ERROR: Malt.TerminatedWorkerException() with Quarto

[dmetivie]

Not sure if this is the correct place to post this issue or Quarto (or should it be in QuartoNotebookRunner.jl?).
A sent a Quarto file to a colleague to check that my notebook was fully reproducible.
She got this error message and I have no clue how to debug that. She uses Linux (on my computer it works both on Windows and WSL so I cannot reproduce the error).

Running [39/59] at line 834:  α_ABC_CNN = 0.001
ERROR: Julia server returned error after receiving "run" command:
Failed to run notebook: /home/julia/Lake_norm/ABC_Conformal_Lake.qmd
ERROR: Malt.TerminatedWorkerException()
Stacktrace:
  [1] unwrap_worker_result(worker::Malt.Worker, result::Malt.WorkerResult)
    @ Malt ~/.julia/packages/Malt/YJ2Ml/src/Malt.jl:48
  [2] _wait_for_response(worker::Malt.Worker, msg_id::UInt64)
    @ Malt ~/.julia/packages/Malt/YJ2Ml/src/Malt.jl:325
  [3] _send_receive
    @ ~/.julia/packages/Malt/YJ2Ml/src/Malt.jl:336 [inlined]
  [4] #remote_call_fetch#41
    @ ~/.julia/packages/Malt/YJ2Ml/src/Malt.jl:406 [inlined]
  [5] remote_call_fetch
    @ ~/.julia/packages/Malt/YJ2Ml/src/Malt.jl:405 [inlined]
  [6] remote_eval_fetch
    @ ~/.julia/packages/Malt/YJ2Ml/src/Malt.jl:484 [inlined]
  [7] remote_eval_fetch
    @ ~/.julia/packages/Malt/YJ2Ml/src/Malt.jl:485 [inlined]
  [8] remote_eval_fetch_channeled(worker::Malt.Worker, expr::Expr)
    @ QuartoNotebookRunner ~/.julia/packages/QuartoNotebookRunner/eYIiC/src/server.jl:107
  [9] macro expansion
    @ ~/.julia/packages/QuartoNotebookRunner/eYIiC/src/server.jl:665 [inlined]
 [10] macro expansion
    @ ~/.julia/packages/ProgressLogging/6KXlp/src/ProgressLogging.jl:470 [inlined]
 [11] evaluate_raw_cells!(f::QuartoNotebookRunner.File, chunks::Vector{Any}, options::Dict{String, Any}; showprogress::Bool, chunk_callback::QuartoNotebookRunner.var"#chunk_callback#67"{TCPSocket})
    @ QuartoNotebookRunner ~/.julia/packages/QuartoNotebookRunner/eYIiC/src/server.jl:570
 [12] evaluate!(f::QuartoNotebookRunner.File, output::Nothing; showprogress::Bool, options::Dict{String, Any}, chunk_callback::Function, markdown::String)
    @ QuartoNotebookRunner ~/.julia/packages/QuartoNotebookRunner/eYIiC/src/server.jl:152
 [13] evaluate!
    @ ~/.julia/packages/QuartoNotebookRunner/eYIiC/src/server.jl:137 [inlined]
 [14] (::QuartoNotebookRunner.var"#32#36"{Nothing, String, Bool, Dict{String, Any}, QuartoNotebookRunner.var"#chunk_callback#67"{TCPSocket}, Server})(file::QuartoNotebookRunner.File)
    @ QuartoNotebookRunner ~/.julia/packages/QuartoNotebookRunner/eYIiC/src/server.jl:1113
 [15] (::QuartoNotebookRunner.var"#42#45"{Bool, QuartoNotebookRunner.var"#32#36"{Nothing, String, Bool, Dict{String, Any}, QuartoNotebookRunner.var"#chunk_callback#67"{TCPSocket}, Server}, Server, String})()
    @ QuartoNotebookRunner ~/.julia/packages/QuartoNotebookRunner/eYIiC/src/server.jl:1185
 [16] lock(f::QuartoNotebookRunner.var"#42#45"{Bool, QuartoNotebookRunner.var"#32#36"{Nothing, String, Bool, Dict{String, Any}, QuartoNotebookRunner.var"#chunk_callback#67"{TCPSocket}, Server}, Server, String}, l::ReentrantLock)
    @ Base ./lock.jl:232
 [17] borrow_file!(f::QuartoNotebookRunner.var"#32#36"{Nothing, String, Bool, Dict{String, Any}, QuartoNotebookRunner.var"#chunk_callback#67"{TCPSocket}, Server}, server::Server, path::String; optionally_create::Bool, options::Dict{String, Any})
    @ QuartoNotebookRunner ~/.julia/packages/QuartoNotebookRunner/eYIiC/src/server.jl:1178
 [18] borrow_file!
    @ ~/.julia/packages/QuartoNotebookRunner/eYIiC/src/server.jl:1139 [inlined]
 [19] #run!#31
    @ ~/.julia/packages/QuartoNotebookRunner/eYIiC/src/server.jl:1108 [inlined]
 [20] _handle_response(socket::TCPSocket, notebooks::Server, request::@NamedTuple{type::String, content::Union{Dict{String, Any}, String}}, showprogress::Bool)
    @ QuartoNotebookRunner ~/.julia/packages/QuartoNotebookRunner/eYIiC/src/socket.jl:273
 [21] (::QuartoNotebookRunner.var"#59#66"{Bool, Base.RefValue{Bool}, Server, Base.UUID})()
    @ QuartoNotebookRunner ~/.julia/packages/QuartoNotebookRunner/eYIiC/src/socket.jl:201
ERROR: Internal julia server error

Stack trace:
    at writeJuliaCommand (file:///opt/quarto/bin/quarto.js:41406:19)
    at eventLoopTick (ext:core/01_core.js:175:7)
    at async executeJulia (file:///opt/quarto/bin/quarto.js:41300:22)
    at async Object.execute (file:///opt/quarto/bin/quarto.js:41037:20)
    at async renderExecute (file:///opt/quarto/bin/quarto.js:85568:27)
    at async renderFileInternal (file:///opt/quarto/bin/quarto.js:85736:43)
    at async renderFiles (file:///opt/quarto/bin/quarto.js:85604:17)
    at async render (file:///opt/quarto/bin/quarto.js:90506:21)
    at async Command.actionHandler (file:///opt/quarto/bin/quarto.js:90654:32)
    at async Command.execute (file:///opt/quarto/bin/quarto.js:8111:13)

Here is the preamble

---
format:
  html:
    toc: true
engine: julia
julia:
  exeflags: ["--threads=auto"]
---

We render using quarto render file.qmd --to html. I saw very few posts with this error (that I don't understand). One was referring GPUs. Inside the file there are amongst other package GPUs.

using Lux # Neural Networks pkg
using Zygote # Automatic Differentation pkg
using LuxCUDA # comment if you use CPU
dev = gpu_device() # cpu_device()

Is it related to her GPUs?

Any idea what is the issue?

[MichaelHatherly]

A sent a Quarto file

Would you be able to reduce that file to a MWE that still throws the error?

She uses Linux (on my computer it works both on Windows and WSL so I cannot reproduce the error).

Would be good to know the details of the two systems from versioninfo() as well. Also the GPU details may be useful.

[dmetivie]

I can try if she lets me borrow her computer ! I'll let you know.