Repository navigation

CodeClone 2.1.0a1 — Structural Change Controller, Engineering Memory, and native agent integrations - #37

Merged

orenlab merged 319 commits into

mainfrom

feat/2.1-alpha

Jun 17, 2026

Merged

CodeClone 2.1.0a1 — Structural Change Controller, Engineering Memory, and native agent integrations#37
orenlab merged 319 commits into
mainfrom
feat/2.1-alpha

This pull request is big! We're only showing the most recent 250 commits

Commits on May 29, 2026
- fix(mcp): cap process pool size
  orenlab
  committed
  81ffa91
- docs(security): document trust boundaries
  orenlab
  committed
  e590acf
- test: cover MCP process cap and symlink resolve edge paths
  orenlab
  committed
  c8b2b5f
- feat(mcp): tighten agent contracts and restore baseline health
  orenlab
  committed
  da046f9
- refactor(mcp): extract agent-facing copy into messages package
  orenlab
  committed
  2d5c742
- refactor(copy): centralize user-facing strings across CLI, report, and MCP
  orenlab
  committed
  c643bd4
- feat(mcp): add auditable SQLite workspace intent registry
  orenlab
  committed
  52a551d
Commits on May 30, 2026
Commits on May 31, 2026
Commits on Jun 1, 2026
- feat(memory): agent retrieval, IDE governance, and VS Code Memory view
  orenlab
  committed
  ceb2d91
- docs(agent): gate requires MCP memory before finish after incident
  orenlab
  committed
  6785e2c
- docs(agent): spell out Engineering Memory gate in CLAUDE.md
  orenlab
  committed
  c90d1a4
- fix(mcp): attribute finish hygiene dirty state
  orenlab
  committed
  4301ecb
- fix(memory): add approval evidence warrant
  orenlab
  committed
  942b4bd
- chore(baseline): update project baseline
  orenlab
  committed
  0fa5a56
- fix(memory): harden governance and tool guidance
  orenlab
  committed
  df16996
- refactor(mcp): simplify workspace hygiene payloads
  orenlab
  committed
  9686a73
- feat(cursor): gate writes through workspace intents
  orenlab
  committed
  e7580ca
- fix(workspace-intent): close sqlite gate reads
  orenlab
  committed
  1ed7448
- feat(mcp): scope-aware finish hygiene
  orenlab
  committed
  a8562c1
- feat(mcp): scope-aware finish hygiene
  orenlab
  committed
  f0a01f6
- fix(cursor): stop tracking local hook configs
  orenlab
  committed
  f27ec09
- feat(mcp): compact finish hygiene payload + detail_level
  orenlab
  committed
  f989612
- docs: fix MkDocs admonitions and document finish hygiene
  orenlab
  committed
  4cf86ed
Commits on Jun 2, 2026
- test(memory): expand memory and MCP coverage edge suites
  orenlab
  committed
  a63c12c
- feat(audit): record the human intent description in the audit trail
  orenlab
  committed
  0aebd49
- test(coverage): reach 99% and clear duplicated-branch findings
  orenlab
  committed
  a8e8729
- docs: align book and guides with current MCP and CI behavior
  orenlab
  committed
  4d0a715
- test(cursor): fix hook CI without committed .cursor/hooks.json
  orenlab
  committed
  49a9cd4
- feat(memory): add optional semantic retrieval index (Phase 20)
  orenlab
  committed
  516708c
- feat(audit): add workflow payload forensics
  orenlab
  committed
  49c8a08
- fix(cli): clarify session stats forensics
  orenlab
  committed
  65d1603
- feat(memory): enforce scoped retrieval and token hygiene contract
  orenlab
  committed
  43e8d39
Commits on Jun 3, 2026
- docs(mcp): clarify baseline novelty semantics
  orenlab
  committed
  2968ab6
- feat(memory): semantic retrieval index for engineering memory + audit
  orenlab
  committed
  3af60a7
- feat(memory): harden semantic retrieval contracts
  orenlab
  committed
  eddc766
- feat(vscode): memory search and IDE-only session/audit insights
  orenlab
  committed
  3eccc44
- docs: Engineering Memory Phase 20, semantic search, and plugin surfaces
  orenlab
  committed
  0dc553d
- fix(ci): sync integration overlays, docs contracts, and API snapshot
  orenlab
  committed
  703c492
- ci: run hooks through uv
  orenlab
  committed
  bd3d37c
- docs: migrate site build to zensical
  orenlab
  committed
  a45a542
- test: expand memory and contract coverage
  orenlab
  committed
  f4a7d56
- fix(memory): keep semantic lancedb optional in CI
  orenlab
  committed
  d9e4963
- docs: note zensical migration in changelog
  orenlab
  committed
  6485cca
