Package installation fails #4
Description
same happened for @jries on mac. This output is from windows
(psflearning) C:\Users\riesgroup\git\PSFLearning>pip install -e .
Obtaining file:///C:/Users/riesgroup/git/PSFLearning
Preparing metadata (setup.py) ... done
Collecting numpy (from psflearning==0.0.1)
Downloading numpy-1.24.3-cp310-cp310-win_amd64.whl (14.8 MB)
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Collecting scipy (from psflearning==0.0.1)
Downloading scipy-1.10.1-cp310-cp310-win_amd64.whl (42.5 MB)
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Collecting matplotlib (from psflearning==0.0.1)
Downloading matplotlib-3.7.1-cp310-cp310-win_amd64.whl (7.6 MB)
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Collecting tensorflow==2.9.1 (from psflearning==0.0.1)
Downloading tensorflow-2.9.1-cp310-cp310-win_amd64.whl (444.1 MB)
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Collecting tensorflow-probability==0.17 (from psflearning==0.0.1)
Using cached tensorflow_probability-0.17.0-py2.py3-none-any.whl (6.5 MB)
Collecting scikit-image (from psflearning==0.0.1)
Downloading scikit_image-0.20.0-cp310-cp310-win_amd64.whl (23.7 MB)
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Collecting tqdm (from psflearning==0.0.1)
Downloading tqdm-4.65.0-py3-none-any.whl (77 kB)
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Collecting czifile (from psflearning==0.0.1)
Downloading czifile-2019.7.2-py2.py3-none-any.whl (18 kB)
Collecting hdfdict (from psflearning==0.0.1)
Using cached hdfdict-0.3.1-py3-none-any.whl (5.6 kB)
Collecting dotted_dict (from psflearning==0.0.1)
Using cached dotted_dict-1.1.3-py2.py3-none-any.whl (3.7 kB)
Requirement already satisfied: omegaconf in c:\users\riesgroup\mambaforge\envs\psflearning\lib\site-packages (from psflearning==0.0.1) (2.3.0)
Requirement already satisfied: pytest in c:\users\riesgroup\mambaforge\envs\psflearning\lib\site-packages (from psflearning==0.0.1) (7.3.1)
Collecting absl-py>=1.0.0 (from tensorflow==2.9.1->psflearning==0.0.1)
Downloading absl_py-1.4.0-py3-none-any.whl (126 kB)
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Collecting astunparse>=1.6.0 (from tensorflow==2.9.1->psflearning==0.0.1)
Using cached astunparse-1.6.3-py2.py3-none-any.whl (12 kB)
Collecting flatbuffers<2,>=1.12 (from tensorflow==2.9.1->psflearning==0.0.1)
Using cached flatbuffers-1.12-py2.py3-none-any.whl (15 kB)
Collecting gast<=0.4.0,>=0.2.1 (from tensorflow==2.9.1->psflearning==0.0.1)
Using cached gast-0.4.0-py3-none-any.whl (9.8 kB)
Collecting google-pasta>=0.1.1 (from tensorflow==2.9.1->psflearning==0.0.1)
Using cached google_pasta-0.2.0-py3-none-any.whl (57 kB)
Collecting h5py>=2.9.0 (from tensorflow==2.9.1->psflearning==0.0.1)
Downloading h5py-3.8.0-cp310-cp310-win_amd64.whl (2.6 MB)
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Collecting keras-preprocessing>=1.1.1 (from tensorflow==2.9.1->psflearning==0.0.1)
Using cached Keras_Preprocessing-1.1.2-py2.py3-none-any.whl (42 kB)
Collecting libclang>=13.0.0 (from tensorflow==2.9.1->psflearning==0.0.1)
Downloading libclang-16.0.0-py2.py3-none-win_amd64.whl (24.4 MB)
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Collecting opt-einsum>=2.3.2 (from tensorflow==2.9.1->psflearning==0.0.1)
