Merge branch 'main' into subtheme

Author: teunbrand

DESCRIPTION

@@ -38,13 +38,13 @@ Imports:
     gtable (>= 0.1.1),
     isoband,
     lifecycle (> 1.0.1),
-    MASS,
     rlang (>= 1.1.0),
     scales (>= 1.3.0),
     stats,
     vctrs (>= 0.6.0),
     withr (>= 2.5.0)
 Suggests:
+    broom,
     covr,
     dplyr,
     ggplot2movies,
@@ -53,6 +53,7 @@ Suggests:
     knitr,
     mapproj,
     maps,
+    MASS,
     mgcv,
     multcomp,
     munsell,
@@ -126,15 +127,15 @@ Collate:
     'facet-grid-.R'
     'facet-null.R'
     'facet-wrap.R'
-    'fortify-lm.R'
     'fortify-map.R'
-    'fortify-multcomp.R'
+    'fortify-models.R'
     'fortify-spatial.R'
     'fortify.R'
     'stat-.R'
     'geom-abline.R'
     'geom-rect.R'
     'geom-bar.R'
+    'geom-tile.R'
     'geom-bin2d.R'
     'geom-blank.R'
     'geom-boxplot.R'
@@ -151,7 +152,6 @@ Collate:
     'geom-density2d.R'
     'geom-dotplot.R'
     'geom-errorbar.R'
-    'geom-errorbarh.R'
     'geom-freqpoly.R'
     'geom-function.R'
     'geom-hex.R'
@@ -168,7 +168,6 @@ Collate:
     'geom-smooth.R'
     'geom-spoke.R'
     'geom-text.R'
-    'geom-tile.R'
     'geom-violin.R'
     'geom-vline.R'
     'ggplot2-package.R'
@@ -255,6 +254,7 @@ Collate:
     'stat-ellipse.R'
     'stat-function.R'
     'stat-identity.R'
+    'stat-manual.R'
     'stat-qq-line.R'
     'stat-qq.R'
     'stat-quantilemethods.R'

NAMESPACE

@@ -94,6 +94,7 @@ S3method(makeContext,dotstackGrob)
 S3method(merge_element,default)
 S3method(merge_element,element)
 S3method(merge_element,element_blank)
+S3method(merge_element,margin)
 S3method(pattern_alpha,GridPattern)
 S3method(pattern_alpha,GridTilingPattern)
 S3method(pattern_alpha,default)
@@ -172,6 +173,7 @@ export(GeomAbline)
 export(GeomAnnotationMap)
 export(GeomArea)
 export(GeomBar)
+export(GeomBin2d)
 export(GeomBlank)
 export(GeomBoxplot)
 export(GeomCol)
@@ -263,6 +265,7 @@ export(StatEcdf)
 export(StatEllipse)
 export(StatFunction)
 export(StatIdentity)
+export(StatManual)
 export(StatQq)
 export(StatQqLine)
 export(StatQuantile)
@@ -475,6 +478,7 @@ export(is.scale)
 export(is.stat)
 export(is.theme)
 export(is.theme_element)
+export(is.waiver)
 export(label_both)
 export(label_bquote)
 export(label_context)
@@ -492,6 +496,8 @@ export(layer_sf)
 export(lims)
 export(map_data)
 export(margin)
+export(margin_auto)
+export(margin_part)
 export(max_height)
 export(max_width)
 export(mean_cl_boot)
@@ -686,6 +692,7 @@ export(stat_ecdf)
 export(stat_ellipse)
 export(stat_function)
 export(stat_identity)
+export(stat_manual)
 export(stat_qq)
 export(stat_qq_line)
 export(stat_quantile)
@@ -730,6 +737,7 @@ export(theme_sub_panel)
 export(theme_sub_plot)
 export(theme_sub_strip)
 export(theme_test)
+export(theme_transparent)
 export(theme_update)
 export(theme_void)
 export(transform_position)

