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freemo a0ac30d5de docs: update and extend documentation for v3.8.0 changes
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- docs/reference/plan_cli.md: add note about legacy/v3 plan workflow
  mixing being disallowed (introduced in v3.8.0, issue #1577)
- docs/reference/uko_runtime.md: document v3.8.0 provenance tracking
  (sourceResource, validFrom, isCurrent on typed triples) and revision
  chain for temporal queries across indexing runs (issue #891)
- docs/reference/decision_correction.md: add CorrectionAttemptRecord
  section documenting the correction_attempts table, state lifecycle,
  repository API, and usage examples (issue #920)
- docs/modules/uko-provenance.md: new module guide for UKO provenance
  tracking covering purpose, how provenance is attached, revision chain
  mechanics, query patterns, persistence format, BDD coverage, and gotchas
2026-04-05 20:05:48 +00:00
freemo 0382b2f722 docs: update changelog and CLI reference docs for 2026-04-02 merged PRs
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- CHANGELOG: add Fixed entries for PRs #1574, #1570, #1569, #1547, #1548,
  #1522, #1524, #1525, #1520, #1553 covering rich output panels for session,
  actor, and plan commands, plus version commit SHA and provider fix
- docs/reference/session_cli.md: document new rich output panels for
  session create (Settings, Actor Details), session list (Name column,
  Summary panel), session show (Automation field), session delete
  (Deletion Summary, Cleanup panels); update export to document --format md
- docs/reference/actor_cli.md: document new rich output panels for
  actor remove (Actor Removed, Impact, Cleanup) and actor list (Summary panel)
- docs/reference/plan_cli.md: document new rich output for plan list
  (Elapsed column, Filters panel, Summary panel)
- docs/reference/cli_system_commands.md: document commit SHA resolution
  order (CLEVERAGENTS_COMMIT env var → git rev-parse → 'unknown')

ISSUES CLOSED: #1574 #1570 #1569 #1547 #1548 #1522 #1524 #1525 #1520 #1553
2026-04-02 23:06:12 +00:00
freemo 48cff5cfe0 refactor(cli): rename plan lifecycle-list and lifecycle-apply to match specification
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Renames `plan lifecycle-list` to `plan list` and `plan lifecycle-apply` to `plan apply` to align with the specification's canonical command names. Removes legacy V2 plan commands that occupied those names.

- Renamed CLI command registrations from lifecycle-list/lifecycle-apply to list/apply
- Removed legacy V2 apply and list commands (~200 lines)
- Updated apply shortcut in main.py to delegate to v3 lifecycle
- Added defensive null check for plan existence in apply command
- Updated 63+ test, doc, and benchmark files for consistency

Closes #881

Co-authored-by: Jeffrey Phillips Freeman <the@jeffreyfreeman.me>
Co-committed-by: Jeffrey Phillips Freeman <the@jeffreyfreeman.me>
2026-04-02 19:09:04 +00:00
Luis Mendes 59be111e1d fix(plan): complete apply phase inline in auto_progress and lifecycle-apply CLI
Modified auto_progress() to complete the Apply phase immediately after
transitioning from Execute to Apply, since Apply is a metadata transition
with no LLM processing.  This ensures `plan execute` drives the plan to
the terminal `applied` state when the automation profile permits (ci,
full-auto profiles with auto_apply < 1.0).

Extracted `_complete_apply_if_queued()` helper that consolidates the
Apply-completion pattern (start_apply + complete_apply) into a single
method with error recovery (calls `fail_apply` on failure) and async-job
guard (skips inline completion when async execution is enabled to avoid
orphaning enqueued jobs).  Used by `auto_progress()`,
`lifecycle_apply_plan()`, and `try_auto_run()`.

Added PlanLifecycleService.try_auto_run() that drives plans through all
lifecycle phases (strategize → execute → apply) when automation-profile
thresholds allow automatic progression.  Each phase checks the profile's
auto_* threshold before proceeding; a threshold of 1.0 stops the plan at
that phase boundary for human approval.

Fixed `lifecycle-apply` CLI leaving plans stuck in `apply/queued` without
completing.  The command now calls `_complete_apply_if_queued()` when the
plan is in Apply/queued, driving it to the terminal `applied` state.

Fixed stale RICH output in `lifecycle_apply_plan` that printed
"Plan is now in Apply phase (queued)" after the plan had already reached
terminal `applied` state; now branches on `plan.is_terminal`.

