Fixes for ggplot2 version 4 and ggcyto breaking changes - #12

Merged

NKInstinct merged 16 commits into

NKInstinct:masterfrom

DavidRach:master

Jul 2, 2026

Commits on Dec 1, 2025

Hi Andrew/Harvey, just testing whether I can get rid of the @import in favor of @importFrom and still have everything work. Will pull request any useful changes (and some additional unit test). Bes…
DavidRach
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cb5b56a

Commits on Feb 21, 2026

With ggplot2 switching to v4, and ggcyto shifts, flowGate is failing on shiny launch. Creating unit test systematically as I go (as likely will need to refer some of this up to ggcyto as well).
DavidRach
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09d2ba1
as.ggplot clashing with residual ggcyto_GatingSet class, on stripping returns a ggplot2 object. Gates are still not recording correctly.
DavidRach
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db5d8c8
Worked through Shiny capture options, gate is being created, but returning a colname not found on recompute from flowWorkspace.
DavidRach
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2fb4897
Fixed! The two major changes are the linguering GatingSet class that broke as.ggplot. The second was a ggplot2 v4 change that resulted in no column names getting pulled from data of the ggplot. Wit…
DavidRach
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890bb64
Unit test for all four interactive plot types. Need to check ggplot2 v3 next to see if back-compatible or not.
DavidRach
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34aa109

Commits on Apr 4, 2026

Missing description file comma
DavidRach
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d84ac97

Commits on Apr 16, 2026

Rollback requirement to R >= 4.4 for Cytometry in R class
DavidRach
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37b6ce1

Commits on Jun 20, 2026

Commits on Jun 21, 2026

SpanGate adjustments and openCyto template exports are operational
DavidRach
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36d8576

Commits on Jun 27, 2026

Commits on Jun 28, 2026

Quality of life change for the Shiny, when only one-dimension provided, updates Radio Button to select spanGate
DavidRach
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2c582bc

Commits on Jul 2, 2026

Brough over Bioconductor flowGate version 1.13.1 differences to bring both GitHub and Bioconductor brances to being equivalent (except for preparePlot, which still double checking with unit tests f…
DavidRach
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5cca8dd