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Foreign Contamination Screening caller scripts and documentation
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Request for Conda Installation Option for fcs-gx on GitHub #92

Closed wangshuangyi closed 1 month ago

wangshuangyi commented 1 month ago

Hello,

I've recently been using your software, fcs-gx, on GitHub for genome sequence decontamination. However, I've encountered difficulties as the current setup requires either Docker or Singularity, and I lack root permissions to use them effectively. I'd like to suggest adding a Conda installation option for users like me who face these limitations. This would make your software more accessible and easier to use in environments where Docker or Singularity setups are challenging.

Thank you for considering this enhancement!

Best regards, Shuangyi Wang

etvedte commented 1 month ago

GX is available as a conda recipe here.

We don't provide documentation on how to use the conda install, but note:

  1. The conda install currently only supports local use of GX, not FCS-adaptor
  2. The source code repo for fcs-gx and Issue #74 will help