PyJulia not working with Julia 1.6 and Python 3.9 #444
Comments
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I should add... if I do: I get: I got the same error on our previous Docker image based on Julia 1.2, and using the suggested workaround: did work in that previous case. |
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Hello, I happen to be investigating the same issue with a different config. Trying to setup gives the following error When calling the increminated line directly in Also, when using |
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Adding my 2 cents. It is failing on OSX |
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I also see the issue with Julia 1.5.1 and python 3.9. |
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The only way I found around this issue was reverting to Python 3.8.8 |
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Same issue Environment
To reproduce: >>> from julia.api import Julia
>>> jl = Julia(compiled_modules=False)
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
File "/home/shuhua/.local/lib/python3.9/site-packages/julia/core.py", line 503, in __init__
self._call(IMPORT_PYCALL)
File "/home/shuhua/.local/lib/python3.9/site-packages/julia/core.py", line 538, in _call
self.check_exception(src)
File "/home/shuhua/.local/lib/python3.9/site-packages/julia/core.py", line 587, in check_exception
raise JuliaError(u'Exception \'{}\' occurred while calling julia code:\n{}'
julia.core.JuliaError: Exception 'LoadError' occurred while calling julia code:
const PyCall = Base.require(Base.PkgId(Base.UUID("438e738f-606a-5dbb-bf0a-cddfbfd45ab0"), "PyCall"))The default Julia environment is (@v1.6) pkg> st
Status `~/.julia/environments/v1.6/Project.toml`
[7073ff75] IJulia v1.23.2
[5fb14364] OhMyREPL v0.5.10
[14b8a8f1] PkgTemplates v0.7.17
[438e738f] PyCall v1.92.3 |
Does Python 3.8.8 work with Julia 1.6? |
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Creating a Conda environment with Python 3.8.8 fixed this for me. |
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Also got a segfault with python 3.9.6 and julia 1.6.0 on Mac M1 Python 3.9.6 (default, Jun 29 2021, 05:25:02)
Type 'copyright', 'credits' or 'license' for more information
IPython 7.25.0 -- An enhanced Interactive Python. Type '?' for help.
In [1]: import julia
In [2]: julia.install()
[ Info: Julia version info
Julia Version 1.6.0
Commit f9720dc2eb (2021-03-24 12:55 UTC)
Platform Info:
OS: macOS (x86_64-apple-darwin19.6.0)
uname: Darwin 20.6.0 Darwin Kernel Version 20.6.0: Wed Jun 23 00:26:27 PDT 2021; root:xnu-7195.141.2~5/RELEASE_ARM64_T8101 x86_64 i386
CPU: Apple M1:
speed user nice sys idle irq
#1 24 MHz 1340987 s 0 s 1088688 s 4442509 s 0 s
#2 24 MHz 1275400 s 0 s 1008222 s 4588063 s 0 s
#3 24 MHz 1171703 s 0 s 933308 s 4766677 s 0 s
#4 24 MHz 1081966 s 0 s 849748 s 4939963 s 0 s
#5 24 MHz 1489453 s 0 s 450709 s 4931517 s 0 s
#6 24 MHz 1160876 s 0 s 277893 s 5432911 s 0 s
#7 24 MHz 906581 s 0 s 207892 s 5757208 s 0 s
#8 24 MHz 796541 s 0 s 170770 s 5904364 s 0 s
Memory: 16.0 GB (69.68359375 MB free)
Uptime: 1.310481e6 sec
Load Avg: 8.27880859375 9.443359375 9.29296875
WORD_SIZE: 64
LIBM: libopenlibm
LLVM: libLLVM-11.0.1 (ORCJIT, westmere)
Environment:
PATH = /Users/vsulzer/Documents/Energy_storage/PyBaMM/venv/bin:/usr/local/bin:/usr/bin:/bin:/usr/sbin:/sbin:/Library/TeX/texbin:/Library/Apple/usr/bin:/usr/local/Caskroom/miniforge/base/bin:/usr/local/Caskroom/miniforge/base/condabin
HOME = /Users/vsulzer
XPC_FLAGS = 0x0
TERM = xterm-256color
DYLD_LIBRARY_PATH = /Users/vsulzer/Documents/Energy_storage/PyBaMM/sundials/lib:
[ Info: Julia executable: /Applications/Julia-1.6.app/Contents/Resources/julia/bin/julia
[ Info: Trying to import PyCall...
┌ Info: PyCall is already installed and compatible with Python executable.
│
│ PyCall:
│ python: /Users/vsulzer/Documents/Energy_storage/PyBaMM.jl/venv/bin/python
│ libpython: /usr/local/Cellar/python@3.9/3.9.6/Frameworks/Python.framework/Versions/3.9/Python
│ Python:
│ python: /Users/vsulzer/Documents/Energy_storage/PyBaMM/venv/bin/python
└ libpython: /usr/local/Cellar/python@3.9/3.9.6/Frameworks/Python.framework/Versions/3.9/Python
In [3]: from julia import Main
ERROR: [1] 5531 segmentation fault ipython |
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FYI, there're now PyJulia 0.5.7 and PyCall 1.92.5 that solve a couple of recent issues. |
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Do julia v 1.6 with Pycall 1.92.5 and python v > 3.9 work with py julia v 0.5.7 in macosx v 11.6? Trying to decide whether to upgrade to julia v1.6. Any information would be greatly appreciated. Thanks. |
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Using Python 3.9.9, Julia 1.6.2, PyCall 1.93.0, PyJulia 0.5.7 the bug is fixed for me. The same setting with PyCall 1.92.3 was broken, while a similar setting with Python 3.8 worked. |
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@dinarior are you using a conda or a venv environment? |
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@Immich conda in all 3 cases. Used pip for the installations. |
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This looks a lot like: #425 . Apologies ahead of time if this is just adding noise.
I'm working on a Jupyter Docker Image, where we previously supported PyJulia. This was working with an older base image that used Julia 1.2 . We're now updating to a newer jupyter image, which is pulling Julia 1.6, and PyJulia, has now started failing.
Here's my code:
And here's the output:
I'm working with Jupyter, with an image based on: https://github.com/jupyter/docker-stacks/blob/master/datascience-notebook/Dockerfile (but with PyCall also installed and precompiled via our Dockerfile).
If I run PyCall = Base.require(Base.PkgId(Base.UUID("438e738f-606a-5dbb-bf0a-cddfbfd45ab0"), "PyCall")) from the /opt/julia-1.6.0/bin/julia executable, it does work... so it appears PyCall is installed for that executable. I'm unsure how to get PyJulia to see the package - and I'm not sure if I'm missing something obvious.
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