review-r

Review R Scripts

Run the comprehensive R code review protocol.

Steps

1. Identify scripts to review:

• If $ARGUMENTS is a specific .R filename: review that file only
• If $ARGUMENTS is a name pattern (e.g., model_name): glob for matching .R files. If multiple matches, use AskUserQuestion:
• header: "Scripts"
• question: "Multiple R scripts match that pattern. Which should I review?"
• multiSelect: true
• options: list up to 4 matched files (label: filename, description: path and last modified). User can select multiple.
• If $ARGUMENTS is all: review all R scripts in scripts/R/ and Figures/*/
• If $ARGUMENTS is empty, glob for all .R files. If multiple found, use AskUserQuestion as above.

1. For each script, launch the r-reviewer agent with instructions to:

• Follow the full protocol in the agent instructions
• Read rules/r-code-conventions.md for current standards
• Save report to quality_reports/[script_name]_r_review.md

1. After all reviews complete, present a summary:

• Total issues found per script
• Breakdown by severity (Critical / High / Medium / Low)
• Top 3 most critical issues

1. IMPORTANT: Do NOT edit any R source files.

Only produce reports. Fixes are applied after user review.