Cant install pulse2percept from source or normal[BUG]

[Nykzom]

Cant install pulse2percept from source or normal[BUG]

[mbeyeler]

Hi! I'm not sure this is a problem with p2p. The error says "No module named numpy", so it looks like something went wrong with your NumPy installation. You might want to debug that first:

• Does python -c 'import numpy' give you an error?
• What does which numpy say where it is installed? Is that installation location part of the PATH variable?

Once NumPy is found on the PATH, p2p should install correctly.

[Nykzom]

*I made a new venv and tried to install everything again.

Hey, thanks for your fast answer!

Does python -c 'import numpy' give you an error?

No, there is no Error

What does which numpy say where it is installed? Is that installation location part of the PATH variable?

(sensormonitor) ➜  sensormonitor which numpy
numpy not found
(sensormonitor) ➜  sensormonitor pip show numpy
Name: numpy
Version: 1.24.3
Summary: Fundamental package for array computing in Python
Home-page: https://www.numpy.org
Author: Travis E. Oliphant et al.
Author-email: 
License: BSD-3-Clause
Location: /Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages
Requires: 
Required-by: scipy
(sensormonitor) ➜  sensormonitor export PYTHONPATH=$PYTHONPATH:/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages

(sensormonitor) ➜  sensormonitor pip install pulse2percept
Collecting pulse2percept
  Using cached pulse2percept-0.8.0.tar.gz (7.3 MB)
  Installing build dependencies ... done
  Getting requirements to build wheel ... error
  error: subprocess-exited-with-error
  
  × Getting requirements to build wheel did not run successfully.
  │ exit code: 1
  ╰─> [23 lines of output]
      Traceback (most recent call last):
        File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/pip/_vendor/pyproject_hooks/_in_process/_in_process.py", line 353, in <module>
          main()
        File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/pip/_vendor/pyproject_hooks/_in_process/_in_process.py", line 335, in main
          json_out['return_val'] = hook(**hook_input['kwargs'])
                                   ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
        File "/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/pip/_vendor/pyproject_hooks/_in_process/_in_process.py", line 118, in get_requires_for_build_wheel
          return hook(config_settings)
                 ^^^^^^^^^^^^^^^^^^^^^
        File "/private/var/folders/bq/1yg3b4896h1dgcl9p04xbzw40000gn/T/pip-build-env-s73ew12h/overlay/lib/python3.11/site-packages/setuptools/build_meta.py", line 341, in get_requires_for_build_wheel
          return self._get_build_requires(config_settings, requirements=['wheel'])
                 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
        File "/private/var/folders/bq/1yg3b4896h1dgcl9p04xbzw40000gn/T/pip-build-env-s73ew12h/overlay/lib/python3.11/site-packages/setuptools/build_meta.py", line 323, in _get_build_requires
          self.run_setup()
        File "/private/var/folders/bq/1yg3b4896h1dgcl9p04xbzw40000gn/T/pip-build-env-s73ew12h/overlay/lib/python3.11/site-packages/setuptools/build_meta.py", line 488, in run_setup
          self).run_setup(setup_script=setup_script)
                ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
        File "/private/var/folders/bq/1yg3b4896h1dgcl9p04xbzw40000gn/T/pip-build-env-s73ew12h/overlay/lib/python3.11/site-packages/setuptools/build_meta.py", line 338, in run_setup
          exec(code, locals())
        File "<string>", line 318, in <module>
        File "<string>", line 253, in setup_package
        File "<string>", line 122, in openmp_build_ext
      ModuleNotFoundError: No module named 'numpy'
      [end of output]
  
  note: This error originates from a subprocess, and is likely not a problem with pip.
error: subprocess-exited-with-error

× Getting requirements to build wheel did not run successfully.
│ exit code: 1
╰─> See above for output.

note: This error originates from a subprocess, and is likely not a problem with pip.
(sensormonitor) ➜  sensormonitor 

I dont know whats the problem, but I think there is a problem with my python/numpy installation. I tried like everthing, but doesn't get it to work.

Here is the Path

(sensormonitor) ➜  sensormonitor ls /Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages
Cython                      numpy-1.24.3.dist-info
Cython-0.29.35.dist-info    pip
README.txt                  pip-23.1.2.dist-info
__pycache__                 pkg_resources
_distutils_hack             pyximport
certifi                     scipy
certifi-2023.5.7.dist-info  scipy-1.10.1.dist-info
cython.py                   setuptools
distutils-precedence.pth    setuptools-65.5.0.dist-info
numpy
(sensormonitor) ➜  sensormonitor 

I even tried to uninstall numpy and then installed it only in the venv and tried to force install pulse2percept with the numpy module in the venv. But it also dont work. Same ERROR as above.

