Compatibility issue with the latest version of lxml

[fabiocat93]

Issue Description

I have encountered a compatibility issue with the latest version of lxml (v5.1.0). The current codebase of this repository seems to only work with lxml v4.9.3, which was released in July 2023.

Suggested Solutions

1. Code Update: It would be beneficial if the code could be updated to support lxml v5.1.0. This update will ensure compatibility with the latest features and security patches of lxml.

2. Specify Dependency Version in setup.py: If updating the code isn't immediately feasible, I suggest specifying the exact version of lxml required (lxml==4.9.3) in the setup.py file. This would prevent installation issues for new users who might unknowingly install the latest version of lxml.

I hope this issue can be addressed soon. Thank you for your attention to this matter!

Best, @fabiocat93

[davidpagnon]

Hi @fabiocat93,

Thank you for pointing this out. Can you tell me a bit more specifically what does not work, along with the error message? I just upgraded lxml to the 5.1.0 version and ran most Pose2Sim functions, and it seems to run without any issues.

[fabiocat93]

Sure. I should specify that I am using a MacBook Pro M2 with macOS Sonoma 14.3. Here is the error message is see:

Traceback (most recent call last):
  File "calibration.py", line 15, in <module>
    calibrate(workspace, config['calibration_configs'])
  File "/motor_behaviors_analysis/data/utility/calibration.py", line 51, in calibrate
    Pose2Sim.calibration(subproject_config_dict)
  File "/mba/lib/python3.8/site-packages/Pose2Sim/Pose2Sim.py", line 185, in calibration
    from Pose2Sim.calibration import calibrate_cams_all
  File "/mba/lib/python3.8/site-packages/Pose2Sim/calibration.py", line 45, in <module>
    from lxml import etree
ImportError: dlopen(/mba/lib/python3.8/site-packages/lxml/etree.cpython-38-darwin.so, 0x0002): symbol not found in flat namespace '_exsltDateXpathCtxtRegister'

And by installing lxml==4.9.3, I see no error.

[davidpagnon]

It's a bit weird, I test the package on all platforms including MacOS, and I did not get any error...

Could you try to upgrade lxml again with pip install lxml -U and see if it wildly solves the problem? If it is not solved, try then pip install --no-binary :all: lxml

You may find good ideas on this thread: https://stackoverflow.com/questions/35006614/what-does-symbol-not-found-expected-in-flat-namespace-actually-mean

Keep me updated!

[fabiocat93]

thank you @davidpagnon for your hints. it worked out with pip install --no-binary :all: lxm!