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interactivereport / cellxgene_VIP

Enables cellxgene to generate violin, stacked violin, stacked bar, heatmap, volcano, embedding, dot, track, density, 2D density, sankey and dual-gene plot in high-resolution SVG/PNG format. It also performs differential gene expression analysis and provides a Command Line Interface (CLI) for advanced users to perform analysis using python and R.
https://cellxgenevip-ms.bxgenomics.com
MIT License
129 stars 44 forks source link

Error in installation of .yml file #75

Closed williestyle925 closed 10 months ago

williestyle925 commented 2 years ago

Hi, thank you for the great work!

After trying a few hours to solve the installation problems, I still face errors while running the conda environment from VIP_conda_R.yml.

Solving environment: failed ResolvePackageNotFound: ....

I then put the required functions under --pip, and the package conflict of several package showed up.

Would anyone face the same issues and how to deal with this error? Many thanks to your reply!

likejie commented 2 years ago

Sorry for the delayed reply! @williestyle925

conda solver could be very slow. Please try the following by using mamba:

conda install -c conda-forge mamba
conda create -n <your envname>
mamba env update -n <your envname> -f VIP_conda_R.yml
conda activate <your envname>

This should be much faster.

Please let me know. Thanks!

z5ouyang commented 10 months ago

Please checkout new one step installation: install_VIPlight.sh (linux) install_VIPlight.macOS.sh (mac OS).