Additional fixes:
- SQLite UNIQUE constraint violation in LifecyclePlanRepository.update():
  added session.flush() after clear() on child collections (project_links,
  arguments, invariants) before re-inserting rows
- Added 'state' alias in _plan_spec_dict() JSON output for spec §Example 7
  jq compatibility
- Updated plan execute and lifecycle-apply reference documentation

Refs: #753
2026-03-26 17:35:24 +00:00
hurui200320 414abb1396 fix(cli): add missing --yes flag to plan apply command (#1127)
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## Summary

Adds the `--yes`/`-y` flag to the `lifecycle-apply` CLI command as required by the specification (`agents plan apply [--yes|-y] <PLAN_ID>`). Without `--yes`, a confirmation prompt now displays before proceeding with the destructive Apply phase. With `--yes`, the apply proceeds immediately without prompting.

Closes #932

## Changes

### Source Code
- **`src/cleveragents/cli/commands/plan.py`**: Added `yes: Annotated[bool, typer.Option("--yes", "-y", help="Skip confirmation prompt")] = False` parameter to `lifecycle_apply_plan`. Added `typer.confirm()` prompt before the apply operation, consistent with the pattern used by `rollback_plan`, `correct_plan`, and other destructive commands.
  - Confirmation prompt text matches spec exactly: `"Apply changes for plan {plan_id}?"` producing `Apply changes for plan <ID>? [y/N]:`.
  - Fixed redundant plan ID display when `pre_plan` is `None` — now shows `"Apply changes for plan X?"` instead of `"Apply plan X (X)?"`.
  - Added `except ValueError` handler consistent with sibling commands `lifecycle_execute_plan` and `_lifecycle_apply_with_id`.
  - Added `except Exception` catch-all handler with `isinstance(e, (typer.Abort, typer.Exit))` re-raise guard, consistent with `lifecycle_execute_plan`.
  - Moved `PlanPhase` and `ProcessingState` imports to module level per CONTRIBUTING.md §Import Guidelines.

### TDD Tag Removal (Bug Fix Workflow)
- **`features/tdd_plan_apply_yes_flag.feature`**: Removed `@tdd_expected_fail` tag (leaving `@tdd_bug` and `@tdd_bug_932` as permanent regression guards).
- **`robot/tdd_plan_apply_yes_flag.robot`**: Removed `tdd_expected_fail` tag (leaving `tdd_bug` and `tdd_bug_932`).

### Test Updates
Updated all existing `lifecycle-apply` invocations across 17 test/benchmark files to pass `--yes`, since the new confirmation prompt would otherwise abort in non-interactive test environments:
- 9 Behave step definition files
- 3 Robot Framework helper scripts
- 2 Robot Framework e2e acceptance tests
- 3 ASV benchmark files (4 invocations: `cli_robot_flow_bench.py` ×2, `m1_sourcecode_smoke_bench.py` ×1, `plan_cli_smoke_bench.py` ×1)

### Confirmation Prompt Tests (New + Strengthened)
- **`features/tdd_plan_apply_yes_flag.feature`**: 5 scenarios total:
  - `lifecycle-apply recognises the --yes long flag` — verifies flag acceptance, prompt suppression, exit code 0, and `apply_plan` was called
  - `lifecycle-apply recognises the -y short flag` — same as above for short flag
  - `lifecycle-apply without --yes prompts for confirmation and user declines` — verifies `"Apply cancelled."` message, `exit_code == 0`, and `apply_plan` was NOT called
  - `lifecycle-apply without --yes prompts for confirmation and user accepts` — verifies prompt appears, `exit_code == 0`, and `apply_plan` was called
  - `lifecycle-apply catches unexpected exceptions cleanly` — verifies `"Unexpected error"` output, no traceback leak, non-zero exit code (exercises the `except Exception` catch-all)
- **`features/steps/tdd_plan_apply_yes_flag_steps.py`**: Refactored step definitions:
  - `_make_mock_plan` uses `PlanPhase` and `ProcessingState` enum types instead of raw strings
  - `_make_mock_plan` uses `datetime.now(tz=UTC)` instead of timezone-naive `datetime.now()`
  - Unified prompt suppression step handles both `--yes` and `-y` via parameterised step pattern
  - Added `When` step for unexpected error scenario with `RuntimeError` side_effect
  - Added `Then` step for non-zero exit code assertion
- **Feature/Robot documentation**: Updated stale descriptions that said "implementation does not accept --yes" to reflect the flag is now implemented.

