R 笔记本错误中的增量图

Question

我正在尝试在 R 笔记本中创建一个增量 HE 图，该图将被编译为 HTML（因此是一个 .R 文件）。我使用 heplots 包中的 heplot() 函数使用 add = TRUE 参数将图形覆盖在前一个图形上，这在您希望比较多个组时很有用。

如果我运行这是一个 R 笔记本，我会收到以下错误：

Error in polygon(E.ellipse, col = last(fill.col), border = last(col),  : 
  plot.new has not been called yet
Calls: <Anonymous> ... withVisible -> eval -> eval -> heplot -> heplot.mlm -> polygon

我相信这是因为 R notebook 在评估第二个绘图时没有将前一个绘图保存在内存中。

这是有问题的 R 笔记本文件（另存为 .R）的可重现示例：

#' ---
#' title: "Incremental HE Plots Test"
#' author: "Matthew Sigal"
#' date: "08 Jun 2016"
#' ---

#' ## Load package and data:
library(heplots)
data(Rohwer, package="heplots")

#' ## Multivariate models for two subsets:
rohwer.ses1 <- lm(cbind(SAT, PPVT, Raven) ~ n + s + ns + na + ss, 
                  data = Rohwer, subset = SES == "Hi")
rohwer.ses2 <- lm(cbind(SAT, PPVT, Raven) ~ n + s + ns + na + ss, 
                  data = Rohwer, subset = SES == "Lo")

#' ## Overlaid visualization:
heplot(rohwer.ses2, col = c("red", rep("black",5), "blue"), 
       hypotheses = list("B=0, Low SES" = c("n", "s", "ns", "na", "ss")), 
       level = 0.5, cex = 1.25, 
       fill = c(TRUE, FALSE), fill.alpha = 0.05, 
       xlim = c(-15, 110), ylim = c(40, 110),
       label.pos = c(1, rep(NULL, 5), 1))

#' ## High SES students:
heplot(rohwer.ses1, col = c("red", rep("black", 5), "blue"), 
       hypotheses = list("B=0, High SES" = c("n", "s", "ns", "na", "ss")), 
       level = 0.5, cex = 1.25, 
       add = TRUE,   # place both plots on same graphic
       error = TRUE, # error ellipse is not drawn by default with add = TRUE
       fill = c(TRUE, FALSE), fill.alpha = 0.05, 
       xlim = c(-15, 110), ylim = c(40, 110))

我认为也许可以使用块选项，例如 fig.show="hold"，但这并没有解决问题。

如果我在 Rmarkdown 文档中编织它，它会按预期工作（另存为 .Rmd）：

---
title: "Rmd Test"
author: "Matthew Sigal"
date: "June 9, 2016"
output: html_document
---

## Test

```{r}
library(heplots)
data(Rohwer, package="heplots")
rohwer.ses1 <- lm(cbind(SAT, PPVT, Raven) ~ n + s + ns + na + ss, 
                  data = Rohwer, subset = SES == "Hi")
rohwer.ses2 <- lm(cbind(SAT, PPVT, Raven) ~ n + s + ns + na + ss, 
                  data = Rohwer, subset = SES == "Lo")

heplot(rohwer.ses2, col = c("red", rep("black",5), "blue"), 
       hypotheses = list("B=0, Low SES" = c("n", "s", "ns", "na", "ss")), 
       level = 0.5, cex = 1.25, 
       fill = c(TRUE, FALSE), fill.alpha = 0.05, 
       xlim = c(-15, 110), ylim = c(40, 110),
       label.pos = c(1, rep(NULL, 5), 1))
heplot(rohwer.ses1, col = c("red", rep("black", 5), "blue"), 
       hypotheses = list("B=0, High SES" = c("n", "s", "ns", "na", "ss")), 
       level = 0.5, cex = 1.25, 
       add = TRUE,   # place both plots on same graphic
       error = TRUE, # error ellipse is not drawn by default with add = TRUE
       fill = c(TRUE, FALSE), fill.alpha = 0.05, 
       xlim = c(-15, 110), ylim = c(40, 110))
```

所以，我的问题是：如何让 Rnotebook 编译器的行为类似于 Rmarkdown 编译器？

Answer 1

显然，我的问题很小 - 我对第二个 HE 图的评论创建了一个新块，这就是导致错误的原因。

一个工作脚本只是从两次调用 heplot() 之间的注释中删除了 #'！

R 笔记本错误中的增量图

Incremental Plot in R Notebook Error

r

rstudio

knitr

r-markdown

rnotebook