[tallyhawley]

Hi! It looks like there's a mismatch with your package installation paths.
If you run which pip and which python (with your venv activated) what do these return? What about echo $PATH?

[Nykzom]

If you run which pip and which python (with your venv activated) what do these return? What about echo $PATH?

➜  sensormonitor which pip3
/Library/Frameworks/Python.framework/Versions/3.11/bin/pip3
➜  sensormonitor which python
/usr/local/bin/python
➜  sensormonitor echo $PATH
/Library/Frameworks/Python.framework/Versions/3.11/bin:/opt/homebrew/bin:/opt/homebrew/sbin:/usr/local/bin:/System/Cryptexes/App/usr/bin:/usr/bin:/bin:/usr/sbin:/sbin:/Library/TeX/texbin:/Library/Frameworks/Python.framework/Versions/3.11/bin:/opt/homebrew/bin:/opt/homebrew/sbin
➜  sensormonitor 

Here is a ls of all my python files in /usr/local/bin/

➜  bin ls *python*
python             python3-config     python3.11         python3.11-intel64
python3            python3-intel64    python3.11-config

[tallyhawley]

Hmm... I'm not sure what the issue could be. This doesn't seem to be an issue necessarily with pulse2percept.
It seems you have both Homebrew Python (/usr/local/bin/python) and the official Python install from their website (.../Python.framework/Versions/3.11/bin/python), and this might be causing the conflict.
It does look like there's a mismatch between your python directory & your pip directory, but I'm not sure if this would affect pip/setuptools. Try using python -m pip install [package] instead of pip3 install [package]?
FWIW, Homebrew Python's site packages dir is at /usr/local/lib/python3.11/site-packages.
Also, on Python 3.11, pulse2percept can only be installed using the source code and pip install -e ., and not pip install pulse2percept. (This won't fix the numpy import problem, but I did some testing locally and even if numpy is found the install will fail on python3.11 unless you are installing from source code.)
EDIT: Also, what kind of venv are you using? It doesn't seem to be affecting your PATH.

[Nykzom]

Hey, i tried to install it via source code, but got the same error. I used Pycharm and VSCode but on both i dont get it running. I have to use the module for a homework. But i think i will go back to Google Colab and use it there. So i think we can close this issue.

Thanks alot for your time and help! (:

EDIT:

I uninstalled pyhton via homebrew, cleanup and reinstalled. Then i used Pycharm and it installed p2p without error from source. But when i Try the following:

import numpy
import pulse2percept as p2p

logo = p2p.stimuli.LogoBVL()
print(logo)

I get this:

/Users/****/PycharmProjects/sensomoni/venv/bin/python /Users/****/PycharmProjects/sensomoni/p2p.py 
Traceback (most recent call last):
  File "/Users/****/PycharmProjects/sensomoni/p2p.py", line 4, in <module>
    logo = p2p.stimuli.LogoBVL()
           ^^^^^^^^^^^^^^^^^^^^^
  File "/Users/****/PycharmProjects/sensomoni/pulse2percept/pulse2percept/stimuli/images.py", line 727, in __init__
    super(LogoBVL, self).__init__(source, format="PNG",
  File "/Users/****/PycharmProjects/sensomoni/pulse2percept/pulse2percept/stimuli/images.py", line 85, in __init__
    img = imread(source, format=format)
          ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/****/PycharmProjects/sensomoni/venv/lib/python3.11/site-packages/skimage/io/_io.py", line 53, in imread
    img = call_plugin('imread', fname, plugin=plugin, **plugin_args)
          ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/****/PycharmProjects/sensomoni/venv/lib/python3.11/site-packages/skimage/io/manage_plugins.py", line 205, in call_plugin
    return func(*args, **kwargs)
           ^^^^^^^^^^^^^^^^^^^^^
  File "/Users/****/PycharmProjects/sensomoni/venv/lib/python3.11/site-packages/skimage/io/_plugins/imageio_plugin.py", line 11, in imread
    out = np.asarray(imageio_imread(*args, **kwargs))
                     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/****/PycharmProjects/sensomoni/venv/lib/python3.11/site-packages/imageio/v3.py", line 54, in imread
    return np.asarray(img_file.read(**call_kwargs))
                      ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
TypeError: PillowPlugin.read() got an unexpected keyword argument 'format'

Process finished with exit code 1

[tallyhawley]

I'm glad you were able to get it installed!
Yes, there seem to be issues with scikit-image/imageio in pulse2percept's ImageStimulus module right now. I'll open an issue for it.
For now, this should be fixed by reverting to scikit-image==0.20.0 and imageio==2.26.1.