Catchup 16: Merge agent task wt4 (#50)

* Fix error-recovery integration stubs to accept requested_plot_vars

* Add traceability evidence row normalizer and import compatibility alias

* Add dependencies update policy and link it from related docs

* Add criterion-to-benchmark linkage and session dependency routing gates

- Normalizes criterion/benchmark/test matrix rows and enforces complete coverage when required.
- Merges validation-manifest session dependency markers into sweep routing decisions.
- Adds integration/quality coverage plus documented use-case artifact mappings in readiness docs.

* Harden reviewer terminal taxonomy and sweep retry guidance propagation

- Normalizes reviewer terminal failure payloads to stable versioned reason-code contracts.
- Propagates child sweep failures into retry guidance and a2a error metadata.
- Extends orchestrator and recovery tests for terminal-category and retry-guidance paths.

* Add camera-ready benchmark pipeline and stable metrics persistence

- Runs compare_models, generates camera-ready markdown tables, and writes a pipeline contract artifact.
- Accepts benchmark-row metrics in aggregation and preserves stable workflow_id when writing JSONL.
- Adds per-user token accounting and regression tests for pipeline and metrics contracts.

* Add Tier-2 schema warning channel with UQ recommendation payload

- Introduces UNNUMBERED-112 normalization for missing tier-2 stability parameters.
- Emits runtime warning/info channel with coupled UQ recommendations on schema build.
- Adds focused coverage for warning and pass paths in critical-parameter tests.

* Add v26.05 required-capability standards contract checks

- Verifies PRD required-capability behavior lines are present and explicit.
- Enforces implementation-location references for main, architect, reviewer, and metrics paths.
- Keeps standards coverage aligned with deployment-readiness release criteria.

* Fix error-recovery integration stubs to accept requested_plot_vars

* Fix error-recovery integration stubs to accept requested_plot_vars

* Fix ERF executable fallback resolution for local and superfacility runners

* Add manifest provenance check mode with provider-model filtering

* Implement provider-scoped FAISS layout and manifest provider-model keying

Author: jmsexton03

.gitignore

@@ -229,31 +229,22 @@ __marimo__/
 # ============================================================================
 # FAISS vector databases - regenerated from source
 database/faiss/
-!database/faiss/level0/
-!database/faiss/level0/*.faiss
-!database/faiss/level0/*_metadata.json
-!database/faiss/level1/
-!database/faiss/level1/pelelmex_*.faiss
-!database/faiss/level1/pelelmex_*_metadata.json
-!database/faiss/level1/pelec_*.faiss
-!database/faiss/level1/pelec_*_metadata.json
-!database/faiss/level1/erf_*.faiss
-!database/faiss/level1/erf_*_metadata.json
-!database/faiss/level1/amrex_*.faiss
-!database/faiss/level1/amrex_*_metadata.json
-!database/faiss/level2/
-!database/faiss/level2/pelelmex_*.faiss
-!database/faiss/level2/pelelmex_*_metadata.json
-!database/faiss/level2/pelec_*.faiss
-!database/faiss/level2/pelec_*_metadata.json
-!database/faiss/level2/erf_*.faiss
-!database/faiss/level2/erf_*_metadata.json
-!database/faiss/level2/amrex_*.faiss
-!database/faiss/level2/amrex_*_metadata.json
-!database/faiss/pelelmex_*
-!database/faiss/pelec_*
-!database/faiss/erf_*
-!database/faiss/amrex_*
+!database/faiss/cborg/
+!database/faiss/cborg/**/
+!database/faiss/cborg/**/*.faiss
+!database/faiss/cborg/**/*_metadata.json
+!database/faiss/cborg/**/index.pkl
+!database/faiss/cborg/**/faiss_provenance.json
+!database/faiss/cborg/**/build_session_manifest.json
+!database/faiss/cborg/level0/
+!database/faiss/amsc/
+!database/faiss/amsc/**/
+!database/faiss/amsc/**/*.faiss
+!database/faiss/amsc/**/*_metadata.json
+!database/faiss/amsc/**/index.pkl
+!database/faiss/amsc/**/faiss_provenance.json
+!database/faiss/amsc/**/build_session_manifest.json
+!database/faiss/amsc/level0/
 