Using cached opt_einsum-3.3.0-py3-none-any.whl (65 kB)
Requirement already satisfied: packaging in c:\users\riesgroup\mambaforge\envs\psflearning\lib\site-packages (from tensorflow==2.9.1->psflearning==0.0.1) (23.1)
Collecting protobuf<3.20,>=3.9.2 (from tensorflow==2.9.1->psflearning==0.0.1)
Downloading protobuf-3.19.6-cp310-cp310-win_amd64.whl (895 kB)
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Requirement already satisfied: setuptools in c:\users\riesgroup\mambaforge\envs\psflearning\lib\site-packages (from tensorflow==2.9.1->psflearning==0.0.1) (67.7.2)
Requirement already satisfied: six>=1.12.0 in c:\users\riesgroup\mambaforge\envs\psflearning\lib\site-packages (from tensorflow==2.9.1->psflearning==0.0.1) (1.16.0)
Collecting termcolor>=1.1.0 (from tensorflow==2.9.1->psflearning==0.0.1)
Downloading termcolor-2.3.0-py3-none-any.whl (6.9 kB)
Requirement already satisfied: typing-extensions>=3.6.6 in c:\users\riesgroup\mambaforge\envs\psflearning\lib\site-packages (from tensorflow==2.9.1->psflearning==0.0.1) (4.5.0)
Collecting wrapt>=1.11.0 (from tensorflow==2.9.1->psflearning==0.0.1)
Downloading wrapt-1.15.0-cp310-cp310-win_amd64.whl (36 kB)
Collecting tensorflow-io-gcs-filesystem>=0.23.1 (from tensorflow==2.9.1->psflearning==0.0.1)
Downloading tensorflow_io_gcs_filesystem-0.31.0-cp310-cp310-win_amd64.whl (1.5 MB)
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Collecting grpcio<2.0,>=1.24.3 (from tensorflow==2.9.1->psflearning==0.0.1)
Downloading grpcio-1.54.0-cp310-cp310-win_amd64.whl (4.1 MB)
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Collecting tensorboard<2.10,>=2.9 (from tensorflow==2.9.1->psflearning==0.0.1)
Using cached tensorboard-2.9.1-py3-none-any.whl (5.8 MB)
Collecting tensorflow-estimator<2.10.0,>=2.9.0rc0 (from tensorflow==2.9.1->psflearning==0.0.1)
Using cached tensorflow_estimator-2.9.0-py2.py3-none-any.whl (438 kB)
Collecting keras<2.10.0,>=2.9.0rc0 (from tensorflow==2.9.1->psflearning==0.0.1)
Downloading keras-2.9.0-py2.py3-none-any.whl (1.6 MB)
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Requirement already satisfied: decorator in c:\users\riesgroup\mambaforge\envs\psflearning\lib\site-packages (from tensorflow-probability==0.17->psflearning==0.0.1) (5.1.1)
Collecting cloudpickle>=1.3 (from tensorflow-probability==0.17->psflearning==0.0.1)
Downloading cloudpickle-2.2.1-py3-none-any.whl (25 kB)
Collecting dm-tree (from tensorflow-probability==0.17->psflearning==0.0.1)
Downloading dm_tree-0.1.8-cp310-cp310-win_amd64.whl (101 kB)
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Collecting tifffile>=2019.7.2 (from czifile->psflearning==0.0.1)
Downloading tifffile-2023.4.12-py3-none-any.whl (219 kB)
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Collecting imagecodecs>=2019.5.22 (from czifile->psflearning==0.0.1)
Downloading imagecodecs-2023.3.16-cp310-cp310-win_amd64.whl (24.6 MB)
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Collecting h5py-wrapper<2.0,>=1.1 (from hdfdict->psflearning==0.0.1)
Using cached h5py_wrapper-1.1.0-py2.py3-none-any.whl (13 kB)
Collecting pyyaml<6.0,>=5.1 (from hdfdict->psflearning==0.0.1)
