Pr

Create a pull request based on issue #$ARGUMENTS. Follow these steps systematically:

Phase 0: Setup and Worktree Decision

1. Ask the user: "Do you want to use a git worktree for this issue? (y/n)"
   • If yes: Create worktree ./worktree-issue-$ARGUMENTS-[desc] with branch issue-$ARGUMENTS-[desc]
   • If no: Create a new branch: git checkout -b issue-$ARGUMENTS-[brief-description]

Phase 1: Issue Analysis and Complexity Assessment

2. Analyse the issue:

   • Launch a haiku agent to: fetch issue #$ARGUMENTS with gh issue view, summarise it, identify related code areas using Glob/Grep, and return structured findings

3. Assess complexity (SIMPLE / MEDIUM / COMPLEX):

   • SIMPLE: Single file, typos, docs-only, trivial test updates
   • MEDIUM: 2-5 files, bug fixes, standard test updates
   • COMPLEX: New features, architectural changes, statistical implementations

4. Execute workflow based on tier:

FOR SIMPLE ISSUES:

• Quick codebase search for relevant code
• Implement changes directly
• Basic linting check only
• Skip to Phase 4

FOR MEDIUM ISSUES:

• Launch parallel haiku agents to: (a) search codebase for relevant files, (b) search CLAUDE.md and project docs for relevant guidelines
• Create lightweight plan in memory
• Continue to Phase 2

FOR COMPLEX ISSUES:

• Write issue analysis to issue_analysis_$ARGUMENTS.md
• Launch parallel haiku agents for codebase search and context mining
• Launch a sonnet agent to: create a detailed implementation plan with file modifications, code snippets, and testing strategy
• Write plan to pr_plan_issue_$ARGUMENTS.md
• Iterate on plan if needed
• Continue to Phase 2

Phase 2: Implementation

5. Implement the changes:
   • For statistical/research code: use /stats-implement patterns
   • Write and run tests
   • Fix based on test results
   • For independent tasks, use parallel subagents

Phase 3: Quality Assurance (complexity-based)

SIMPLE: Basic lint check and run tests if applicable

MEDIUM: Run lint, docs check, code review, tests, and requirements check

COMPLEX: All of MEDIUM plus statistical review (if applicable) and academic writing review (if applicable)

Phase 4: Final Verification and PR Creation

6. Fix any issues from quality checks
7. For MEDIUM/COMPLEX: Self-review the completed work
8. Verify all acceptance criteria are met
9. For COMPLEX: Clean up planning documents
10. Create well-structured commits, push the branch, and create PR:
    • Title: "Fix #$ARGUMENTS: [Clear description]"
    • Prepend: **This is entirely from an agent so do not review until I have pinged for review as I will do a first pass**
    • Include summary, changes, testing, and related issues