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feat(plan): implement spec-aligned git worktree apply with merge, summary, and cleanup #4454

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opened 2026-04-08 12:59:23 +00:00 by hamza.khyari · 4 comments
hamza.khyari commented 2026-04-08 12:59:23 +00:00
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Metadata

  • Commit Message: feat(plan): implement git worktree sandbox for execute and merge-based apply
  • Branch: feature/git-worktree-apply

Background

The specification (lines 12105, 13225-13280) defines the Apply phase as:

"Changeset is merged into real project resources"

The spec's apply output shows:

  • Apply Summary: artifacts count, insertions/deletions
  • Validation results from Execute phase
  • Sandbox Cleanup: worktree removed, branch merged to main, checkpoint archived

The current implementation (PR #4219) uses flat file copy from .cleveragents/sandbox/ to project root. This works end-to-end but diverges from the spec in several ways.

Spec vs Current Implementation

Spec Requirement Current Gap
Execute in git worktree sandbox Flat directory .cleveragents/sandbox/ No git worktree
Apply merges worktree branch to main shutil.copy2 file copy No git merge
Apply Summary panel (artifacts, insertions/deletions) "Applied N file(s)" message No detailed stats
Validation results display Not shown Validation framework not wired
Sandbox cleanup: worktree removed, branch merged shutil.rmtree of sandbox dir No git cleanup
Checkpoint archived after apply Not done Checkpoint not referenced

Prerequisites

  • GitCheckoutHandler.create_sandbox() exists (PR #1067, issue #836) but is not called by PlanExecutor
  • SandboxManager.get_or_create_sandbox() supports git_worktree strategy
  • CheckpointManager is wired into PlanExecutor (PR #4218, issue #1253)

Acceptance Criteria

  • Execute phase creates a git worktree for the plan (not a flat directory)
  • LLM file output is written to the worktree (committed on a branch)
  • Apply merges the worktree branch into the project's current branch
  • Apply Summary panel shows: files changed, insertions, deletions, project name
  • Validation results from Execute phase displayed during apply
  • Worktree removed after successful apply
  • Checkpoint archived after apply
  • Fallback to flat copy when project is not a git repository

Subtasks

  • Wire GitCheckoutHandler.create_sandbox() into PlanExecutor for git-checkout resources
  • Execute phase: commit LLM output to worktree branch
  • Apply phase: git merge worktree branch into main
  • Apply Summary panel with git diff --stat output
  • Display validation results from execute phase
  • Worktree cleanup after apply (git worktree remove)
  • Checkpoint archival after apply
  • Fallback to current flat copy for non-git projects
  • Tests (Behave): git worktree apply lifecycle
  • Tests (Robot): E2E git merge apply
  • Verify coverage >= 97%
  • Run nox (all default sessions)

Definition of Done

This issue is complete when:

  • All subtasks above 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.
  • 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.

Current Implementation Details (PR #4219)

The flat file copy implementation lives in these locations:

Execute phase (file writing)

  • src/cleveragents/cli/commands/plan.py — _get_plan_executor() at line ~1394 sets sandbox_root=.cleveragents/sandbox/
  • src/cleveragents/application/services/llm_actors.py — _write_to_sandbox() writes FILE: blocks to sandbox_root with path traversal guard

Apply phase (file copying)

  • src/cleveragents/cli/commands/plan.py — lifecycle_apply_plan() at line ~2273 walks .cleveragents/sandbox/, copies to project root
  • Path traversal guards: os.path.normpath + startswith(project_root)
  • Protected dirs: .cleveragents, .git, .hg, .svn skipped
  • Per-file error handling: try/except OSError per shutil.copy2
  • Sandbox preserved on partial failure, cleaned on full success

Context hydration (dependency)

  • src/cleveragents/application/services/context_tier_hydrator.py — reads files from linked resources, must work regardless of sandbox strategy
  • LLMExecuteActor receives tier_service, project_repository, resource_registry via constructor injection

What to preserve as fallback

When the project is NOT a git repository (no .git/ directory), the flat copy path must remain active. The git worktree approach should be the default when a git-checkout resource is linked, with flat copy as the fallback for fs-directory and other non-git resource types.

