Pyjulia not working on Julia 1.6

[lvzhibai]

When I try to install and work with Python3.9.3 with Julia 1.6, the command

julia.install()

works well, but later

from julia import Base # or Pkg, Main ..etc

leads to segmentation fail, and python exits without other error messages inside terminal.

Then I reinstalled julia 1.5, all commands works well.

System: MacOS Big Sur with Command Line Tools

[emanuellima1]

I tried with Python 3.8.6 and Julia 1.6 on Kubuntu 20.10 and everything worked fine. I did:

import julia
julia.install()
jl = julia.Julia(compiled_modules=False)
from julia import Base
Base.sind(90)

On the Python REPL.

[ampbj]

I have the same issue:
MacOS Big Sur.
Python 3.8.8 [Clang 10.0.0 ] :: Anaconda, Inc. on darwin
julia version 1.6.0

[JackDunnNZ]

For reference, there is a similar problem for 1.6 with JuliaCall in R on macOS: JuliaInterop/JuliaCall#164

So it seems to be a bug in Julia, the issue is being tracked here: JuliaLang/julia#40246

[KwatMDPhD]

Same problem here. I'm currently using 1.5.3 until this problems fixed.

[fchorney]

I posted this in JuliaLang/julia#40246, but I'm going to post it here as well to get a bit more exposure.

---

So I've been doing some testing trying to get macOS 11.4, Python 3.9, and Julia 1.6 working with pyjulia 0.5.6, and I think I found a way to get it to work somewhat.

Some notes:

• I am using the Julia 1.6 macOS binary downloaded from julialang.org which exists in /Applications/Julia-1.6.app.
• I have symlinked the julia binary to my /usr/local/bin like so ln -s /Applications/Julia-1.6.app/Contents/Resources/julia/bin/julia /usr/local/bin/julia1.6 and then whenever I change my default julia I symlink it again like so: ln -s /usr/local/bin/julia1.6 /usr/local/bin/julia
• I am doing this in a python 3.9 venv

So my first few observations.

• I had tried this with the Julia 1.7 beta and noticed a few extra debug lines.
• As others have mentioned, it seems like jl_ is unexported. As a test I just commented out these lines: https://github.com/JuliaPy/pyjulia/blob/master/src/julia/libjulia.py#L34-L35 as it doesn't seem like jl_ is used anywhere?
• I noticed that I was getting the error:

ERROR: could not load library "libjulia.1.dylib"
dlopen(libjulia.1.dylib, 1): image not found

• libjulia.1.dylib exists in /Applications/Julia-1.6.app/Contents/Resources/julia/lib but it seems to be looking in /Applications/Julia-1.6.app/Contents/Resources/julia/lib/julia instead, so I symlinked libjulia.1.dylib into the lib/julia folder and it stopped segfaulting.
• This seems weird to me since 1.5 didn't have that file in that folder either, so I'm not sure why it's looking for it there now.
• Then I saw an error that it wouldn't find libjulia.dylib which I just applied the same symlink fix as above and then I had no issues

So, as far as I can tell, the issue is that jl_ isn't exported anymore and pyjulia just checks for its existence, and also julia is looking for libjulia.1.dylib and libjulia.dylib in the wrong place?

Hoping this info might help in some way!

[ihnorton]

This could be "fixed" for 1.6 by removing the is_windows condition here:

pyjulia/src/julia/libjulia.py

Lines 221 to 222 in 87c669e

	if not is_windows:
	yield

(see JuliaLang/julia#40246 (comment))

[dpinol]

Hi, I have it working with Julia 1.6, but with 1.7 I get an error due to missing jl_
Should we change the name of the issue? or create a new one?

[KwatMDPhD]

@dpinol
#451

[tkf]

There's now PyJulia 0.5.7 and PyCall 1.92.5 that solved a couple of recent issues. It includes @ihnorton's suggestion #437 (comment)

[fchorney]

There's now PyJulia 0.5.7

It doesn't look like this has been tagged and registered yet?

Edit: Oh wait, this is Python not Julia, it works differently. I was confused haha

[fchorney]

I finally had a chance to try this out. PyJulia 0.5.7 Works perfect on MacOS with Julia 1.6 now. Thanks so much!