feat(skill): persist flattened tool sets #166

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opened 2026-02-22 23:39:46 +00:00 by freemo · 2 comments

freemo commented 2026-02-22 23:39:46 +00:00

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• Commit Message: feat(skill): persist flattened tool sets
• Branch: feature/m4-skill-registry-db

Background

Migration adds fields/tables for flattened_tools_json, includes_json, and capability_summary_json per skill. Original YAML text and a computed flattening hash support refresh invalidation. SkillRepository reads/writes flattened tool sets and invalidates cached summaries on update.

Acceptance Criteria

• Add migration fields/tables to store flattened_tools_json, includes_json, and capability_summary_json for each skill.
• Persist original skill YAML text and computed flattening hash for refresh invalidation.
• Extend SkillRepository to read/write flattened tool sets and invalidate cached summaries on update.
• Add uniqueness constraint for skill names and index on namespace for list filters.
• Add repository method to recompute flattening hash on update and store in DB.

Definition of Done

This issue is complete when:

• All subtasks below are completed and checked off.
• A Git commit is created where the first line of the commit message matches
  the Commit Message in Metadata exactly, followed by a blank line, then
  additional lines providing relevant details about the implementation. The
  commit body should be appropriate in size for a commit message and relatively
  complete in describing what was done.
• The commit is pushed to the remote on the branch matching the Branch in
  Metadata exactly.
• The commit is submitted as a pull request to master, reviewed, and
  merged before this issue is marked done.

Subtasks

• Add migration fields/tables to store flattened_tools_json, includes_json, and capability_summary_json for each skill.
• Persist original skill YAML text and computed flattening hash for refresh invalidation.
• Extend SkillRepository to read/write flattened tool sets and invalidate cached summaries on update.
• Add uniqueness constraint for skill names and index on namespace for list filters.
• Add repository method to recompute flattening hash on update and store in DB.
• Update docs/reference/database_schema.md with skill registry persistence fields.
• Add mapping table of persistence fields to domain model properties.
• Tests (Behave): Add features/skill_registry_persistence.feature scenarios for add/update/refresh persistence.
• Tests (Robot): Add repository persistence smoke tests for skills.
• Tests (ASV): Add benchmarks/skill_registry_persist_bench.py for persistence overhead.
• Verify coverage >=97% via nox -s coverage_report. If coverage is <97% then review the current unit test coverage report at build/coverage.xml and use it to write new Behave based unit tests to improve code coverage. Specifically, write Behave style unit tests that are descriptively named and specifically improves coverage on whichever file has the most uncovered lines by writing tests that will target the uncovered lines in the report. Once that is done rerun nox -s coverage_report to verify all tests pass and coverage is above >=97%. Only mark this as complete once coverage is >=97%, if not repeat this task as many times as is needed until coverage reaches >=97%.
• Run nox (all default sessions, including benchmark), fix any errors if needed ensuring nox passes across entire code base, do not ignore any failure even if it seems unrelated to this commit, fix it.