- fix(memory): report semantic provider errors first
  orenlab
  committed
  0f3c8f4
- test(memory): decouple semantic cli coverage from lancedb
  orenlab
  committed
  347b61a
- feat(memory): harden semantic retrieval contracts
  orenlab
  committed
  dce00b8
- fix(ci): sync CI tests coverage gate
  orenlab
  committed
  cb1f2a4
Commits on Jun 4, 2026
- feat(memory): add optional fastembed semantic provider
  orenlab
  committed
  34d0970
- docs(memory): document fastembed semantic setup
  orenlab
  committed
  3f216a5
- chore(docs): align docs tooling with zensical
  orenlab
  committed
  ee6ea57
- feat(memory): add MCP semantic index rebuild
  orenlab
  committed
  2a41878
- fix(memory): recover semantic index schema mismatches
  orenlab
  committed
  8314985
- chore(memory): configure local fastembed semantic index
  orenlab
  committed
  5cb0c63
- fix(security,mcp): require opt-in external artifacts
  orenlab
  committed
  21588b3
- fix(security): bound JSON and coverage XML reads
  orenlab
  committed
  b7c06d9
- fix(mcp): tighten workspace intent lifecycle gates
  orenlab
  committed
  7f18e12
- fix(mcp): harden run and resource path checks
  orenlab
  committed
  fd719eb
- chore(docs): reorganize documentation — renumber book, merge integrations, rewrite nav
  orenlab
  committed
  0bcdd95
- chore(docs): reorganize documentation — renumber book, merge integrations, rewrite nav
  orenlab
  committed
  50caadc
- fix(mcp): require bearer auth for http transport
  orenlab
  committed
  c07617b
- fix(memory): require explicit governance break-glass
  orenlab
  committed
  abeb09b
- chore(docs): fix admonitions
  orenlab
  committed
  25ff4e8
- feat(core): migrate workspace artifacts to .codeclone/
  orenlab
  committed
  078fa71
- fix(test): stop memory CLI tests writing production engineering_memory DB
  orenlab
  committed
  1f10a9e
- fix(memory): survive unclean MCP exit and protect drafts from refresh
  orenlab
  committed
  14a3b52
- test(memory,cli): isolate memory DB in tests and fix CI coverage when report.json is missing
  orenlab
  committed
  b3eda3b
- test: keep 99% coverage on Python 3.10 without checkout report.json
  orenlab
  committed
  0c91190
- test: keep 99% coverage on Python 3.10 without checkout report.json
  orenlab
  committed
  3e11d2a
- fix(vscode,claude-desktop): unbreak manifest test, humanize audit DB size
  orenlab
  committed
  f8e8925
- docs: sync chapter headings, expand plans tiers, consolidate changelog
  orenlab
  committed
  c61485c
- ci: add integrations workflow for extensions and plugins
  orenlab
  committed
  56a2c5c
- refactor(typing): drop Any from MCP, CLI memory, semantic, and hook surfaces
  orenlab
  committed
  2eb174d
- docs: sync chapter headings, expand plans tiers, consolidate changelog
  orenlab
  committed
  15daabc
- fix(vscode): align formatBytes JSDoc with invalid-input handling
  orenlab
  committed
  0ee94c3
- fix(security): tighten config and lock path handling
  orenlab
  committed
  79b6fdf
- fix(security): tighten workspace intent gates
  orenlab
  committed
  bdd9af9
- fix(security): document path policy and hook foreign-intent gate
  orenlab
  committed
  2632926
- fix(cache): allow contained absolute wire paths
  orenlab
  committed
  a547385
- fix(vscode): pass repo-relative coverage_xml to MCP after path hardening
  orenlab
  committed
  c8a94da
- fix(security): preserve unknown PID ownership
  orenlab
  committed
  f91faa3
Commits on Jun 5, 2026
- fix(security): close semantic index resources
  orenlab
  committed
  025cb4e
- fix(mcp): keep audit token estimates lightweight by default
  orenlab
  committed
  2c516ef
- feat(design): detect instance-independent methods
  orenlab
  committed
  fba09ba
- feat(audit): persist analysis.completed for session-stats latest run
  orenlab
  committed
  294c422
- chore(pre-commit): add new hook
  orenlab
  committed
  6c21cd1
- chore(tests): extending the test coverage
  orenlab
  committed
  5a7ef4c
- feat(cursor): ignore foreign intents in stop-hook cleanup warnings
  orenlab
  committed
  55c51b7
- feat(memory): commit-anchored durability with historical status
  orenlab
  committed
  649b8a5
- feat(vscode): bulk Memory inbox/stale governance for extension 0.3.0
  orenlab
  committed
  5854f32
Commits on Jun 6, 2026
