tree::tree object cannot be accessed in editor, only in console

[stgries]

When I work with the tree package, I cannot access a part of its output from an Rmd document, but I can access it with the exact same code in the console. Please find an Rmd exemplifying the problem below and the HTML report with the session info attached.

---
title: "tree::tree object cannot be accessed in editor, only in console"
output: html_document
---

```{r setup, include=FALSE}
knitr::opts_chunk$set(echo = TRUE)
```

# Setting up an example

Let's create some small data for a `tree::tree` approach:

```{r}
rm(list=ls(all=TRUE))
library(tree); set.seed(1)
summary(x <- data.frame(
   Y=factor(rep(letters[1:2], each=250)),
   X1=c(runif(250, 1, 5), runif(250, 3, 7)),
   X2=c(runif(250, 5, 9), runif(250, 1, 5))))
```

Running a tree on this is unproblematic:

```{r}
summary(cart.1 <- tree(Y ~ X1+X2, data=x))
```

tree_bug.pdf

Now the problem

If

• I knit the document into an HTML file (like attached), the output is shown;
• I use each of these lines in the console, I will see the output there; BUT
• I run the following chunk from the editor with CTRL-SHIFT-ENTER or the play button, no output is provided;

cart.1$frame
cart.1[["frame"]]
cart.1[[1]]

One time, I saw the following error message in the editor pane:

Registered S3 method overwritten by 'cli':
method     from
print.tree tree

But I wasn't able to reliably reporduce that one.

However, each of those lines will produce output when I copy and paste it into the console -- why??

xfun::session_info()

[cderv]

Hi,

thank you for the report. I can reproduce your step.

As everything is working fine when knitting and rendering to HTML, this makes me thing it is a RStudio IDE issue. The feature to execute chunk by chunk if from the IDE support of Rmd document, specifically showing "Chunk Output Inline".
If you select, "Chunk Output in Console" , in the menu you'll see the expected output in console.

I would open the issue with reproducible example in the RStudio IDE repo so that they have a look.

I believe this is because cart.1$frame contains some columns which are several dimentions and not one vector.

> dplyr::glimpse(cart.1$frame)
Rows: 3
Columns: 6
$ var    <fct> X2, <leaf>, <leaf>
$ n      <dbl> 500, 250, 250
$ dev    <dbl> 693.1472, 0.0000, 0.0000
$ yval   <fct> a, b, a
$ splits <chr[,2]> "<5.00939", "", "", ">5.00939", "", ""
$ yprob  <dbl[,2]> <matrix[3 x 2]>

This will not be possible to print them as usual table in chunk output. If you remove those columns (it works)

Hope it helps

[stgries]

Thanks for checking and ok, I'll file a bug report with them.

[github-actions]

This old thread has been automatically locked. If you think you have found something related to this, please open a new issue by following the issue guide (https://yihui.org/issue/), and link to this old issue if necessary.