Section: #### M2: Actor Graphs + Tool Sources (Day 14)
Status: Open

## Metadata - **Commit Message**: `feat(skill): persist flattened tool sets` - **Branch**: `feature/m4-skill-registry-db` ## Background Migration adds fields/tables for `flattened_tools_json`, `includes_json`, and `capability_summary_json` per skill. Original YAML text and a computed flattening hash support refresh invalidation. `SkillRepository` reads/writes flattened tool sets and invalidates cached summaries on update. ## Acceptance Criteria - [ ] Add migration fields/tables to store `flattened_tools_json`, `includes_json`, and `capability_summary_json` for each skill. - [ ] Persist original skill YAML text and computed flattening hash for refresh invalidation. - [ ] Extend SkillRepository to read/write flattened tool sets and invalidate cached summaries on update. - [ ] Add uniqueness constraint for skill names and index on namespace for list filters. - [ ] Add repository method to recompute flattening hash on update and store in DB. ## Definition of Done This issue is complete when: - All subtasks below are completed and checked off. - A Git commit is created where the **first line** of the commit message matches the Commit Message in Metadata exactly, followed by a blank line, then additional lines providing relevant details about the implementation. The commit body should be appropriate in size for a commit message and relatively complete in describing what was done. - The commit is pushed to the remote on the branch matching the **Branch** in Metadata exactly. - The commit is submitted as a **pull request** to `master`, reviewed, and **merged** before this issue is marked done. ## Subtasks - [ ] Add migration fields/tables to store `flattened_tools_json`, `includes_json`, and `capability_summary_json` for each skill. - [ ] Persist original skill YAML text and computed flattening hash for refresh invalidation. - [ ] Extend SkillRepository to read/write flattened tool sets and invalidate cached summaries on update. - [ ] Add uniqueness constraint for skill names and index on namespace for list filters. - [ ] Add repository method to recompute flattening hash on update and store in DB. - [ ] Update `docs/reference/database_schema.md` with skill registry persistence fields. - [ ] Add mapping table of persistence fields to domain model properties. - [ ] Tests (Behave): Add `features/skill_registry_persistence.feature` scenarios for add/update/refresh persistence. - [ ] Tests (Robot): Add repository persistence smoke tests for skills. - [ ] Tests (ASV): Add `benchmarks/skill_registry_persist_bench.py` for persistence overhead. - [ ] Verify coverage >=97% via `nox -s coverage_report`. If coverage is <97% then review the current unit test coverage report at `build/coverage.xml` and use it to write new Behave based unit tests to improve code coverage. Specifically, write Behave style unit tests that are descriptively named and specifically improves coverage on whichever file has the most uncovered lines by writing tests that will target the uncovered lines in the report. Once that is done rerun `nox -s coverage_report` to verify all tests pass and coverage is above >=97%. Only mark this as complete once coverage is >=97%, if not repeat this task as many times as is needed until coverage reaches >=97%. - [ ] Run `nox` (all default sessions, including benchmark), fix any errors if needed ensuring nox passes across **entire** code base, do not ignore any failure even if it seems unrelated to this commit, fix it. **Section**: #### M2: Actor Graphs + Tool Sources (Day 14) **Status**: Open

freemo added this to the v3.1.0 milestone 2026-02-22 23:39:46 +00:00

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Feature

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8

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labels 2026-02-22 23:39:46 +00:00

CoreRasurae was assigned by freemo 2026-02-22 23:39:46 +00:00

freemo added a new dependency 2026-02-22 23:54:03 +00:00

#356 Epic: Actor Graphs + Tool Sources (M2)

freemo commented 2026-02-23 18:30:53 +00:00

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Expected completion (Day 15 rebaseline): Day 26 / 2026-03-06

**Expected completion (Day 15 rebaseline):** Day 26 / 2026-03-06

freemo added the due date 2026-02-25 2026-02-23 18:41:25 +00:00

freemo removed a dependency 2026-02-23 20:33:16 +00:00

#356 Epic: Actor Graphs + Tool Sources (M2)

freemo added a new dependency 2026-02-23 20:35:23 +00:00

#393 Epic: Skill & Tool Lifecycle

freemo referenced this issue 2026-02-24 03:42:29 +00:00

Epic: Skill & Tool Lifecycle #393

CoreRasurae was unassigned by freemo 2026-02-24 21:53:07 +00:00

freemo self-assigned this 2026-02-24 21:53:07 +00:00

freemo added

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labels 2026-02-26 19:50:41 +00:00

freemo referenced this issue from a commit 2026-02-26 20:48:28 +00:00

feat(skill): persist flattened tool sets

freemo referenced this issue from a pull request that will close it, 2026-02-27 01:16:52 +00:00

feat(skill): persist flattened tool sets #460

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labels 2026-02-27 01:17:03 +00:00

freemo commented 2026-02-27 01:17:24 +00:00

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Implementation Notes (Day 19 — 2026-02-27)

