search

leomorelli / scGET

BSD 3-Clause "New" or "Revised" License
8 stars 3 forks source link

nbformat in yaml not available #19

Open josegarciamanteiga opened 1 month ago

josegarciamanteiga commented 1 month ago

Hi, the version of nbformat present in the yaml to install the conda environment is not present in any of the channels. I have tried to install the newest one but it fails with some inconsistent requirements. I am trying to do it without installing that package with conda and then using pip but I'm not sure it will work.

dawe commented 1 month ago

I guess it was a dump of a working environment. We may probably make it work with a minimal set of packages listed, so that conda handles dependencies. On top you'll need a working python environment, snakemake, scanpy, numpy, pandas, pysam, HTSeq

josegarciamanteiga commented 1 month ago

Thanks D, We could work on a minimal env to avoid the conda mess. J