NEWS.md

@@ -5,6 +5,50 @@
   `theme(axis.line, axis.text, axis.ticks, axis.ticks.length, axis.line)`. This
   should allow slightly terser and more organised theme declarations 
   (@teunbrand, #5301).
+* `scale_{x/y}_discrete(continuous.limits)` is a new argument to control the
+  display range of discrete scales (@teunbrand, #4174, #6259).
+* `geom_ribbon()` now appropriately warns about, and removes, missing values 
+  (@teunbrand, #6243).
+* `guide_*()` can now accept two inside legend theme elements:
+  `legend.position.inside` and `legend.justification.inside`, allowing inside
+  legends to be placed at different positions. Only inside legends with the same
+  position and justification will be merged (@Yunuuuu, #6210).
+* New stat: `stat_manual()` for arbitrary computations (@teunbrand, #3501)
+* Reversal of a dimension, typically 'x' or 'y', is now controlled by the 
+  `reverse` argument in `coord_cartesian()`, `coord_fixed()`, `coord_radial()`
+  and `coord_sf()`. In `coord_radial()`, this replaces the older `direction` 
+  argument (#4021, @teunbrand).
+* `coord_radial()` displays minor gridlines now (@teunbrand).
+* (internal) `continuous_scale()` and `binned_scale()` sort the `limits` 
+  argument internally (@teunbrand).
+* Theme margins can have NA-units to inherit from parent elements. The new
+  function `margin_part()` has NA-units as default (@teunbrand, #6115)
+* New `margin_auto()` specification for theme margins.
+* New argument `labs(dictionary)` to label based on variable name rather than 
+  based on aesthetic (@teunbrand, #5178)
+* Fixed bug in out-of-bounds binned breaks (@teunbrand, #6054)
+* Binned guides now accept expressions as labels (@teunbrand, #6005)
+* (internal) `Scale$get_labels()` format expressions as lists.
+* In non-orthogonal coordinate systems (`coord_sf()`, `coord_polar()` and 
+  `coord_radial()`), using 'AsIs' variables escape transformation when
+  both `x` and `y` is an 'AsIs' variable (@teunbrand, #6205).
+* The following methods have been deprecated: `fortify.lm()`, `fortify.glht()`,
+  `fortify.confint.glht()`, `fortify.summary.glht()` and `fortify.cld()`. It
+  is recommend to use `broom::augment()` and `broom::tidy()` instead 
+  (@teunbrand, #3816).
+* Custom and raster annotation now respond to scale transformations, and can
+  use AsIs variables for relative placement (@teunbrand based on 
+  @yutannihilation's prior work, #3120)
+* When discrete breaks have names, they'll be used as labels by default 
+  (@teunbrand, #6147).
+* The helper function `is.waiver()` is now exported to help extensions to work
+  with `waiver()` objects (@arcresu, #6173).
+* Date(time) scales now throw appropriate errors when `date_breaks`, 
+  `date_minor_breaks` or `date_labels` are not strings (@RodDalBen, #5880)
+* `geom_errorbarh()` is deprecated in favour of 
+  `geom_errorbar(orientation = "y")` (@teunbrand, #5961).
+* `geom_contour()` should be able to recognise a rotated grid of points 
+  (@teunbrand, #4320)
 * `geom_boxplot()` gains additional arguments to style the colour, linetype and
   linewidths of the box, whiskers, median line and staples (@teunbrand, #5126)
 * (internal) Using `after_scale()` in the `Geom*$default_aes()` field is now
@@ -196,6 +240,18 @@
   `labs()` and several guides (@teunbrand, #3196).
 * `stat_summary_bin()` no longer ignores `width` parameter (@teunbrand, #4647).
 * Added `keep.zeroes` argument to `stat_bin()` (@teunbrand, #3449)
+* (internal) removed barriers for using 2D structures as aesthetics 
+  (@teunbrand, #4189).
+* `coord_sf()` no longer errors when dealing with empty graticules (@teunbrand, #6052)
+* Added `theme_transparent()` with transparent backgrounds (@topepo).
+* New theme elements `palette.{aes}.discrete` and `palette.{aes}.continuous`. 
+  Theme palettes replace palettes in scales where `palette = NULL`, which is 
+  the new default in many scales (@teunbrand, #4696).
+* `guide_axis()` no longer reserves space for blank ticks 
+  (@teunbrand, #4722, #6069).
+* `geom_abline()` clips to the panel range in the vertical direction too
+  (@teunbrand, #6086).
+* Added `panel.widths` and `panel.heights` to `theme()` (#5338, @teunbrand).
 
