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README.md

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Prerequisites

Make sure nextflow, conda and singularity are in the PATH.

Quick start (lsf)

  1. git pull this repo
  2. Go to interactive session (you will need access to imaging queue): bsub -q imaging -n1 -M6000 -R"select[mem>6000] rusage[mem=6000]" -Is $SHELL
  3. Run bash [path-to-this-repo]/lsf_run [path-to-yaml-config], in a folder where you have write permission