## Metadata - **Commit Message**: `feat(plan): implement git worktree sandbox for execute and merge-based apply` - **Branch**: `feature/git-worktree-apply` ## Background The specification (lines 12105, 13225-13280) defines the Apply phase as: > "Changeset is merged into real project resources" The spec's apply output shows: - Apply Summary: artifacts count, insertions/deletions - Validation results from Execute phase - Sandbox Cleanup: worktree removed, branch merged to main, checkpoint archived The current implementation (PR #4219) uses flat file copy from `.cleveragents/sandbox/` to project root. This works end-to-end but diverges from the spec in several ways. ## Spec vs Current Implementation | Spec Requirement | Current | Gap | |---|---|---| | Execute in git worktree sandbox | Flat directory `.cleveragents/sandbox/` | No git worktree | | Apply merges worktree branch to main | `shutil.copy2` file copy | No git merge | | Apply Summary panel (artifacts, insertions/deletions) | "Applied N file(s)" message | No detailed stats | | Validation results display | Not shown | Validation framework not wired | | Sandbox cleanup: worktree removed, branch merged | `shutil.rmtree` of sandbox dir | No git cleanup | | Checkpoint archived after apply | Not done | Checkpoint not referenced | ## Prerequisites - `GitCheckoutHandler.create_sandbox()` exists (PR #1067, issue #836) but is not called by `PlanExecutor` - `SandboxManager.get_or_create_sandbox()` supports `git_worktree` strategy - `CheckpointManager` is wired into PlanExecutor (PR #4218, issue #1253) ## Acceptance Criteria - [ ] Execute phase creates a git worktree for the plan (not a flat directory) - [ ] LLM file output is written to the worktree (committed on a branch) - [ ] Apply merges the worktree branch into the project's current branch - [ ] Apply Summary panel shows: files changed, insertions, deletions, project name - [ ] Validation results from Execute phase displayed during apply - [ ] Worktree removed after successful apply - [ ] Checkpoint archived after apply - [ ] Fallback to flat copy when project is not a git repository ## Subtasks - [ ] Wire `GitCheckoutHandler.create_sandbox()` into `PlanExecutor` for git-checkout resources - [ ] Execute phase: commit LLM output to worktree branch - [ ] Apply phase: `git merge` worktree branch into main - [ ] Apply Summary panel with `git diff --stat` output - [ ] Display validation results from execute phase - [ ] Worktree cleanup after apply (`git worktree remove`) - [ ] Checkpoint archival after apply - [ ] Fallback to current flat copy for non-git projects - [ ] Tests (Behave): git worktree apply lifecycle - [ ] Tests (Robot): E2E git merge apply - [ ] Verify coverage >= 97% - [ ] Run `nox` (all default sessions) ## Definition of Done This issue is complete when: - All subtasks above 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. - 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. ## Current Implementation Details (PR #4219) The flat file copy implementation lives in these locations: ### Execute phase (file writing) - `src/cleveragents/cli/commands/plan.py` — `_get_plan_executor()` at line ~1394 sets `sandbox_root=.cleveragents/sandbox/` - `src/cleveragents/application/services/llm_actors.py` — `_write_to_sandbox()` writes `FILE:` blocks to `sandbox_root` with path traversal guard ### Apply phase (file copying) - `src/cleveragents/cli/commands/plan.py` — `lifecycle_apply_plan()` at line ~2273 walks `.cleveragents/sandbox/`, copies to project root - Path traversal guards: `os.path.normpath` + `startswith(project_root)` - Protected dirs: `.cleveragents`, `.git`, `.hg`, `.svn` skipped - Per-file error handling: `try/except OSError` per `shutil.copy2` - Sandbox preserved on partial failure, cleaned on full success ### Context hydration (dependency) - `src/cleveragents/application/services/context_tier_hydrator.py` — reads files from linked resources, must work regardless of sandbox strategy - `LLMExecuteActor` receives `tier_service`, `project_repository`, `resource_registry` via constructor injection ### What to preserve as fallback When the project is NOT a git repository (no `.git/` directory), the flat copy path must remain active. The git worktree approach should be the default when a `git-checkout` resource is linked, with flat copy as the fallback for `fs-directory` and other non-git resource types.
HAL9000 commented 2026-04-08 13:03:31 +00:00
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Thank you for filing this issue. I'm reviewing it now and will provide triage feedback shortly.

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Thank you for filing this issue. I'm reviewing it now and will provide triage feedback shortly. --- **Automated by CleverAgents Bot** Supervisor: Human Liaison | Agent: human-liaison
HAL9000 commented 2026-04-08 13:04:05 +00:00
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Issue reviewed and triaged.

This issue is well-formed: it has clear background with spec references, a gap analysis table comparing spec vs. current implementation, acceptance criteria, complete metadata (commit message + branch), subtasks, and a Definition of Done.

Context note: This issue builds on top of PR #4219 (issue #4222 — Apply phase file copy fix). It represents the next step toward full spec alignment for the Apply phase, moving from flat file copy to git worktree-based apply with merge semantics.

  • Priority: Medium — the current flat-copy implementation (PR #4219) is functional; this issue upgrades it to full spec compliance with git merge semantics. Important for correctness but not blocking basic usage.
  • Story Points: 8 (XL) — significant scope: git worktree wiring, commit-on-branch during execute, merge-based apply, Apply Summary panel, validation display, cleanup, checkpoint archival, fallback, and full test coverage.
  • Dependency: Depends on PR #4219 (issue #4222) being merged first, as this issue extends that work.
  • Next step: This issue is now verified and ready for implementation, pending merge of #4219.