 # ggplot2 3.5.1
 

R/annotation-custom.R

@@ -70,21 +70,12 @@ GeomCustomAnn <- ggproto("GeomCustomAnn", Geom,
 
   draw_panel = function(data, panel_params, coord, grob, xmin, xmax,
                         ymin, ymax) {
-    if (!inherits(coord, "CoordCartesian")) {
-      cli::cli_abort("{.fn annotation_custom} only works with {.fn coord_cartesian}.")
-    }
-    corners <- data_frame0(
-      x = c(xmin, xmax),
-      y = c(ymin, ymax),
-      .size = 2
+    range <- ranges_annotation(
+      coord, panel_params, xmin, xmax, ymin, ymax,
+      fun = "annotation_custom"
     )
-    data <- coord$transform(corners, panel_params)
-
-    x_rng <- range(data$x, na.rm = TRUE)
-    y_rng <- range(data$y, na.rm = TRUE)
-
-    vp <- viewport(x = mean(x_rng), y = mean(y_rng),
-                   width = diff(x_rng), height = diff(y_rng),
+    vp <- viewport(x = mean(range$x), y = mean(range$y),
+                   width = diff(range$x), height = diff(range$y),
                    just = c("center","center"))
     editGrob(grob, vp = vp, name = paste(grob$name, annotation_id()))
   },
@@ -99,3 +90,21 @@ annotation_id <- local({
     i
   }
 })
+
+ranges_annotation <- function(coord, panel_params, xmin, xmax, ymin, ymax, fun) {
+  if (!inherits(coord, "CoordCartesian")) {
+    cli::cli_abort("{.fn {fun}} only works with {.fn coord_cartesian}.")
+  }
+  data <- data_frame0(xmin = xmin, xmax = xmax, ymin = ymin, ymax = ymax)
+  data <- .ignore_data(data)[[1]]
+  x <- panel_params$x$scale$transform_df(data)
+  data[names(x)] <- x
+  y <- panel_params$y$scale$transform_df(data)
+  data[names(y)] <- y
+  data <- .expose_data(data)[[1]]
+  data <- coord$transform(data, panel_params)
+  list(
+    x = range(data$xmin, data$xmax, na.rm = TRUE),
+    y = range(data$ymin, data$ymax, na.rm = TRUE)
+  )
+}

R/annotation-raster.R

@@ -73,21 +73,13 @@ GeomRasterAnn <- ggproto("GeomRasterAnn", Geom,
 
   draw_panel = function(data, panel_params, coord, raster, xmin, xmax,
                         ymin, ymax, interpolate = FALSE) {
-    if (!inherits(coord, "CoordCartesian")) {
-      cli::cli_abort("{.fn annotation_raster} only works with {.fn coord_cartesian}.")
-    }
-    corners <- data_frame0(
-      x = c(xmin, xmax),
-      y = c(ymin, ymax),
-      .size = 2
+    range <- ranges_annotation(
+      coord, panel_params, xmin, xmax, ymin, ymax,
+      fun = "annotation_raster"
+    )
+    rasterGrob(raster, range$x[1], range$y[1],
+      diff(range$x), diff(range$y), default.units = "native",
+      just = c("left","bottom"), interpolate = interpolate
     )
-    data <- coord$transform(corners, panel_params)
-
-    x_rng <- range(data$x, na.rm = TRUE)
-    y_rng <- range(data$y, na.rm = TRUE)
-
-    rasterGrob(raster, x_rng[1], y_rng[1],
-      diff(x_rng), diff(y_rng), default.units = "native",
-      just = c("left","bottom"), interpolate = interpolate)
   }
 )

