Replace ggpubr with patchwork to remove indirect ggrepel dependency

[Copilot]

ggrepel is not directly used in serocalculator — it was only present as a transitive dependency via ggpubr, which itself was only used for ggarrange() in two places. This PR swaps ggpubr for patchwork (already used in data-raw/) to make the dependency surface explicit and minimal.

Changes

• R/autoplot.seroincidence.by.R and R/graph_seroresponse_model_1.R: replace ggpubr::ggarrange(..., ncol, nrow) with patchwork::wrap_plots(..., ncol, nrow)

• DESCRIPTION: remove ggpubr from Imports, add patchwork

• man/autoplot.seroincidence.by.Rd: return type updated from "ggarrange" → "patchwork" (regenerated via roxygen2)

• tests/.../seroinc-plot.svg: updated vdiffr snapshot to reflect patchwork layout

• .gitignore: add tests/vdiffr.Rout.fail

• The title of your PR should briefly describe the change.

• Commit/merge messages to be included in NEWS.md should begin with -.

• Code should follow the tidyverse style guide.

• Documentation should use roxygen2, with Markdown syntax.

• Contributions should include unit tests (using testthat).

For more information see Contributing.

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[codecov]

Codecov Report

❌ Patch coverage is 50.00000% with 1 line in your changes missing coverage. Please review.
✅ All tests successful. No failed tests found.

Files with missing lines	Patch %	Lines
R/graph_seroresponse_model_1.R	0.00%	1 Missing ⚠️

Files with missing lines	Coverage Δ
R/autoplot.seroincidence.by.R	91.66% <100.00%> (ø)
R/graph_seroresponse_model_1.R	0.00% <0.00%> (ø)

[github-actions]

📖 https://UCD-SERG.github.io/serocalculator/preview/pr507/
Preview documentation for this PR (at commit 42840c4)