 # All schema files with version hashes - these are generated
 database/schemas/*.json

…ase/faiss/amrex_case_details/index.faiss …iss/cborg/amrex_case_details/index.faissdatabase/faiss/amrex_case_details/index.faiss renamed to database/faiss/cborg/amrex_case_details/index.faiss database/faiss/amrex_case_details/index.faiss renamed to database/faiss/cborg/amrex_case_details/index.faiss

@@ -0,0 +1,70 @@
+{
+  "entries": [
+    {
+      "build_script": "build_all_indices.py",
+      "dependencies_commit": "99914444329f6be784c6a153581c53bc60ae8937",
+      "embedding_dimension": null,
+      "embedding_model": "text-embedding-3-small",
+      "embedding_provider": "cborg",
+      "generated_at": "2026-03-11T23:59:26.554232+00:00",
+      "level": "2",
+      "manifest_path": "level2/amrex_faiss_provenance.json",
+      "repo_commit": "99914444329f6be784c6a153581c53bc60ae8937",
+      "solver": "amrex",
+      "version": "1"
+    },
+    {
+      "build_script": "build_all_indices.py",
+      "dependencies_commit": "1df48173da427f57a8201e157518afa7fd2e73ee",
+      "embedding_dimension": null,
+      "embedding_model": "text-embedding-3-small",
+      "embedding_provider": "cborg",
+      "generated_at": "2026-03-11T22:53:38.819203+00:00",
+      "level": "2",
+      "manifest_path": "level2/erf_faiss_provenance.json",
+      "repo_commit": "1df48173da427f57a8201e157518afa7fd2e73ee",
+      "solver": "erf",
+      "version": "1"
+    },
+    {
+      "build_script": "build_all_indices.py",
+      "dependencies_commit": "a6b4dff152c2cad2cf0edee58099eefffd2ba328",
+      "embedding_dimension": null,
+      "embedding_model": "text-embedding-3-small",
+      "embedding_provider": "cborg",
+      "generated_at": "2026-03-11T23:20:00.712017+00:00",
+      "level": "2",
+      "manifest_path": "level2/pelec_faiss_provenance.json",
+      "repo_commit": "a6b4dff152c2cad2cf0edee58099eefffd2ba328",
+      "solver": "pelec",
+      "version": "1"
+    },
+    {
+      "build_script": "build_all_indices.py",
+      "dependencies_commit": "9e7fb9f245c3ef363fc0cbd14960089247934157",
+      "embedding_dimension": null,
+      "embedding_model": "text-embedding-3-small",
+      "embedding_provider": "cborg",
+      "generated_at": "2026-03-11T23:32:31.489997+00:00",
+      "level": "2",
+      "manifest_path": "level2/pelelmex_faiss_provenance.json",
+      "repo_commit": "9e7fb9f245c3ef363fc0cbd14960089247934157",
+      "solver": "pelelmex",
+      "version": "1"
+    },
+    {
+      "build_script": "build_all_indices.py",
+      "dependencies_commit": "ef9fd9cebb82a992cf0af3769f0216dce76a42c3",
+      "embedding_dimension": null,
+      "embedding_model": "text-embedding-3-small",
+      "embedding_provider": "cborg",
+      "generated_at": "2026-03-11T23:37:12.633583+00:00",
+      "level": "2",
+      "manifest_path": "level2/remora_faiss_provenance.json",
+      "repo_commit": "ef9fd9cebb82a992cf0af3769f0216dce76a42c3",
+      "solver": "remora",
+      "version": "1"
+    }
+  ],
+  "version": "1"
+}