PR #460: feat(skill): persist flattened tool sets

Branch: feature/m4-skill-registry-db
Commit: 515e54991e0acf25b19862267a367702e34ba4ab

Changes (9 files, +995 lines)

1. Alembic Migration (m4_002_skill_flattened_tools):

   • 5 new columns: flattened_tools_json, includes_json, capability_summary_json, yaml_text, flattening_hash
   • Uniqueness constraint on skill name, SQLite-compatible batch_alter_table

2. SkillModel: 5 new Column definitions + UniqueConstraint

3. SkillRepository Extensions (5 new methods):

   • update_flattened_tools() — bulk cache persistence
   • get_flattened_tools() — cached field retrieval
   • needs_refresh() — hash comparison for staleness detection
   • recompute_flattening_hash() — SHA-256 computation + storage
   • invalidate_cached_summaries() — cache nullification
   • update() now auto-invalidates cache on mutation

4. Documentation: Updated docs/reference/database_schema.md with field mapping table

Tests

• Behave: 6 scenarios — creation persistence, update invalidation, hash staleness, refresh, uniqueness, namespace index
• Robot: 2 smoke tests — round-trip persistence, update invalidation
• ASV: 3 benchmarks — persist, refresh check, namespace listing

Quality Gates: All PASS (lint, typecheck, unit_tests, integration_tests)

## Implementation Notes (Day 19 — 2026-02-27) ### PR #460: `feat(skill): persist flattened tool sets` **Branch:** `feature/m4-skill-registry-db` **Commit:** `515e54991e0acf25b19862267a367702e34ba4ab` ### Changes (9 files, +995 lines) 1. **Alembic Migration** (`m4_002_skill_flattened_tools`): - 5 new columns: `flattened_tools_json`, `includes_json`, `capability_summary_json`, `yaml_text`, `flattening_hash` - Uniqueness constraint on skill name, SQLite-compatible `batch_alter_table` 2. **SkillModel**: 5 new Column definitions + UniqueConstraint 3. **SkillRepository Extensions** (5 new methods): - `update_flattened_tools()` — bulk cache persistence - `get_flattened_tools()` — cached field retrieval - `needs_refresh()` — hash comparison for staleness detection - `recompute_flattening_hash()` — SHA-256 computation + storage - `invalidate_cached_summaries()` — cache nullification - `update()` now auto-invalidates cache on mutation 4. **Documentation**: Updated `docs/reference/database_schema.md` with field mapping table ### Tests - **Behave**: 6 scenarios — creation persistence, update invalidation, hash staleness, refresh, uniqueness, namespace index - **Robot**: 2 smoke tests — round-trip persistence, update invalidation - **ASV**: 3 benchmarks — persist, refresh check, namespace listing ### Quality Gates: All PASS (lint, typecheck, unit_tests, integration_tests)

freemo referenced this issue from a commit 2026-02-27 02:33:16 +00:00

feat(skill): persist flattened tool sets

freemo referenced this issue from a commit 2026-02-27 20:09:27 +00:00

feat(skill): persist flattened tool sets

freemo closed this issue 2026-02-27 21:32:21 +00:00

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pr-9247

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docs/timeline-update-2026-04-15-auto-time-1

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fix/plan-phase-migration-raw-sql-root-plan-id

auto-arch-12/spec-acms-context-tier-hydrator

timeline/day-106-2026-04-15-auto-time-1

feat/invariant-enforcement-strategize

feat/plan-tree-decision-rendering

feat/plan-correct-revert-append-modes

docs/auto-docs-4-fix-conflicts

docs/auto-docs-1-milestone-docs-v3.0.0-v3.1.0

feat/v3.4.0-acms-lifecycle-policy

pr-9220

fix/a2a-facade-optional-param-validation

feat/ci-guard-llm-secrets

pr-9214

feat/v3.3.0-subplan-status-tracking

feat/v3.3.0-merge-conflict-detection

uat/checkpoint-rollback-merge-tests

fix/pr-review-pool-supervisor-prefix-mismatch

feat/v3.3.0-spawn-subplan-step

auto-time-1-day103-cycle1-session6

feat/v3.8.0-agent-card-endpoint

docs/auto-docs-cycle-24-showcase-nav

auto-inf-3-consolidate-behave-fixtures

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auto-time-1-day103-cycle2

docs/timeline-day-104-auto-time-1

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uat-a2a-facade-tests-v350

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bugfix/7664-automation-tracking-label-requirements

