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theislab / scib

Benchmarking analysis of data integration tools
MIT License
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Addressing installation issues #297

Closed mumichae closed 2 years ago

mumichae commented 2 years ago

Addressing issues listed under https://github.com/theislab/scib-pipeline/issues/23

Things to improve installation experience:

  • [x] pin rpy2 3.4.2
    • install specifically via conda (if possible)
  • [x] scib: try-except around ro.r('library(Seurat)’) to report that library installs were problematic
mumichae commented 2 years ago

@LuckyMD I guess including exception handling for all other R packages in rpy2 would be helpful?

LuckyMD commented 2 years ago

Yes, I think so

LuckyMD commented 2 years ago

We prob also need this for the scib-pipeline integration scripts, no?