Downloading PyYAML-5.4.1.tar.gz (175 kB)
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Installing build dependencies ... done
Getting requirements to build wheel ... done
Preparing metadata (pyproject.toml) ... done
Collecting contourpy>=1.0.1 (from matplotlib->psflearning==0.0.1)
Downloading contourpy-1.0.7-cp310-cp310-win_amd64.whl (162 kB)
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Collecting cycler>=0.10 (from matplotlib->psflearning==0.0.1)
Downloading cycler-0.11.0-py3-none-any.whl (6.4 kB)
Collecting fonttools>=4.22.0 (from matplotlib->psflearning==0.0.1)
Downloading fonttools-4.39.3-py3-none-any.whl (1.0 MB)
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Collecting kiwisolver>=1.0.1 (from matplotlib->psflearning==0.0.1)
Downloading kiwisolver-1.4.4-cp310-cp310-win_amd64.whl (55 kB)
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Collecting pillow>=6.2.0 (from matplotlib->psflearning==0.0.1)
Downloading Pillow-9.5.0-cp310-cp310-win_amd64.whl (2.5 MB)
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Collecting pyparsing>=2.3.1 (from matplotlib->psflearning==0.0.1)
Downloading pyparsing-3.0.9-py3-none-any.whl (98 kB)
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Requirement already satisfied: python-dateutil>=2.7 in c:\users\riesgroup\mambaforge\envs\psflearning\lib\site-packages (from matplotlib->psflearning==0.0.1) (2.8.2)
Requirement already satisfied: antlr4-python3-runtime==4.9.* in c:\users\riesgroup\mambaforge\envs\psflearning\lib\site-packages (from omegaconf->psflearning==0.0.1) (4.9.3)
Requirement already satisfied: iniconfig in c:\users\riesgroup\mambaforge\envs\psflearning\lib\site-packages (from pytest->psflearning==0.0.1) (2.0.0)
Requirement already satisfied: pluggy<2.0,>=0.12 in c:\users\riesgroup\mambaforge\envs\psflearning\lib\site-packages (from pytest->psflearning==0.0.1) (1.0.0)
Requirement already satisfied: exceptiongroup>=1.0.0rc8 in c:\users\riesgroup\mambaforge\envs\psflearning\lib\site-packages (from pytest->psflearning==0.0.1) (1.1.1)
Requirement already satisfied: tomli>=1.0.0 in c:\users\riesgroup\mambaforge\envs\psflearning\lib\site-packages (from pytest->psflearning==0.0.1) (2.0.1)
Requirement already satisfied: colorama in c:\users\riesgroup\mambaforge\envs\psflearning\lib\site-packages (from pytest->psflearning==0.0.1) (0.4.6)
Collecting networkx>=2.8 (from scikit-image->psflearning==0.0.1)
Downloading networkx-3.1-py3-none-any.whl (2.1 MB)
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Collecting imageio>=2.4.1 (from scikit-image->psflearning==0.0.1)
Downloading imageio-2.28.0-py3-none-any.whl (3.4 MB)
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Collecting PyWavelets>=1.1.1 (from scikit-image->psflearning==0.0.1)
Downloading PyWavelets-1.4.1-cp310-cp310-win_amd64.whl (4.2 MB)
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Collecting lazy_loader>=0.1 (from scikit-image->psflearning==0.0.1)
Downloading lazy_loader-0.2-py3-none-any.whl (8.6 kB)
Requirement already satisfied: wheel<1.0,>=0.23.0 in c:\users\riesgroup\mambaforge\envs\psflearning\lib\site-packages (from astunparse>=1.6.0->tensorflow==2.9.1->psflearning==0.0.1) (0.40.0)
