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Published 20 hours ago • verified publisher icon dpeerlab

Way too strict dependency pins

Open Zethson opened this issue 1 year ago • 3 comments

Hi,

the dependencies pinned in https://github.com/dpeerlab/SEACells/blob/main/requirements.txt are way too strict and it is not possible to add SEACells to another Python package that has a few other scverse tools. Please unpin them (e.g. cython, anndata, h5py, ...)

Zethson avatar May 05 '23 15:05 Zethson

Same here. I need to install SEACells without dependencies pip install .... --no-deps to prevent updates of already installed packages, or to install SEACells if a fresh conda environment and then install other packages like scvi-tools and cell2location.

vitkl avatar May 12 '23 02:05 vitkl

Ahh yes, sorry about that! I will remove the extra dependencies and test it out this week. Will update this soon!

sitarapersad avatar May 16 '23 16:05 sitarapersad

@vitkl Can you confirm that SEACells works with latent embeddings from scvi?

shahrozeabbas avatar Mar 12 '24 16:03 shahrozeabbas