rollback did not mitigate), a local-test gotcha (§4: uv venv py3.11 + httpx; the 3 mygene HGNC:12139 failures are #159 drift), the rollout record (§6: #165/#166/#167 + release v0.4.1), and a follow-up (§7: #166). Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>
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What
Adds
provision/CENTRALIZATION_NOTES.md— a portable, in-repo handoff document preserving the lessons and procedures from the May 2026v0.4.0non-Blazegraph rollout, for the planned centralization of devops intogeneontology/operations. Also adds a pointer fromAGENTS.md(=CLAUDE.md) so it's the first thing found when doing API devops.Why
The detailed working notes from this rollout otherwise live only in machine-local Claude memory (project-path-scoped), which an agent coordinating the move into
operationsmay not see. This commits the durable, findable, repo-portable record.Contents
v0.4.0).uvworkaround).current.geneontology.org= Cloudflare → CloudFront → S3; purge inner-first; verify vias3api head-object).--network host, Docker Compose v2 vs the staledocker-composein README.api.md,USE_CLOUDFLARE=0, branch-aware provisioning, no version endpoint → OpenAPI /docker inspectfingerprint).api.geneontology.orgcutover + cache phase-out.v0.4.0rollout record (issues GO API route does not return all expected results for /gp/<CURIE>/models #135–/api/users/{orcid}/gp response shape changed (object→list) and is untested after Blazegraph removal #163, releasev0.4.0) and open follow-ups (Live-data QC test failures: GOlr annotation_class drift (17) + mygene/Alliance HGNC:12139 lookup (3) #159, GO hierarchy children capped at rows=10000 — truncates large terms (was unbounded under SPARQL); confirm latency-vs-completeness intent #162, /api/users/{orcid}/gp response shape changed (object→list) and is untested after Blazegraph removal #163, pipeline automation).Docs-only; no code changes.
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