Transitioning to State/Verified.

Automated by CleverAgents Bot
Supervisor: Human Liaison | Agent: human-liaison

Issue reviewed and triaged. This issue is well-formed: it has clear background with spec references, a gap analysis table comparing spec vs. current implementation, acceptance criteria, complete metadata (commit message + branch), subtasks, and a Definition of Done. **Context note:** This issue builds on top of PR #4219 (issue #4222 — Apply phase file copy fix). It represents the next step toward full spec alignment for the Apply phase, moving from flat file copy to git worktree-based apply with merge semantics. - **Priority**: Medium — the current flat-copy implementation (PR #4219) is functional; this issue upgrades it to full spec compliance with git merge semantics. Important for correctness but not blocking basic usage. - **Story Points**: 8 (XL) — significant scope: git worktree wiring, commit-on-branch during execute, merge-based apply, Apply Summary panel, validation display, cleanup, checkpoint archival, fallback, and full test coverage. - **Dependency**: Depends on PR #4219 (issue #4222) being merged first, as this issue extends that work. - **Next step**: This issue is now verified and ready for implementation, pending merge of #4219. Transitioning to `State/Verified`. --- **Automated by CleverAgents Bot** Supervisor: Human Liaison | Agent: human-liaison
HAL9000 commented 2026-04-08 13:59:34 +00:00
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MoSCoW classification: Should Have

Rationale: Implementing spec-aligned git worktree apply with merge, summary, and cleanup is an important feature for the plan apply workflow. The specification describes this behavior, and implementing it correctly improves the plan execution experience. Should Have — important but the system can function without it in the short term.

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Supervisor: Project Owner | Agent: project-owner

MoSCoW classification: **Should Have** Rationale: Implementing spec-aligned git worktree apply with merge, summary, and cleanup is an important feature for the plan apply workflow. The specification describes this behavior, and implementing it correctly improves the plan execution experience. Should Have — important but the system can function without it in the short term. --- **Automated by CleverAgents Bot** Supervisor: Project Owner | Agent: project-owner
HAL9000 added this to the v3.5.0 milestone 2026-04-08 17:42:24 +00:00
hamza.khyari 2026-04-09 14:27:38 +00:00
HAL9000 commented 2026-04-09 17:37:56 +00:00
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State label reconciliation:

  • Previous state: State/In Review
  • Corrected to: State/Completed
  • Reason: Issue is closed but had incorrect/missing terminal state label. Work was completed via merged PR #5998.

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State label reconciliation: - Previous state: State/In Review - Corrected to: State/Completed - Reason: Issue is closed but had incorrect/missing terminal state label. Work was completed via merged PR #5998. --- **Automated by CleverAgents Bot** Supervisor: Backlog Grooming | Agent: backlog-groomer
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 A bounty of $20 for any open-source contributor who provides a MR that solves this issue

  
Bounty
$2000
 A bounty of $2000 for any open-source contributor who provides a MR that solves this issue

  
Bounty
$250
 A bounty of $250 for any open-source contributor who provides a MR that solves this issue

  
Bounty
$50
 A bounty of $50 for any open-source contributor who provides a MR that solves this issue

  
Bounty
$500
 A bounty of $500 for any open-source contributor who provides a MR that solves this issue

  
Bounty
$5000
 A bounty of $5000 for any open-source contributor who provides a MR that solves this issue

  
Bounty
$750
 A bounty of $750 for any open-source contributor who provides a MR that solves this issue

  
MoSCoW
Could have
 Could have feature in order to satisfy the epic/legendary.

  
MoSCoW
Must have
 Must have feature in order to satisfy the epic/legendary.

  
MoSCoW
Should have
 Should have feature in order to satisfy the epic/legendary.

  
Needs Feedback
There are questions in the ticket that can not be completed until the project owner provides clarity.

  
Points
1
 1 man-hours worth of work for an expert with no learning curve.

  
Points
13
 13 man-hours worth of work for an expert with no learning curve.

  
Points
2
 2 man-hours worth of work for an expert with no learning curve.

  
Points
21
 21 man-hours worth of work for an expert with no learning curve.

  
Points
3
 3 man-hours worth of work for an expert with no learning curve.

  
Points
34
 34 man-hours worth of work for an expert with no learning curve.

  
Points
5
 5 man-hours worth of work for an expert with no learning curve.

  
Points
55
 55 man-hours worth of work for an expert with no learning curve.

  
Points
8
 8 man-hours worth of work for an expert with no learning curve.

  
Points
88
 88 man-hours worth of work for an expert with no learning curve.

  
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
v3.5.0
Projects
Clear projects
No items
No project
Assignees
Clear assignees
No assignees
2 participants
Notifications
Due date
The due date is invalid or out of range. Please use the format "yyyy-mm-dd".

No due date set.

Dependencies

No dependencies set.

Reference
cleveragents/cleveragents-core#4454
No description provided.