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pinellolab / simba

SIMBA: SIngle-cell eMBedding Along with features
https://simba-bio.readthedocs.io
BSD 3-Clause "New" or "Revised" License
54 stars 7 forks source link

glibc errors at install #10

Open wes-lewis opened 2 years ago

wes-lewis commented 2 years ago

Hi,

Thank you for providing this package publicly! I'm trying to install for use on google colab. I'm running into issues with glibc when attempting to install using anaconda on colab. It would be even more helpful if a version of the tutorials in a working colab notebook was available.

When trying to install from conda, I get this glibc error: Building wheels for collected packages: simba Building wheel for simba (setup.py) ... done Created wheel for simba: filename=simba-1.1-py3-none-any.whl size=1918035 sha256=6830ba16c6f0fe4bfeb7a9956862efb917920653115c6a68df984d6b9f9d85d2 Stored in directory: /tmp/pip-ephem-wheel-cache-8niydkpc/wheels/52/1b/48/2d22ee2f71a46d81d4ea7141e6664038d888a1e704de867fa3 Successfully built simba Installing collected packages: simba Successfully installed simba-1.1

This is from the standard install command:

!conda install -c bioconda simba

huidongchen commented 2 years ago

Hi, sorry for the delay.

Instead of installing simba into your current env, can you try to create a new conda env along with the installation of simba there? This is also the recommended way of installing simba on our website. It helps avoid any potential conflicts with the existing packages in your env.

conda create -n env_simba python simba

Google Collab is a great suggestion and that's something we would certainly like to pursue after our manuscript revision Odyssey. :)