Remove references to iris

Closes #18

DESCRIPTION

 ByteCompile: true
 URL: https://github.com/gadenbuie/ggpomological
 BugReports: https://github.com/gadenbuie/ggpomological/issues
-RoxygenNote: 6.0.1
+RoxygenNote: 7.1.0
 Roxygen: list(markdown = TRUE)
 Depends: 
     ggplot2

R/theme_pomological.R

 #'
 #' @examples
 #' library(ggplot2)
-#' basic_iris_plot <- ggplot(iris) +
-#'   aes(x = Sepal.Length, y = Sepal.Width, color = Species) +
+#' 
+#' # Prep msleep data
+#' msleep <- ggplot2::msleep[, c("vore", "sleep_rem", "sleep_total")]
+#' msleep <- msleep[complete.cases(msleep), ]
+#' msleep$vore <- paste0(msleep$vore, "vore")
+#' 
+#' # Base plot
+#' basic_msleep_plot <- ggplot(msleep) +
+#'   aes(x = sleep_rem, y = sleep_total, color = vore) +
 #'   geom_point(size = 2) +
-#'   # with pomological color scale
-#'   scale_color_pomological()
+#'   labs(color = NULL)
+#' 
+#' # Just your standard ggplot
+#' basic_msleep_plot 
+#' 
+#' # With pomological colors
+#' basic_msleep_plot <- basic_msleep_plot + scale_color_pomological()
+#' basic_msleep_plot
+#' 
+#' # With pomological theme
+#' basic_msleep_plot + theme_pomological()
+#' 
+#' # With transparent background
+#' basic_msleep_plot + theme_pomological_plain() 
 #' 
-#' # Pomological Theme  
-#' basic_iris_plot + 
-#'   theme_pomological() 
+#' # Or with "fancy" pomological settings
+#' pomological_msleep <- basic_msleep_plot + theme_pomological_fancy()
 #' 
-#' # With fonts (manual)
-#' basic_iris_plot + 
-#'   theme_pomological("Homemade Apple", 16)
-#'   
-#' # Or with fancy alias (same as previous)
-#' basic_iris_plot +
-#'   theme_pomological_fancy()
-#'   
-#' # Plain plot without font or background
-#' basic_iris_plot +
-#'   theme_pomological_plain()
+#' # Painted!
+#' paint_pomological(pomological_msleep, res = 110)
 #' 
 #' @export
 theme_pomological <- function(

Readme.Rmd

 
 ## Introduction
 
-```{r readme, child = "vignettes/ggpomological.Rmd", out.dir="Readme_files/figure-gfm/"}
+```{r include=FALSE}
+README <- TRUE
+knitr::opts_chunk$set(fig.path = "man/figures/")
+```
+
+
+```{r readme, child = "vignettes/ggpomological.Rmd", out.dir=here::here("man", "figures")}
 ```

Readme.md

 parameterized RMarkdown](https://youtu.be/Ol1FjFR2IMU?t=5h21m15s) at
 [rstudio::conf 2018](https://www.rstudio.com/conference/).
 
-![](Readme_files/figure-gfm/ggpomological-1.png)<!-- -->
+![](man/figures/ggpomological-1.png)<!-- -->
 
-![](Readme_files/pom-examples.jpg)<!-- -->[^1]
+![](man/figures/pom-examples.jpg)<!-- -->\[1\]
 
 ## Color Palette
 
 scales::show_col(ggpomological:::pomological_palette)
 ```
 
-![](Readme_files/figure-gfm/unnamed-chunk-1-2.png)<!-- -->
+![](man/figures/unnamed-chunk-2-2.png)<!-- -->
 
 and a few colors for the plot background and decoration
 
 scales::show_col(unlist(ggpomological:::pomological_base))
 ```
 
-![](Readme_files/figure-gfm/unnamed-chunk-2-1.png)<!-- -->
+![](man/figures/unnamed-chunk-3-1.png)<!-- -->
 
 I’ve also included a [css file](inst/pomological.css) with the complete
 collection of color samples.
 ### Basic iris plot
 
 ``` r
+# Prep msleep data
+msleep <- ggplot2::msleep[, c("vore", "sleep_rem", "sleep_total")]
+msleep <- msleep[complete.cases(msleep), ]
+msleep$vore <- paste0(msleep$vore, "vore")
+
 # Base plot
-basic_iris_plot <- ggplot(iris) +
-  aes(x = Sepal.Length, y = Sepal.Width, color = Species) +
-  geom_point(size = 2)
+basic_msleep_plot <- ggplot(msleep) +
+  aes(x = sleep_rem, y = sleep_total, color = vore) +
+  geom_point(size = 2) +
+  labs(color = NULL)
 