docs/auto-time-1-timeline-update-2026-04-14

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fix/issue-6344-plan-execute-rich-output

docs/action-config-schema-api

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docs/validation-gate-empty-run-guard

auto-arch-15/spec-retry-policy-canonical-fields

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docs/changelog-plan-fix-4197

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docs/timeline-day-102-2026-04-12

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fix/issue-7482-git-log-injection

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feat/issue-6350-conversation-content-pruning

docs/update-module-guides-2026-04-10

timeline/day-100-2026-04-10-auto-time-cycle1

timeline/day-99-2026-04-09-auto-time-v2

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pr-4226

spec/additional-llm-providers-gemini-groq-cohere-together-ollama-mistral

spec/document-context-tier-hydrator-6175

docs/timeline-day99-2026-04-09

spec/invariant-cli-clarifications

docs/add-example-project-init-and-context-management

spec/reconciliation-blocked-error-documentation

spec/fix-invariant-precedence-reference-5861

spec/fix-plan-correct-accepts-plan-id-5558

spec/fix-validation-attach-synopsis-5328

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docs/timeline-day-99-cycle-3

spec/arch-security-mode-init

docs/auto-docs-cycle-9-updates

fix-resource-fix-resource-remove-to-check-correct-edge-table

feat/issue-6434-tui-env-var-expansion

fix/issue-6321-plan-prompt-timing-field

fix/issue-6322-resource-add-url-flag

feat/issue-6348-sessions-screen

spec/plan-show-command

temp

feat/harden-label-restrictions-1775753628

spec/invariant-reconciliation-failure-behavior

spec/add-reconciliation-failure-behavior-5942

spec/architecture-corrections-cycle3

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docs/auto-docs-writer-cycle1-labels

spec/fix-resource-type-yaml-format-5622

spec/add-plan-revert-resume-commands-5574

docs/auto-docs-cycle-1-2026-04-09

spec/plan-correct-plan-id-or-decision-id-5558

spec/fix-subgraph-node-actor-ref-field-5427

issue/5284-master-ci-fix

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merge-me

docs/session-3377-initial-docs-update

fix/llm-provider-subpackage-exports

spec/arce-acronym-and-tui-keybinding-fixes

spec/architecture-corrections-cycle2

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docs/session-4940-2026-04-08-cycle1

spec/architecture-milestone-plan-v3.2-v3.7

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docs/timeline-day98-2026-04-08-v2

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docs/ca-docs-writer-v3.8.1-2026-04-05

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improvement/agent-test-infra-health-spam-fix-v2

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docs/unreleased-feature-docs

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Priority

Backlog

This ticket has backlogged priority and is not to be worked on yet

  

Priority

CI Blocker

Critical priority issue that blocks CI/CD pipeline and prevents PR merges

  

Priority

Critical

The priority is critical

  

Priority

High

The priority is high

  

Priority

Low

The priority is low

  

Priority

Medium

The priority is medium

  

Signed-off: Owner

When an epic or legendary is in review it must be signed off by owner, tech lead, and scrum master before being marked as completed.

  

Signed-off: Scrum Master

When an epic or legendary is in review it must be signed off by owner, tech lead, and scrum master before being marked as completed.

  

Signed-off: Tech Lead

When an epic or legendary is in review it must be signed off by owner, tech lead, and scrum master before being marked as completed.

