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Standardize normalize output figures across MOSuite function calls#4

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phoman14 wants to merge 13 commits into
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FigOutSync
Open

Standardize normalize output figures across MOSuite function calls#4
phoman14 wants to merge 13 commits into
mainfrom
FigOutSync

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@phoman14

@phoman14 phoman14 commented Jul 2, 2026

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Summary

This PR aligns the normalize-counts capsule with the package-level figure standardization work. The intent is for figures produced from this capsule to match figures produced by the corresponding MOSuite function calls, rather than carrying capsule-specific color or legend defaults.

Changes

  • Install MOSuite from CCBR/MOSuite@FigOutSync during capsule setup so the capsule can use the updated package behavior before the next release image is available.
  • Keep the capsule work on the FigOutSync branch; this PR does not target or update main directly.
  • Align the normalize-counts Code Ocean panel and CLI plot color defaults with the MOSuite package defaults.
  • Leave the histogram legend font size blank by default so normalize_counts() can use the package's automatic legend text scaling for many or long labels.
  • Parse an explicit histogram legend font size only when the user provides one.
  • Keep the capsule parameter descriptions focused on the user-facing defaults.
  • Update CHANGELOG.md for the user-facing default changes.
  • Add @phoman14 attribution to the development changelog entries for this PR.

Validation: local capsule tests passed (PASS 12).

Issues

No linked issue.

PR Checklist

(Strikethrough any points that are not applicable.)

  • This comment contains a description of changes with justifications, with any relevant issues linked.
  • Run the capsule in Code Ocean and ensure it completes successfully with no errors. Local capsule tests passed.
  • Update CHANGELOG.md with a short description of any user-facing changes and reference the PR number. Follow the style described in https://style.tidyverse.org/news.html
  • The tests workflow succeeds on the latest commit.

@phoman14 phoman14 changed the title Align normalize plot defaults with MOSuite package Standardize normalize output figures across MOSuite function calls Jul 2, 2026
@phoman14 phoman14 requested a review from kelly-sovacool July 2, 2026 20:00
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