-# Just your standard Iris plot
-basic_iris_plot 
+# Just your standard ggplot
+basic_msleep_plot 
 ```
 
-![](Readme_files/figure-gfm/plot-demo-2.png)<!-- -->
+![](man/figures/plot-demo-2.png)<!-- -->
 
 ``` r
 
 # With pomological colors
-basic_iris_plot <- basic_iris_plot + scale_color_pomological()
-basic_iris_plot
+basic_msleep_plot <- basic_msleep_plot + scale_color_pomological()
+basic_msleep_plot
 ```
 
-![](Readme_files/figure-gfm/plot-demo-3.png)<!-- -->
+![](man/figures/plot-demo-3.png)<!-- -->
 
 ``` r
 
 # With pomological theme
-basic_iris_plot + theme_pomological()
+basic_msleep_plot + theme_pomological()
 ```
 
-![](Readme_files/figure-gfm/plot-demo-4.png)<!-- -->
+![](man/figures/plot-demo-4.png)<!-- -->
 
 ``` r
 
 # With transparent background
-basic_iris_plot + theme_pomological_plain() 
+basic_msleep_plot + theme_pomological_plain() 
 ```
 
-![](Readme_files/figure-gfm/plot-demo-5.png)<!-- -->
+![](man/figures/plot-demo-5.png)<!-- -->
 
 ``` r
 
 # Or with "fancy" pomological settings
-pomological_iris <- basic_iris_plot + theme_pomological_fancy()
+pomological_msleep <- basic_msleep_plot + theme_pomological_fancy()
 
 # Painted!
-paint_pomological(pomological_iris, res = 110)
+paint_pomological(pomological_msleep, res = 110)
 ```
 
-![](Readme_files/figure-gfm/plot-demo-1.png)<!-- -->
+![](man/figures/plot-demo-1.png)<!-- -->
 
 ### Stacked bar chart
 
   xlab('Price (USD)') + 
   ylab('Count') + 
   ggtitle("ggpomological") +
-  scale_x_continuous(label = scales::dollar_format()) +
+  scale_x_continuous(labels = scales::dollar_format()) +
   scale_fill_pomological()
 
 stacked_bar_plot + theme_pomological("Homemade Apple", 16)
 ```
 
-![](Readme_files/figure-gfm/plot-bar-chart-2.png)<!-- -->
+![](man/figures/plot-bar-chart-2.png)<!-- -->
 
 ``` r
 
 paint_pomological(
-  stacked_bar_plot + theme_pomological_fancy(),
+  stacked_bar_plot + theme_pomological_fancy("Homemade Apple"),
   res = 110
 )
 ```
 
-![](Readme_files/figure-gfm/plot-bar-chart-1.png)<!-- -->
+![](man/figures/plot-bar-chart-1.png)<!-- -->
 
 ### Density Plot
 
 density_plot + theme_pomological("Homemade Apple", 16)
 ```
 
-![](Readme_files/figure-gfm/plot-density-2.png)<!-- -->
+![](man/figures/plot-density-2.png)<!-- -->
 
 ``` r
 
 )
 ```
 
-![](Readme_files/figure-gfm/plot-density-1.png)<!-- -->
+![](man/figures/plot-density-1.png)<!-- -->
 
 ### Points and lines
 
 full_bar_stack_plot + theme_pomological("Homemade Apple", 16)
 ```
 
-![](Readme_files/figure-gfm/plot-full-bar-stack-2.png)<!-- -->
+![](man/figures/plot-full-bar-stack-2.png)<!-- -->
 
 ``` r
 
 )
 ```
 
-![](Readme_files/figure-gfm/plot-full-bar-stack-1.png)<!-- -->
+![](man/figures/plot-full-bar-stack-1.png)<!-- -->
 