R/axis-secondary.R

@@ -129,7 +129,7 @@ is.sec_axis <- function(x) {
 }
 
 set_sec_axis <- function(sec.axis, scale) {
-  if (!is.waive(sec.axis)) {
+  if (!is.waiver(sec.axis)) {
     if (scale$is_discrete()) {
       if (!identical(.subset2(sec.axis, "trans"), identity)) {
         cli::cli_abort("Discrete secondary axes must have the {.fn identity} transformation.")
@@ -182,11 +182,11 @@ AxisSecondary <- ggproto("AxisSecondary", NULL,
     if (!is.function(transform)) {
       cli::cli_abort("Transformation for secondary axes must be a function.")
     }
-    if (is.derived(self$name) && !is.waive(scale$name)) self$name <- scale$name
+    if (is.derived(self$name) && !is.waiver(scale$name)) self$name <- scale$name
     if (is.derived(self$breaks)) self$breaks <- scale$breaks
-    if (is.waive(self$breaks)) {
+    if (is.waiver(self$breaks)) {
       if (scale$is_discrete()) {
-        self$breaks <- scale$get_breaks()
+        self$breaks <- setNames(nm = scale$get_breaks())
       } else {
         breaks <- scale$get_transformation()$breaks
         n_breaks <- scale$n.breaks
@@ -235,7 +235,7 @@ AxisSecondary <- ggproto("AxisSecondary", NULL,
       self$mono_test(scale)
       breaks <- self$breaks
     } else {
-      breaks <- scale$map(self$breaks)
+      breaks <- setNames(scale$map(self$breaks), names(self$breaks))
     }
 
     # Get scale's original range before transformation

R/coord-.R

@@ -59,6 +59,9 @@ Coord <- ggproto("Coord",
   # "on" = yes, "off" = no
   clip = "on",
 
+  # Should any of the scales be reversed?
+  reverse = "none",
+
   aspect = function(ranges) NULL,
 
   labels = function(self, labels, panel_params) {
@@ -185,11 +188,7 @@ Coord <- ggproto("Coord",
   is_free = function() FALSE,
 
   setup_params = function(self, data) {
-    list(
-      guide_default = guide_axis(),
-      guide_missing = guide_none(),
-      expand = parse_coord_expand(self$expand %||% TRUE)
-    )
+    list(expand = parse_coord_expand(self$expand %||% TRUE))
   },
 
   setup_data = function(data, params = list()) {
@@ -284,3 +283,24 @@ check_coord_limits <- function(
   check_object(limits, is_vector, "a vector", arg = arg, call = call)
   check_length(limits, 2L, arg = arg, call = call)
 }
+
+is_transform_immune <- function(data, coord_name) {
+  x <- inherits(data$x, "AsIs")
+  y <- inherits(data$y, "AsIs")
+  if (!(x || y)) {
+    # Neither variable is AsIs, so we need to transform
+    return(FALSE)
+  }
+  if (x && y) {
+    # Both variables are AsIs, so no need to transform
+    return(TRUE)
+  }
+  # We're now in the `xor(x, y)` case
+  var <- if (x) "x" else "y"
+  alt <- if (x) "y" else "x"
+  cli::cli_warn(
+    "{.fn {coord_name}} cannot respect the {.cls AsIs} class of {.var {var}} \\
+    when {.var {alt}} is not also {.cls AsIs}."
+  )
+  return(FALSE)
+}