### Documentation
- **`docs/reference/plan_cli.md`**: Updated `lifecycle-apply` section with:
  - `### Synopsis` heading with code block
  - `### Options` table listing `--yes/-y` and `--format/-f` flags
  - `### Arguments` table listing `PLAN_ID`
  - Matches the style used by other command sections in the same file

## Review Fixes (Cycle 3 — Luis's review)

| ID | Severity | Issue | Resolution |
|----|----------|-------|------------|
| M1 | Medium | `typer.Abort()` on user decline produces exit code 1 and redundant "Aborted." | Changed to `raise typer.Exit(0)` — consistent with `correct_decision` and legacy `apply` |
| M2 | Medium | Missing exit code assertion on decline scenario | Added `And the lifecycle-apply exit code should be 0` to the decline scenario |
| M3 | Medium | Spec compliance: "summary of pending changes" not implemented | Deferred — spec example shows summary *after* confirmation, not before; implementation matches spec. Ticket-vs-spec ambiguity noted. |
| L1 | Low | Missing `except Exception` catch-all handler | Added catch-all matching `lifecycle_execute_plan` pattern; re-raises `typer.Abort`/`typer.Exit` |
| L2 | Low | Documentation description not updated | Expanded description in `plan_cli.md` to explain confirmation prompt and `--yes` |
| L3 | Low | Dead code `is not None` guards | Removed both guards — `get_plan()` raises `NotFoundError`, never returns `None` |
| I1 | Info | Duplicate `PlanPhase` import | Hoisted import to top of `try` block, eliminating duplicate at old line 2087 |
| I2 | Info | `typer.confirm` without explicit `default=False` | Added `default=False` for consistency with sibling commands |
| L4 | Low | No test for `--yes` after positional arg | Not addressed — Typer/Click handles both orderings; low risk |
| L5 | Low | No test for auto-select + interactive prompt | Not addressed — separate concern outside ticket scope |
| I3 | Info | Robot helper only tests flag recognition | By design — noted as informational |

## Review Fixes (Cycle 4 — Self-QA)

| ID | Severity | Issue | Resolution |
|----|----------|-------|------------|
| Major-1 | Major | No test for `except Exception` catch-all handler | Added new scenario `"lifecycle-apply catches unexpected exceptions cleanly"` with `RuntimeError` side_effect; asserts `"Unexpected error"` output, no traceback, non-zero exit |
| Minor-2 | Minor | Missing `ValueError` handler inconsistent with siblings | Added `except ValueError as e:` with `"[red]Execution Error:[/red]"` before catch-all, matching `lifecycle_execute_plan` and `_lifecycle_apply_with_id` |
| Minor-3 | Minor | Flag scenarios don't verify `apply_plan` called | Added `And the lifecycle-apply should have called apply` to both `--yes` and `-y` scenarios |
| Minor-4 | Minor | Stale docstring in Robot helper references `tdd_expected_fail` inversion | Updated to reflect bug is fixed and tests serve as regression guards |
| Minor-5 | Minor | `plan_cli.md` lacks Options table for `lifecycle-apply` | Added Synopsis, Options, and Arguments sections matching sibling command style |
| Nit-6 | Nit | Duplicated step defs for `--yes` vs `-y` prompt suppression | Unified into single parameterised step `"the lifecycle-apply {flag} output should not contain the confirmation prompt"` |
| Nit-7 | Nit | `datetime.now()` timezone-naive | Changed to `datetime.now(tz=UTC)` |
| Nit-8 | Nit | `_make_mock_plan` params use `str` instead of enum types | Changed to `PlanPhase` and `ProcessingState` enum types |

## Review Fixes (Cycle 5 — Jeff's approval note)

| ID | Severity | Issue | Resolution |
|----|----------|-------|------------|
| Import-1 | Minor | `PlanPhase`/`ProcessingState` imports inside function body instead of module level | Moved to module-level import per CONTRIBUTING.md §Import Guidelines |

## Known Limitations / Deferred Items

- **M3: Ticket AC mentions "summary of pending changes"** but the spec example only shows `"Apply changes for plan <ID>? [y/N]: y"` without a change summary. The implementation shows plan ID only (matching the spec), not a change summary. This is a ticket-vs-spec ambiguity; recommend discussing with ticket author.
- **Legacy `apply` command** accepts `--yes` but does not pass it to `_lifecycle_apply_with_id()`. This is a pre-existing issue outside the scope of this ticket.
- **`pre_plan is None` branch** has no explicit test. Pre-existing architectural issue; no action taken.

