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ventolab / CellphoneDB

CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.
https://www.cellphonedb.org/
MIT License
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Issue with installation #142

Closed hemantgujar closed 9 months ago

hemantgujar commented 9 months ago

Hi

Can someone please help with following issue.

Thanks

pip3 install cellphonedb

...

Using cached fonttools-4.42.1-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.5 MB) Using cached kiwisolver-1.4.5-cp310-cp310-manylinux_2_12_x86_64.manylinux2010_x86_64.whl (1.6 MB) Using cached pyparsing-3.1.1-py3-none-any.whl (103 kB) Building wheels for collected packages: scikit-learn Building wheel for scikit-learn (pyproject.toml) ... error error: subprocess-exited-with-error

× Building wheel for scikit-learn (pyproject.toml) did not run successfully. │ exit code: 1 ╰─> [796 lines of output]

:17: DeprecationWarning: pkg_resources is deprecated as an API. See https://setuptools.pypa.io/en/latest/pkg_resources.html Partial import of sklearn during the build process. :116: DeprecationWarning: `numpy.distutils` is deprecated since NumPy 1.23.0, as a result of the deprecation of `distutils` itself. It will be removed for Python >= 3.12. For older Python versions it will remain present. It is recommended to use `setuptools < 60.0` for those Python versions. For more details, see: https://numpy.org/devdocs/reference/distutils_status_migration.html INFO: C compiler: gcc -pthread -B /home/ec2-user/anaconda3/envs/cpdb/compiler_compat -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/ec2-user/anaconda3/envs/cpdb/include -fPIC -O2 -isystem /home/ec2-user/anaconda3/envs/cpdb/include -fPIC ... note: This error originates from a subprocess, and is likely not a problem with pip. ERROR: Failed building wheel for scikit-learn Failed to build scikit-learn ERROR: Could not build wheels for scikit-learn, which is required to install pyproject.toml-based projects `python --version` Python 3.10.13 OS: Red Hat Enterprise Linux with High Availability
datasome commented 9 months ago

Hi hemantgujar,

Are you trying to install CellphoneDB into a clean virtual environment? If not, please see https://cellphonedb.readthedocs.io/en/latest/RESULTS-DOCUMENTATION.html#installation for more information.

Best,

Robert.

hemantgujar commented 9 months ago

yes. thanks. that's ok. i was able to install using github file. for some reason pip3 install cellphonedb was not working for me.