  

Spike

A ticket for learning a tool or technology that is needed to be able to do future planning and design.

  

State

Completed

The ticket has been fully implemented, completed, and merged with the source code. This label should only be applied once a ticket is closed.

  

State

Duplicate

A ticket that represents the same content as an existing ticket.

  

State

In Progress

A ticket that is actively being developed.

  

State

In Review

A ticket that has had some code completed to implement but is waiting to pass peer review and is not yet merged in.

  

State

Paused

This ticket's work started but wasn't finished. It's on hold (likely in a feature branch) and will be resumed later, either due to a blocker or a delay.

  

State

Unverified

All new tickets start in this state. A developer may set it to show the ticket is unverified. This means we haven't agreed to work on it. It will either move to a verified state or be closed as wontdo.

  

State

Verified

The issue has been verified by a developer as legitimate. It will be worked on and verified tickets are now considered part of the backlog.

  

State

Wont Do

This ticket has been decided it wont be done. This may mean the bug has been determined to not be real (cant verify) or the feature is one we have decided we dont want to adopt.

  

Type

Automation

Any edits or discussion about the AI automated coding system.

  

Type

Bug

Something that doesnt work as intended.

  

Type

Discussion

Anytime a ticket represents a discussion about a subject and doesnt fall into one of the other categories.

  

Type

Documentation

An error or improvement needed in the documentation.

  

Type

Epic

Any first tier epic. That is, an epic which contains only issues as children and will not have sub-epics.

  

Type

Feature

Some new functionality not present.

  

Type

Legendary

A type of Epic which will contain other Epics.

  

Type

Refactor

A code change that restructures existing code without changing its external behavior.

  

Type

Support

Someone needs help using the project.

  

Type

Task

A generic task that doesnt fit into the other type categories.

  

Type

Testing

Work exclusively focusing on fixing or expanding testing.

No labels

auto/needs-reevaluation

controller-managed

auto/blocked-by-deps

auto/ci-timeout

auto/claimed-implementer

auto/claimed-merge

auto/claimed-reviewer

auto/driver-down

auto/invariant-violation

auto/last-attempt-tier-0

auto/last-attempt-tier-1

auto/last-attempt-tier-2

auto/last-attempt-tier-min

Automation Tracking

auto/needs-conflict-resolution

auto/needs-implementer

auto/postmortem

auto/ready-to-merge

auto/restart-throttled

auto/revert

auto/sentinel

auto/stale-inactivity

auto/unstable

Blocked

Bounty

$100

Bounty

$1000

Bounty

$10000

Bounty

$20

Bounty

$2000

Bounty

$250

Bounty

$50

Bounty

$500

Bounty

$5000

Bounty

$750

MoSCoW

Could have

MoSCoW

Must have

MoSCoW

Should have

Needs Feedback

Points

1

Points

13

Points

2

Points

21

Points

3

Points

34

Points

5

Points

55

Points

8

Points

88

Priority

Backlog

Priority

CI Blocker

Priority

Critical

Priority

High

Priority

Low

Priority

Medium

Signed-off: Owner

Signed-off: Scrum Master

Signed-off: Tech Lead

Spike

State

Completed

State

Duplicate

State

In Progress

State

In Review

State

Paused

State

Unverified

State

Verified

State

Wont Do

Type

Automation

Type

Bug

Type

Discussion

Type

Documentation

Type

Epic

Type

Feature

Type

Legendary

Type

Refactor

Type

Support

Type

Task

Type

Testing

Milestone

Clear milestone

No items

No milestone

v3.1.0

Projects

Clear projects

No items

No project

Assignees

Clear assignees

No assignees

freemo

1 participant

Notifications

Subscribe

Due date

The due date is invalid or out of range. Please use the format "yyyy-mm-dd".

2026-02-25

Blocks

#393 Epic: Skill & Tool Lifecycle

cleveragents/cleveragents-core

Reference

cleveragents/cleveragents-core#166

No description provided.