- feat(audit): add replay event core for trajectories
  orenlab
  committed
  05167c4
- feat(memory): add trajectory projection storage
  orenlab
  committed
  0a82d33
- feat(memory): surface trajectory retrieval
  orenlab
  committed
  5cd4f0c
- feat(memory): trajectory export, projection jobs, and audit core v2
  orenlab
  committed
  41078c6
- feat(memory): patch trail, trajectory export v2, and structural cleanup
  orenlab
  committed
  1390157
- chore(docs): alignment of docs to the current state of the code
  orenlab
  committed
  615b1a2
- feat(memory): trajectory/projection jobs, agent docs sync, coverage hardening
  orenlab
  committed
  4d8b478
- feat(memory): align agent-facing docs with code
  orenlab
  committed
  b1247c4
Commits on Jun 7, 2026
Commits on Jun 8, 2026
Commits on Jun 9, 2026
- perf(core): incremental trajectory rebuild by watermark
  orenlab
  committed
  ed9be05
- feat(core): auto experience distillation in projection job
  orenlab
  committed
  977b4c1
- feat(core): surface experiences[] in get_relevant_memory
  orenlab
  committed
  9bc5efc
- feat(core): promote_experience governance core
  orenlab
  committed
  b72737f
- feat(mcp): expose promote_experience action
  orenlab
  committed
  e998396
- feat(core): honest 1-hop retrieval with contradiction down-rank
  orenlab
  committed
  05da359
- feat(core): platform observability config + disabled contract
  orenlab
  committed
  667d16b
- feat(core): observability data model + sqlite store
  orenlab
  committed
  5b14c97
- feat(core): observability write API (operation/span)
  orenlab
  committed
  6a14fb4
- feat(core): observability read model (TraceView + aggregates)
  orenlab
  committed
  8934f58
- feat(core): instrument projection worker chain (operation + spans)
  orenlab
  committed
  dd86bf1
- feat(mcp): record per-tool payload sizes via observability registrar
  orenlab
  committed
  2aacfd6
- feat(core): capture psutil RSS/CPU profile on operations and spans
  orenlab
  committed
  2513dd2
- chore(core): bump psutil perf extra to >=7,<8
  orenlab
  committed
  225780c
Commits on Jun 10, 2026
Commits on Jun 11, 2026
- feat(core): count SQL queries per observability span (29.DB)
  orenlab
  committed
  06edcc4
- feat(html): add DB cost table to the cockpit
  orenlab
  committed
  710e87c
- feat(html): add Agent context view (token/context pressure)
  orenlab
  committed
  6281a36
- feat(html): add Waste view (no-op + high-payload fix candidates)
  orenlab
  committed
  b693f0e
- feat(html): surface CPU cost and a pipeline-by-subsystem roll-up
  orenlab
  committed
  022a448
- feat(core): attribute worker cold-start as a bootstrap span
  orenlab
  committed
  1f4af26
- fix(memory): honor compact retrieval detail
  orenlab
  committed
  44e4bdf
- fix(memory): refine retrieval evidence context
  orenlab
  committed
  004ad10
- fix(memory): prioritize reliable retrieval context
  orenlab
  committed
  5b5ea05
- test(memory): add coverage tests for memory and observability surfaces
  orenlab
  committed
  e59e672
- feat(core): centralize DB query instrumentation via read-only openers
  orenlab
  committed
  3129c05
- perf(memory): batch retrieval subject/evidence/trail loads
  orenlab
  committed
  a571a5d
- docs(memory): document records/experiences/trajectories evidence lanes
  orenlab
  committed
  7b1b393
- test: add CI coverage-uplift tests
  orenlab
  committed
  7e17462
- feat(core): add literal-free SQL fingerprint normalizer (29.DB Track B)
  orenlab
  committed
  d4c2024
- feat(core): capture per-span SQL query fingerprints (29.DB Track B)
  orenlab
  committed
  8769e12
- feat(html): surface DB query shapes in the cockpit (29.DB Track B.3)
  orenlab
  committed
  cf081cc
Commits on Jun 12, 2026
- feat(html): interpret DB query shapes in the cockpit (29.DB)
  orenlab
  committed
  edbb1cd
- fix(html): align correlated-chains metric columns
  orenlab
  committed
  5fc5027
- feat(core): add query_platform_observability slicer core (29 RFC)
  orenlab
  committed
  a9325be
- feat(mcp): register query_platform_observability tool (29 RFC)
  orenlab
  committed
  802e621
- docs(mcp): add observability help topic for the new tool
  orenlab
  committed
  3f88987
- refactor(memory): dedup get_relevant_memory payload (Track A)
  