 ### One last plot
 
 #> Picking joint bandwidth of 0.057
 ```
 
-![](Readme_files/figure-gfm/plot-ridges-1.png)<!-- -->
+![](man/figures/plot-ridges-1.png)<!-- -->
 
 1.  U.S. Department of Agriculture Pomological Watercolor Collection.
     Rare and Special Collections, National Agricultural Library,

inst/compound.txt

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man/ggpomological-package.Rd

 \description{
 This package provides a ggplot2 theme inspired by the
 \href{https://usdawatercolors.nal.usda.gov/pom}{USDA Pomological Watercolors collection}
-and by Aron Atkins's (\href{https://twitter.com/aronatkins]}{@aronatkins})
+and by Aron Atkins's (\href{https://twitter.com/aronatkins]}{\@aronatkins})
 \href{https://github.com/rstudio/rstudio-conf/tree/master/2018/Fruit_For_Thought--Aron_Atkins}{talk on parameterized RMarkdown}
 at \href{https://www.rstudio.com/conference/}{rstudio::conf 2018}.
 }

man/paint_pomological.Rd

 \alias{paint_pomological}
 \title{Paint a ggpomological watercolor}
 \usage{
-paint_pomological(pomo_gg, width = 800, height = 500, pointsize = 16,
-  outfile = NULL, pomological_background = pomological_images("background"),
-  pomological_overlay = pomological_images("overlay"), ...)
+paint_pomological(
+  pomo_gg,
+  width = 800,
+  height = 500,
+  pointsize = 16,
+  outfile = NULL,
+  pomological_background = pomological_images("background"),
+  pomological_overlay = pomological_images("overlay"),
+  ...
+)
 }
 \arguments{
 \item{pomo_gg}{A pomologically styled ggplot2 object. See \code{\link[=theme_pomological]{theme_pomological()}}}
 
 \item{pomological_overlay}{Overlay texture. Set to \code{NULL} for no texture.}
 
-\item{...}{Arguments passed on to \code{magick::image_graph}
-\describe{
-  \item{res}{resolution in pixels}
-  \item{clip}{enable clipping in the device. Because clipping can slow things down
+\item{...}{
+  Arguments passed on to \code{\link[magick:image_graph]{magick::image_graph}}
+  \describe{
+    \item{\code{res}}{resolution in pixels}
+    \item{\code{clip}}{enable clipping in the device. Because clipping can slow things down
 a lot, you can disable it if you don't need it.}
-  \item{antialias}{TRUE/FALSE: enables anti-aliasing for text and strokes}
-}}
+    \item{\code{antialias}}{TRUE/FALSE: enables anti-aliasing for text and strokes}
+  }}
 }
 \description{
 Uses \link{magick} to paint a pomological watercolor. (Paints your plot onto a

man/scale_pomological.Rd

 scale_fill_pomological(...)
 }
 \arguments{
-\item{...}{Arguments passed on to \code{ggplot2::discrete_scale}
-\describe{
-  \item{aesthetics}{The names of the aesthetics that this scale works with}
-  \item{scale_name}{The name of the scale}
-  \item{palette}{A palette function that when called with a single integer
+\item{...}{
+  Arguments passed on to \code{\link[ggplot2:discrete_scale]{ggplot2::discrete_scale}}
+  \describe{
+    \item{\code{aesthetics}}{The names of the aesthetics that this scale works with.}
+    \item{\code{scale_name}}{The name of the scale that should be used for error messages
+associated with this scale.}
+    \item{\code{palette}}{A palette function that when called with a single integer
 argument (the number of levels in the scale) returns the values that
-they should take}
-  \item{name}{The name of the scale. Used as axis or legend title. If
+they should take (e.g., \code{\link[scales:hue_pal]{scales::hue_pal()}}).}
+    \item{\code{name}}{The name of the scale. Used as the axis or legend title. If
 \code{waiver()}, the default, the name of the scale is taken from the first
 mapping used for that aesthetic. If \code{NULL}, the legend title will be
 omitted.}
-  \item{breaks}{One of:
+    \item{\code{breaks}}{One of:
 \itemize{
 \item \code{NULL} for no breaks
-\item \code{waiver()} for the default breaks computed by the
-transformation object
+\item \code{waiver()} for the default breaks (the scale limits)
 \item A character vector of breaks
 \item A function that takes the limits as input and returns breaks
 as output
 }}
-  \item{labels}{One of:
+    \item{\code{labels}}{One of:
 \itemize{
 \item \code{NULL} for no labels
 \item \code{waiver()} for the default labels computed by the
 \item A function that takes the breaks as input and returns labels
 as output
 }}
-  \item{limits}{A character vector that defines possible values of the scale
+    \item{\code{limits}}{A character vector that defines possible values of the scale
 and their order.}
-  \item{expand}{Vector of range expansion constants used to add some
-padding around the data, to ensure that they are placed some distance
-away from the axes. Use the convenience function \code{\link[=expand_scale]{expand_scale()}}
+    \item{\code{expand}}{For position scales, a vector of range expansion constants used to add some
