ojs_define not working with jupyter:julia-1.11

[adityam]

I have:

• searched the issue tracker for similar issues
• installed the latest version of Quarto CLI
• formatted my issue following the Bug Reports guide

Bug description

The following document works with engine: julia but fails with jupyter: julia-1.11

---
title: Test
jupyter: julia-1.11
---

```{julia}
using JSON, DataFrames

df = DataFrame(a = Int[], b = Float64[])
push!(df, (1,2.5))
push!(df, (2,3.5))
push!(df, (3,1.5))

ojs_define(data = df)
```

```{ojs}
data
```

```{ojs}
Plot.plot({
 grid: true,
 marks: [
   // Axes
   Plot.line(data, {x:"a", y:"b"})
 ]
})
```

The reason appears to be different definitions of ojs_define.

• For jupyter:julia-1.11, ojs_define is defined in setup.jl
• For engine:julia, ojs_define is defined is defined by QuartoNotebookRunner.jl

Perhaps the simplest option could be to copy the definition from QuartoNotebookRunner, but I am not sure if that will work as I don't completely understand the internals of calling julia in both environments.

Steps to reproduce

No response

Actual behavior

No response

Expected behavior

No response

Your environment

No response

Quarto check output

quarto check
Quarto 1.8.27
[✓] Checking environment information...
      Quarto cache location: /home/adityam/.cache/quarto
[✓] Checking versions of quarto binary dependencies...
      Pandoc version 3.6.3: OK
      Dart Sass version 1.87.0: OK
      Deno version 2.3.1: OK
      Typst version 0.13.0: OK
[✓] Checking versions of quarto dependencies......OK
[✓] Checking Quarto installation......OK
      Version: 1.8.27
      Path: /opt/quarto/bin

[✓] Checking tools....................OK
      TinyTeX: (not installed)
      Chromium: (not installed)

[✓] Checking LaTeX....................OK
      Using: Installation From Path
      Path: /usr/bin
      Version: undefined

[✓] Checking Chrome Headless....................OK
      Chrome:  (not detected)

[✓] Checking basic markdown render....OK

[✓] Checking Python 3 installation....OK
      Version: 3.13.7
      Path: /usr/bin/python3
      Jupyter: 5.8.1
      Kernels: julia-1.9, julia-1.11, julia-1.10, python3

[✓] Checking Jupyter engine render....OK

[✓] Checking R installation...........(None)

      Unable to locate an installed version of R.
      Install R from https://cloud.r-project.org/

[cderv]

I can't reproduce using Quarto 1.9.17 or 1.8

I am using jupyter: julia-1.11 and kernel is started Starting julia-1.11 kernel...Done

What error do you have exactly ?

To help debug, you can also produce a log, which may have information: https://quarto.org/docs/troubleshooting/#verbose-mode

[adityam]

This is the output that I get with jupyter:julia-1.11

As you can see, the data object is in a wrong format. I created a repo showing the bug here. The file render.log contains the output of

 quarto render --log-level debug --log render.log

Some other debug info:

❯ jupyter --version
Selected Jupyter core packages...
IPython          : 9.5.0
ipykernel        : 6.30.1
ipywidgets       : not installed
jupyter_client   : 8.6.3
jupyter_core     : 5.8.1
jupyter_server   : 2.17.0
jupyterlab       : 4.4.7
nbclient         : 0.10.2
nbconvert        : 7.16.6
nbformat         : 5.10.4
notebook         : 7.4.5
qtconsole        : not installed
traitlets        : 5.14.3

❯ julia --project=.
               _
   _       _ _(_)_     |  Documentation: https://docs.julialang.org
  (_)     | (_) (_)    |
   _ _   _| |_  __ _   |  Type "?" for help, "]?" for Pkg help.
  | | | | | | |/ _` |  |
  | | |_| | | | (_| |  |  Version 1.11.3 (2025-01-21)
 _/ |\__'_|_|_|\__'_|  |  Official https://julialang.org/ release
|__/                   |

julia> versioninfo()
Julia Version 1.11.3
Commit d63adeda50d (2025-01-21 19:42 UTC)
Build Info:
  Official https://julialang.org/ release
Platform Info:
  OS: Linux (x86_64-linux-gnu)
  CPU: 12 × 13th Gen Intel(R) Core(TM) i7-1365U
  WORD_SIZE: 64
  LLVM: libLLVM-16.0.6 (ORCJIT, goldmont)
Threads: 1 default, 0 interactive, 1 GC (on 12 virtual cores)

[mcanouil]

@adityam

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[mcanouil]

Is the project of type website required to reproduce?

[adityam]

@mcanouil project: website is not required. That was by habit as I have always used quarto with either a website or a book. I tested without specifying the project type and the results are the same.

I have updated the github repo to not use a project type.

[mcanouil]

Did you try to update your packages or try a clean install using a virtual environment for Jupyter?

[adityam]

The julia packages are up to date. I'll try to test everything in a clean virtualenv to check if the error persists.

[cderv]

Thanks for your repository, I can reproduce with it. I'll investigate.