## Quality Gates

| Gate | Result |
|------|--------|
| `nox -s lint` |  passed |
| `nox -s typecheck` |  passed (0 errors) |
| `nox -s unit_tests` |  passed (471 features, 12,424 scenarios, 0 failures) |
| `nox -s integration_tests` |  passed (1,727 tests, 0 failures) |
| `nox -s e2e_tests` |  passed (41 tests, 0 failures) |
| `nox -s coverage_report` |  passed (≥97% coverage) |

Reviewed-on: #1127
Reviewed-by: Jeffrey Phillips Freeman <jeffrey.freeman@cleverthis.com>
Co-authored-by: Rui Hu <rui.hu@cleverthis.com>
Co-committed-by: Rui Hu <rui.hu@cleverthis.com>
2026-03-26 07:50:09 +00:00
CoreRasurae ff2d824f17 fix(cli): share PlanLifecycleService instance between CLI handler and PlanExecutor
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_get_plan_executor() created a second PlanLifecycleService Factory
instance with its own in-memory _plans cache.  After the executor's
run_strategize() advanced the plan to execute/queued (via
auto_progress), the CLI handler's separate service instance returned
stale strategize/queued state from its cache, causing spurious
"Plan is not in an executable state" errors.

Fix: _get_plan_executor() now accepts an optional lifecycle_service
parameter; the plan execute handler passes its own service instance so
both share the same cache.

Also addressed review feedback:
- Improved type safety: lifecycle_service parameter typed as
  PlanLifecycleService | None instead of Any | None.
- Added BDD regression test verifying the lifecycle service is shared
  between the CLI handler and the executor.
- Updated reference documentation to reflect the type annotation change.

ISSUES CLOSED: #1026
2026-03-17 12:22:32 +00:00
khyari hamza f66cb8d68e fix(cli): address review findings for plan explain and tree commands
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- Remove global _PLAN_ID; generate per-step plan IDs on context (#8)
- Fix sham orphan test; build children_map from all decisions (#1)
- Delete dead constants; use _PATCH_RESUME_SVC_MOD in resume steps (#2)
- Remove dead _resolve_active_plan_id mock from _invoke_correct (#5)
- Make --mode/--guidance required Typer options (#3)
- Show alternatives by default; remove --show-alternatives flag (#4)
- Strengthen weak assertions on depth-limit and show-superseded (#6)
- Add negative assertions for error type conflation (#7)

ISSUES CLOSED: #174
2026-03-03 12:10:25 +00:00
khyari hamza 3e25b41a3a feat(cli): add plan explain and decision tree outputs
Add `plan explain` and `plan tree` CLI commands that format decision
trees in json/yaml/table/rich formats. Flags control views for
superseded decisions, context snapshots, and reasoning details.

- plan explain <decision_id>: renders a single decision with optional
  --show-context, --show-reasoning, --show-alternatives flags
- plan tree <plan_id>: renders full decision tree with optional
  --show-superseded and --depth flags
- BFS tree building uses collections.deque (no list.pop(0))
- Behave BDD scenarios (14 scenarios, 54 steps)
- Robot Framework smoke tests with helper script
- ASV benchmarks for explain formatting and tree operations
- Updated docs/reference/plan_cli.md and CHANGELOG.md

ISSUES CLOSED: #174
2026-03-03 12:10:25 +00:00
freemo f69224e7e9 feat(cli): add action and plan CLI extensions
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2026-02-23 10:46:53 +00:00
Jeffrey Phillips Freeman ee5f0376d7 Replaced hand written Reference section with one generated from docstrings
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2026-02-16 23:40:33 -05:00
Jeffrey Phillips Freeman 1fb91cba28 refactor(plan): remove legacy plan persistence
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2026-02-17 00:38:33 +00:00
Jeff (CTO) 156e3ffde9 feat(cli): stabilize action/plan output formats
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2026-02-14 13:51:12 -05:00
freemo 65988669a6 feat(cli): align plan use/list/status flags
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- plan use: accept positional PROJECT args, add --automation-profile,
  --invariant (repeatable), and actor override flags
- lifecycle-list: add --state/--processing-state, --action filters,
  optional positional REGEX for name filtering, Action column in output
- plan status: enhanced detail view with processing state, project
  links, arguments order, automation profile provenance, actor
  overrides, automation level, and full timestamps
- Add docs/reference/plan_cli.md reference documentation
- Add Behave feature (17 scenarios) with mock service steps
- Add Robot smoke test (7 cases) with import-safe helper
- Add ASV benchmarks for plan use/list/status commands
2026-02-14 13:42:02 -05:00