Collecting future (from h5py-wrapper<2.0,>=1.1->hdfdict->psflearning==0.0.1)
Downloading future-0.18.3.tar.gz (840 kB)
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Preparing metadata (setup.py) ... done
Collecting pytest-runner (from h5py-wrapper<2.0,>=1.1->hdfdict->psflearning==0.0.1)
Using cached pytest_runner-6.0.0-py3-none-any.whl (7.2 kB)
Collecting google-auth<3,>=1.6.3 (from tensorboard<2.10,>=2.9->tensorflow==2.9.1->psflearning==0.0.1)
Downloading google_auth-2.17.3-py2.py3-none-any.whl (178 kB)
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Collecting google-auth-oauthlib<0.5,>=0.4.1 (from tensorboard<2.10,>=2.9->tensorflow==2.9.1->psflearning==0.0.1)
Using cached google_auth_oauthlib-0.4.6-py2.py3-none-any.whl (18 kB)
Collecting markdown>=2.6.8 (from tensorboard<2.10,>=2.9->tensorflow==2.9.1->psflearning==0.0.1)
Downloading Markdown-3.4.3-py3-none-any.whl (93 kB)
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Requirement already satisfied: requests<3,>=2.21.0 in c:\users\riesgroup\mambaforge\envs\psflearning\lib\site-packages (from tensorboard<2.10,>=2.9->tensorflow==2.9.1->psflearning==0.0.1) (2.28.2)
Collecting tensorboard-data-server<0.7.0,>=0.6.0 (from tensorboard<2.10,>=2.9->tensorflow==2.9.1->psflearning==0.0.1)
Using cached tensorboard_data_server-0.6.1-py3-none-any.whl (2.4 kB)
Collecting tensorboard-plugin-wit>=1.6.0 (from tensorboard<2.10,>=2.9->tensorflow==2.9.1->psflearning==0.0.1)
Using cached tensorboard_plugin_wit-1.8.1-py3-none-any.whl (781 kB)
Collecting werkzeug>=1.0.1 (from tensorboard<2.10,>=2.9->tensorflow==2.9.1->psflearning==0.0.1)
Downloading Werkzeug-2.3.0-py3-none-any.whl (233 kB)
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Collecting cachetools<6.0,>=2.0.0 (from google-auth<3,>=1.6.3->tensorboard<2.10,>=2.9->tensorflow==2.9.1->psflearning==0.0.1)
Downloading cachetools-5.3.0-py3-none-any.whl (9.3 kB)
Collecting pyasn1-modules>=0.2.1 (from google-auth<3,>=1.6.3->tensorboard<2.10,>=2.9->tensorflow==2.9.1->psflearning==0.0.1)
Downloading pyasn1_modules-0.3.0-py2.py3-none-any.whl (181 kB)
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Collecting rsa<5,>=3.1.4 (from google-auth<3,>=1.6.3->tensorboard<2.10,>=2.9->tensorflow==2.9.1->psflearning==0.0.1)
Using cached rsa-4.9-py3-none-any.whl (34 kB)
Collecting requests-oauthlib>=0.7.0 (from google-auth-oauthlib<0.5,>=0.4.1->tensorboard<2.10,>=2.9->tensorflow==2.9.1->psflearning==0.0.1)
Using cached requests_oauthlib-1.3.1-py2.py3-none-any.whl (23 kB)
Requirement already satisfied: charset-normalizer<4,>=2 in c:\users\riesgroup\mambaforge\envs\psflearning\lib\site-packages (from requests<3,>=2.21.0->tensorboard<2.10,>=2.9->tensorflow==2.9.1->psflearning==0.0.1) (3.1.0)
Requirement already satisfied: idna<4,>=2.5 in c:\users\riesgroup\mambaforge\envs\psflearning\lib\site-packages (from requests<3,>=2.21.0->tensorboard<2.10,>=2.9->tensorflow==2.9.1->psflearning==0.0.1) (3.4)
Requirement already satisfied: urllib3<1.27,>=1.21.1 in c:\users\riesgroup\mambaforge\envs\psflearning\lib\site-packages (from requests<3,>=2.21.0->tensorboard<2.10,>=2.9->tensorflow==2.9.1->psflearning==0.0.1) (1.26.15)