  orenlab
  and
  claude
  committed
  056d05f
- docs(memory): document lane semantics + fix stale patch_trail refs (Track D)
  
  orenlab
  and
  claude
  committed
  e5138f7
- refactor(memory): slim compact trajectory + coverage payloads (Track B)
  
  orenlab
  and
  claude
  committed
  20a0777
- fix(memory): bootstrap observability before opening worker store (29.DB)
  orenlab
  committed
  9f9d6fa
- fix(memory): apply query filters to semantic candidates (#1)
  orenlab
  committed
  512d24f
- fix(integrations): sync MCP surfaces with current contract
  orenlab
  committed
  f27404a
- feat(core): per-source vector top-K budgets in semantic retrieval
  orenlab
  committed
  29d07e9
- docs: align documentation with current platform features
  orenlab
  committed
  b7378d4
- test: expanding test coverage for new branches and reorganizing test modules
  orenlab
  committed
  832c60b
- chore(deps): update all deps
  orenlab
  committed
  446a6f3
- fix(tests): mock CI gate and bootstrap span in projection job tests
  orenlab
  committed
  0401ccd
Commits on Jun 13, 2026
Commits on Jun 14, 2026
Commits on Jun 15, 2026
Commits on Jun 16, 2026
Commits on Jun 17, 2026

Commits

Commits on May 29, 2026

Commits on May 30, 2026

Commits on May 31, 2026

Commits on Jun 1, 2026

Commits on Jun 2, 2026

Commits on Jun 3, 2026

Commits on Jun 4, 2026

Commits on Jun 5, 2026

Commits on Jun 6, 2026

Commits on Jun 7, 2026

Commits on Jun 8, 2026