+padding around the data to ensure that they are placed some distance
+away from the axes. Use the convenience function \code{\link[ggplot2:expansion]{expansion()}}
 to generate the values for the \code{expand} argument. The defaults are to
 expand the scale by 5\% on each side for continuous variables, and by
 0.6 units on each side for discrete variables.}
-  \item{na.translate}{Unlike continuous scales, discrete scales can easily show
+    \item{\code{na.translate}}{Unlike continuous scales, discrete scales can easily show
 missing values, and do so by default. If you want to remove missing values
 from a discrete scale, specify \code{na.translate = FALSE}.}
-  \item{na.value}{If \code{na.translate = TRUE}, what value aesthetic
+    \item{\code{na.value}}{If \code{na.translate = TRUE}, what value aesthetic
 value should missing be displayed as? Does not apply to position scales
 where \code{NA} is always placed at the far right.}
-  \item{drop}{Should unused factor levels be omitted from the scale?
+    \item{\code{drop}}{Should unused factor levels be omitted from the scale?
 The default, \code{TRUE}, uses the levels that appear in the data;
 \code{FALSE} uses all the levels in the factor.}
-  \item{guide}{A function used to create a guide or its name. See
-\code{\link[=guides]{guides()}} for more info.}
-  \item{position}{The position of the axis. "left" or "right" for vertical
-scales, "top" or "bottom" for horizontal scales}
-  \item{super}{The super class to use for the constructed scale}
-}}
+    \item{\code{guide}}{A function used to create a guide or its name. See
+\code{\link[ggplot2:guides]{guides()}} for more information.}
+    \item{\code{position}}{For position scales, The position of the axis.
+\code{left} or \code{right} for y axes, \code{top} or \code{bottom} for x axes.}
+    \item{\code{super}}{The super class to use for the constructed scale}
+  }}
 }
 \description{
 Color scales based on the USDA Pomological Watercolors paintings.

man/theme_pomological.Rd

 \alias{theme_pomological_fancy}
 \title{Pomological Theme}
 \usage{
-theme_pomological(base_family = NULL, base_size = 11,
+theme_pomological(
+  base_family = NULL,
+  base_size = 11,
   text.color = pomological_base$dark_blue,
   plot.background.color = pomological_base$paper,
-  panel.border.color = pomological_base$light_line, with.panel.grid = FALSE,
+  panel.border.color = pomological_base$light_line,
+  with.panel.grid = FALSE,
   panel.grid.color = pomological_base$light_line,
   panel.grid.linetype = "dashed",
-  axis.text.color = pomological_base$medium_line, axis.text.size = base_size
-  * 3/4, base_theme = ggplot2::theme_minimal())
+  axis.text.color = pomological_base$medium_line,
+  axis.text.size = base_size * 3/4,
+  base_theme = ggplot2::theme_minimal()
+)
 
 theme_pomological_nobg(..., plot.background.color = "transparent")
 
-theme_pomological_plain(base_family = "", base_size = 11,
-  plot.background.color = "transparent", ...)
+theme_pomological_plain(
+  base_family = "",
+  base_size = 11,
+  plot.background.color = "transparent",
+  ...
+)
 
 theme_pomological_fancy(base_family = "Homemade Apple", base_size = 16, ...)
 }
 
 \examples{
 library(ggplot2)
-basic_iris_plot <- ggplot(iris) +
-  aes(x = Sepal.Length, y = Sepal.Width, color = Species) +
+
+# Prep msleep data
+msleep <- ggplot2::msleep[, c("vore", "sleep_rem", "sleep_total")]
+msleep <- msleep[complete.cases(msleep), ]
+msleep$vore <- paste0(msleep$vore, "vore")
+
+# Base plot
+basic_msleep_plot <- ggplot(msleep) +
+  aes(x = sleep_rem, y = sleep_total, color = vore) +
   geom_point(size = 2) +
-  # with pomological color scale
-  scale_color_pomological()
-
-# Pomological Theme  
-basic_iris_plot + 
-  theme_pomological() 
-
-# With fonts (manual)
-basic_iris_plot + 
-  theme_pomological("Homemade Apple", 16)
-  
-# Or with fancy alias (same as previous)
-basic_iris_plot +
-  theme_pomological_fancy()
-  
-# Plain plot without font or background
-basic_iris_plot +
-  theme_pomological_plain()
+  labs(color = NULL)
+
+# Just your standard ggplot
+basic_msleep_plot 
+
+# With pomological colors
+basic_msleep_plot <- basic_msleep_plot + scale_color_pomological()
+basic_msleep_plot
+
+# With pomological theme
+basic_msleep_plot + theme_pomological()
+
+# With transparent background
+basic_msleep_plot + theme_pomological_plain() 
+
+# Or with "fancy" pomological settings
+pomological_msleep <- basic_msleep_plot + theme_pomological_fancy()
+
+# Painted!
+paint_pomological(pomological_msleep, res = 110)
 
 }
 \references{

vignettes/ggpomological.Rmd

 knitr::opts_chunk$set(echo = TRUE, fig.width=8, fig.height=5)
 library(ggpomological)
 library(dplyr)
+pom_examples_path <- if (!exists("README")) "../man/figures/pom-examples.jpg" else "man/figures/pom-examples.jpg"
 ```
 
