Pip fill -> Pip scale

.Rbuildignore

@@ -0,0 +1,15 @@
+^\.pixi
+^pixi\.toml$
+^pixi\.lock$
+^demo_output
+^legacy examples
+^test_simple_dice\.R$
+^test_fill_legend_fix\.R$
+^Rplots\.pdf$
+^\.github
+^\.DS_Store$
+^\.claude
+^CLAUDE\.md$
+^examples
+^README\.html$
+^data-raw$

DESCRIPTION

@@ -1,6 +1,6 @@
 Package: ggdiceplot
 Title: DicePlot Visualization for ggplot2
-Version: 1.0.0
+Version: 1.1.0
 Authors@R: 
     person(
         given = "Matthias", 
@@ -20,15 +20,16 @@ Description: Provides ggplot2 extensions for creating dice-based visualizations
 License: MIT + file LICENSE
 Encoding: UTF-8
 Roxygen: list(markdown = TRUE)
-RoxygenNote: 7.3.2
+RoxygenNote: 7.3.3
 URL: https://github.com/maflot/ggdiceplot
 BugReports: https://github.com/maflot/ggdiceplot/issues
-Imports: 
+Imports:
+    dplyr,
     ggplot2 (>= 3.4.0),
     grid,
-    dplyr,
     legendry,
-    scales
+    scales,
+    tibble
 LazyData: true
-Depends: 
-    R (>= 4.0.0)
+Depends:
+    R (>= 4.1.0)

LICENSE

@@ -1,21 +1,2 @@
-MIT License
-
-Copyright (c) 2024 Matthias Flotho
-
-Permission is hereby granted, free of charge, to any person obtaining a copy
-of this software and associated documentation files (the "Software"), to deal
-in the Software without restriction, including without limitation the rights
-to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
-copies of the Software, and to permit persons to whom the Software is
-furnished to do so, subject to the following conditions:
-
-The above copyright notice and this permission notice shall be included in all
-copies or substantial portions of the Software.
-
-THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
-IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
-FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
-AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
-LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
-OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
-SOFTWARE.
+YEAR: 2026
+COPYRIGHT HOLDER: Matthias Flotho

NAMESPACE

@@ -5,6 +5,9 @@ export(geom_dice)
 export(make_offsets)
 export(scale_dots_discrete)
 export(theme_dice)
+importFrom(dplyr,bind_rows)
+importFrom(dplyr,distinct)
+importFrom(dplyr,filter)
 importFrom(ggplot2,"%+replace%")
 importFrom(ggplot2,Geom)
 importFrom(ggplot2,aes)
@@ -15,6 +18,7 @@ importFrom(ggplot2,ggproto)
 importFrom(ggplot2,layer)
 importFrom(ggplot2,theme)
 importFrom(ggplot2,theme_grey)
+importFrom(grid,drawDetails)
 importFrom(grid,gpar)
 importFrom(grid,grobTree)
 importFrom(grid,nullGrob)
@@ -23,3 +27,5 @@ importFrom(grid,rectGrob)
 importFrom(grid,unit)
 importFrom(legendry,guide_legend_base)
 importFrom(scales,pal_hue)
+importFrom(tibble,column_to_rownames)
+importFrom(tibble,remove_rownames)

NEWS.md

@@ -0,0 +1,61 @@
+# ggdiceplot 1.1.0
+
+## New features
+
+* **`pip_scale` parameter** — New argument to `geom_dice()` that controls pip
+  diameter as a fraction (0–1) of the maximum available space inside each die
+  face. When `size` is constant (not mapped), all pips are drawn at
+  `pip_scale × max_diameter`. When `size` is mapped to a variable, pips scale
+  between 25% and `pip_scale` of the maximum pip diameter. Set `pip_scale = NULL`
+  to disable auto-scaling and use the raw `size` aesthetic (legacy behaviour).
+  Default: `0.75`.
+
+* **Deferred rendering via `DiceGrob`** — Pip sizing is now calculated at
+  grid draw time rather than ggplot build time, so pip diameters adapt
+  correctly to the final figure dimensions.
+
+* **Scale expansion for edge tiles** — `setup_data` now exposes
+  `xmin`/`xmax`/`ymin`/`ymax` so ggplot2 trains axis scales to include the
+  full tile area, preventing clipping of border tiles.
+
+* **New datasets** — `sample_dice_large` (480 rows, 60 taxa) and
+  `sample_dice_miRNA` (~90 rows, miRNA dysregulation) are included for
+  demonstrating high-density and categorical-fill use cases.
+
+## Breaking changes
+
+* **Minimum R version raised to 4.1.0** (was 4.0.0). R 4.1 is required for
+  the native pipe operator (`|>`) used internally.
+
+* **`tibble` is now a hard dependency** — added to `Imports` for
+  `column_to_rownames()` / `remove_rownames()`.
+
+* **`draw_panel` signature changed** — The method now takes explicit named
+  arguments (`na.rm`, `ndots`, `x_length`, `y_length`, `pip_scale`) instead of
+  `params, ...`. Code that subclassed `GeomDice` or called `draw_panel`
+  directly will need updating.
+
+* **Sample datasets restructured**:
+    - `sample_dice_data1`: 48 rows → 160 rows (8 taxa × 4 diseases × 5
+      specimens). Columns are the same but `lfc` and `q` may now contain `NA`.
+    - `sample_dice_data2`: 48 rows → 160 rows; the `replicate` column has been
+      removed. Column count changed from 6 to 5.
+
+* **Legend key for unmapped fill** — When `fill` is not mapped, legend keys now
+  draw a solid black dot instead of an empty circle, making spatial/dots-only
+  legends more readable.
+
+## Minor changes
+
+* `LICENSE` switched to CRAN-standard two-line format (`YEAR` / `COPYRIGHT
+  HOLDER`).
+* `.Rbuildignore` added to exclude pixi, demo output, test scripts, and other
+  non-package files from the R CMD build tarball.
+* `data-raw/` directory created; dataset-generation scripts moved there from
+  `data/`.
+* `pixi.toml` / `pixi.lock` added for reproducible environment management.
+* Demo scripts (`create_demo_plots.R`, `test_simple_dice.R`) rewritten to
+  exercise the new `pip_scale` feature and run from the project root.
+* README updated with new examples, a parameter table, and the published
+  Bioinformatics citation.
+* RoxygenNote bumped to 7.3.3.