Requirement already satisfied: certifi>=2017.4.17 in c:\users\riesgroup\mambaforge\envs\psflearning\lib\site-packages (from requests<3,>=2.21.0->tensorboard<2.10,>=2.9->tensorflow==2.9.1->psflearning==0.0.1) (2022.12.7)
Requirement already satisfied: MarkupSafe>=2.1.1 in c:\users\riesgroup\mambaforge\envs\psflearning\lib\site-packages (from werkzeug>=1.0.1->tensorboard<2.10,>=2.9->tensorflow==2.9.1->psflearning==0.0.1) (2.1.2)
Collecting pyasn1<0.6.0,>=0.4.6 (from pyasn1-modules>=0.2.1->google-auth<3,>=1.6.3->tensorboard<2.10,>=2.9->tensorflow==2.9.1->psflearning==0.0.1)
Downloading pyasn1-0.5.0-py2.py3-none-any.whl (83 kB)
━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 83.9/83.9 kB ? eta 0:00:00
Collecting oauthlib>=3.0.0 (from requests-oauthlib>=0.7.0->google-auth-oauthlib<0.5,>=0.4.1->tensorboard<2.10,>=2.9->tensorflow==2.9.1->psflearning==0.0.1)
Using cached oauthlib-3.2.2-py3-none-any.whl (151 kB)
Building wheels for collected packages: pyyaml, future
Building wheel for pyyaml (pyproject.toml) ... done
Created wheel for pyyaml: filename=PyYAML-5.4.1-cp310-cp310-win_amd64.whl size=45671 sha256=16abe5fe50c6707dc5a58c0f15833ddaae663b28781c7307a174bcbff85b14b8
Stored in directory: c:\users\riesgroup\appdata\local\pip\cache\wheels\c7\0d\22\696ee92245ad710f506eee79bb05c740d8abccd3ecdb778683
Building wheel for future (setup.py) ... done
Created wheel for future: filename=future-0.18.3-py3-none-any.whl size=492053 sha256=7ba4ba0b637873d6166af7c9b7a0cc105c51d0e1d169e0b50ada7bc9da3f57ad
Stored in directory: c:\users\riesgroup\appdata\local\pip\cache\wheels\5e\a9\47\f118e66afd12240e4662752cc22cefae5d97275623aa8ef57d
Successfully built pyyaml future
Installing collected packages: tensorboard-plugin-wit, libclang, keras, flatbuffers, dotted_dict, dm-tree, wrapt, werkzeug, tqdm, termcolor, tensorflow-io-gcs-filesystem, tensorflow-estimator, tensorboard-data-server, pyyaml, pytest-runner, pyparsing, pyasn1, protobuf, pillow, oauthlib, numpy, networkx, markdown, lazy_loader, kiwisolver, grpcio, google-pasta, gast, future, fonttools, cycler, cloudpickle, cachetools, astunparse, absl-py, tifffile, tensorflow-probability, scipy, rsa, requests-oauthlib, PyWavelets, pyasn1-modules, opt-einsum, keras-preprocessing, imageio, imagecodecs, h5py, contourpy, scikit-image, matplotlib, h5py-wrapper, google-auth, czifile, hdfdict, google-auth-oauthlib, tensorboard, tensorflow, psflearning
Attempting uninstall: pyyaml
Found existing installation: PyYAML 6.0
Uninstalling PyYAML-6.0:
Successfully uninstalled PyYAML-6.0
Running setup.py develop for psflearning
error: subprocess-exited-with-error
× python setup.py develop did not run successfully.
│ exit code: 1
╰─> [44 lines of output]
C:\Users\riesgroup\mambaforge\envs\psflearning\lib\site-packages\setuptools\_distutils\dist.py:265: UserWarning: Unknown distribution option: 'long_descrition'
warnings.warn(msg)
C:\Users\riesgroup\mambaforge\envs\psflearning\lib\site-packages\setuptools\_distutils\dist.py:265: UserWarning: Unknown distribution option: 'long_descrition_content_type'
warnings.warn(msg)
running develop
C:\Users\riesgroup\mambaforge\envs\psflearning\lib\site-packages\setuptools\command\develop.py:40: EasyInstallDeprecationWarning: easy_install command is deprecated.
