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Profile Audit Guide

Guide Fit

flowchart TD
  family["Reproducible Research"] --> program["Deep Dive Snakemake"]
  program --> pressure["A concrete learner or reviewer question"]
  pressure --> guide["Profile Audit Guide"]
  guide --> next["Modules, capstone, and reference surfaces"]
flowchart TD
  question["Name the exact question you need answered"] --> skim["Skim only the sections that match that pressure"]
  skim --> crosscheck["Open the linked module, proof surface, or capstone route"]
  crosscheck --> next_move["Leave with one next decision, page, or command"]

Read the first diagram as a timing map: this guide is for a named pressure, not for wandering the whole course-book. Read the second diagram as the guide loop: arrive with a concrete question, use only the matching sections, then leave with one smaller and more honest next move.

Use this page when the question is about local, CI, and scheduler execution contexts rather than about rule contracts alone.

  1. Read Capstone Architecture Guide.
  2. Run make PROGRAM=reproducible-research/deep-dive-snakemake capstone-profile-audit.
  3. Compare the resulting bundle with Capstone Review Worksheet and Boundary Map.

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What A Good Audit Can Answer

  • which settings are operating policy and which would change workflow meaning
  • which context shift would be safest or riskiest for reproducibility
  • where a reviewer should look first when execution context changes

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