 <!-- Links -->
 
 ```{r ggpomological, echo=FALSE, message=FALSE, warning=FALSE}
 fruits <- c("Apple", "Apricot", "Banana", "Fig", "Cherry", "Kiwi", "Grape", "Mango", "Papaya", "Orange", "Peach", "Pear")
-readr::read_tsv("https://cs.joensuu.fi/sipu/datasets/Compound.txt", col_names = FALSE) %>% 
+# https://cs.joensuu.fi/sipu/datasets/Compound.txt
+readr::read_tsv(system.file("compound.txt", package = "ggpomological"), col_names = FALSE) %>% 
   filter(X3 < 10) %>% 
   mutate(X3 = sample(fruits, length(unique(X3)))[X3]) %>% 
   {
   paint_pomological(res = 110) 
 ```
 
-`r knitr::include_graphics(here::here("Readme_files/pom-examples.jpg"))`^[U.S. Department of Agriculture Pomological Watercolor Collection. Rare and Special Collections, National Agricultural Library, Beltsville, MD 20705]
+`r knitr::include_graphics(pom_examples_path)`^[U.S. Department of Agriculture Pomological Watercolor Collection. Rare and Special Collections, National Agricultural Library, Beltsville, MD 20705]
 
 ## Color Palette
 
 ### Basic iris plot
 
 ```{r plot-demo}
+# Prep msleep data
+msleep <- ggplot2::msleep[, c("vore", "sleep_rem", "sleep_total")]
+msleep <- msleep[complete.cases(msleep), ]
+msleep$vore <- paste0(msleep$vore, "vore")
+
 # Base plot
-basic_iris_plot <- ggplot(iris) +
-  aes(x = Sepal.Length, y = Sepal.Width, color = Species) +
-  geom_point(size = 2)
+basic_msleep_plot <- ggplot(msleep) +
+  aes(x = sleep_rem, y = sleep_total, color = vore) +
+  geom_point(size = 2) +
+  labs(color = NULL)
 
-# Just your standard Iris plot
-basic_iris_plot 
+# Just your standard ggplot
+basic_msleep_plot 
 
 # With pomological colors
-basic_iris_plot <- basic_iris_plot + scale_color_pomological()
-basic_iris_plot
+basic_msleep_plot <- basic_msleep_plot + scale_color_pomological()
+basic_msleep_plot
 
 # With pomological theme
-basic_iris_plot + theme_pomological()
+basic_msleep_plot + theme_pomological()
 
 # With transparent background
-basic_iris_plot + theme_pomological_plain() 
+basic_msleep_plot + theme_pomological_plain() 
 
 # Or with "fancy" pomological settings
-pomological_iris <- basic_iris_plot + theme_pomological_fancy()
+pomological_msleep <- basic_msleep_plot + theme_pomological_fancy()
 
 # Painted!
-paint_pomological(pomological_iris, res = 110)
+paint_pomological(pomological_msleep, res = 110)
 ```
 
 
   xlab('Price (USD)') + 
   ylab('Count') + 
   ggtitle("ggpomological") +
-  scale_x_continuous(label = scales::dollar_format()) +
+  scale_x_continuous(labels = scales::dollar_format()) +
   scale_fill_pomological()
 
 stacked_bar_plot + theme_pomological("Homemade Apple", 16)
 
 paint_pomological(
-  stacked_bar_plot + theme_pomological_fancy(),
+  stacked_bar_plot + theme_pomological_fancy("Homemade Apple"),
   res = 110
 )
 ```