!!
********************************************************************************
Please avoid running ``setup.py`` and ``easy_install``.
Instead, use pypa/build, pypa/installer, pypa/build or
other standards-based tools.
See https://github.com/pypa/setuptools/issues/917 for details.
********************************************************************************
!!
easy_install.initialize_options(self)
C:\Users\riesgroup\mambaforge\envs\psflearning\lib\site-packages\setuptools\_distutils\cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated.
!!
********************************************************************************
Please avoid running ``setup.py`` directly.
Instead, use pypa/build, pypa/installer, pypa/build or
other standards-based tools.
See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
********************************************************************************
!!
self.initialize_options()
running egg_info
creating psflearning.egg-info
writing psflearning.egg-info\PKG-INFO
writing dependency_links to psflearning.egg-info\dependency_links.txt
writing requirements to psflearning.egg-info\requires.txt
writing top-level names to psflearning.egg-info\top_level.txt
writing manifest file 'psflearning.egg-info\SOURCES.txt'
reading manifest file 'psflearning.egg-info\SOURCES.txt'
writing manifest file 'psflearning.egg-info\SOURCES.txt'
running build_ext
Creating c:\users\riesgroup\mambaforge\envs\psflearning\lib\site-packages\psflearning.egg-link (link to .)
Adding psflearning 0.0.1 to easy-install.pth file
error: [Errno 2] No such file or directory: 'C:\\Users\\riesgroup\\git\\PSFLearning\\bin\\learn_psf'
[end of output]
note: This error originates from a subprocess, and is likely not a problem with pip.
error: subprocess-exited-with-error
× python setup.py develop did not run successfully.
│ exit code: 1
╰─> [44 lines of output]
C:\Users\riesgroup\mambaforge\envs\psflearning\lib\site-packages\setuptools\_distutils\dist.py:265: UserWarning: Unknown distribution option: 'long_descrition'
warnings.warn(msg)
C:\Users\riesgroup\mambaforge\envs\psflearning\lib\site-packages\setuptools\_distutils\dist.py:265: UserWarning: Unknown distribution option: 'long_descrition_content_type'
warnings.warn(msg)
running develop
C:\Users\riesgroup\mambaforge\envs\psflearning\lib\site-packages\setuptools\command\develop.py:40: EasyInstallDeprecationWarning: easy_install command is deprecated.
!!
********************************************************************************
Please avoid running ``setup.py`` and ``easy_install``.
Instead, use pypa/build, pypa/installer, pypa/build or
other standards-based tools.
See https://github.com/pypa/setuptools/issues/917 for details.
********************************************************************************
!!
easy_install.initialize_options(self)
C:\Users\riesgroup\mambaforge\envs\psflearning\lib\site-packages\setuptools\_distutils\cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated.
!!
********************************************************************************
Please avoid running ``setup.py`` directly.
Instead, use pypa/build, pypa/installer, pypa/build or
other standards-based tools.
See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
********************************************************************************
!!
self.initialize_options()
running egg_info
creating psflearning.egg-info
writing psflearning.egg-info\PKG-INFO
writing dependency_links to psflearning.egg-info\dependency_links.txt
writing requirements to psflearning.egg-info\requires.txt
writing top-level names to psflearning.egg-info\top_level.txt
writing manifest file 'psflearning.egg-info\SOURCES.txt'
reading manifest file 'psflearning.egg-info\SOURCES.txt'
writing manifest file 'psflearning.egg-info\SOURCES.txt'
running build_ext
Creating c:\users\riesgroup\mambaforge\envs\psflearning\lib\site-packages\psflearning.egg-link (link to .)
Adding psflearning 0.0.1 to easy-install.pth file
error: [Errno 2] No such file or directory: 'C:\\Users\\riesgroup\\git\\PSFLearning\\bin\\learn_psf'
[end of output]
note: This error originates from a subprocess, and is likely not a problem with pip.
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