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Rewrite#7

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bkohrn wants to merge 17 commits intoAndersenLab:mainAndersenLab/cellprofiler-nf:mainfrom bkohrn:rewritebkohrn/cellprofiler-nf:rewriteCopy head branch name to clipboard

+406-533

Commits

Commits on Oct 28, 2022

• Fix shebangs on R scripts

  

  Brendan Kohrn

  committed
  55d7e35

• Move processes to modules

  

  Brendan Kohrn

  committed
  cf3e4e6

• Reformat modules for readability

  

  Brendan Kohrn

  committed
  691d9f1

• Move scripts into templates

  

  Brendan Kohrn

  committed
  a1867ec

• Move dauer and toxin to subworkflows

  

  Brendan Kohrn

  committed
  68f0aba

• Clean up options

  

  Brendan Kohrn

  committed
  98ee948

• Move fixed inputs out of sub-workflows

  

  Brendan Kohrn

  committed
  45e9d4f

• Finish moving common options out of subworkflows

  

  Brendan Kohrn

  committed
  a790e35

Commits on Nov 4, 2022

• Give up on gradual modifications in favor of drastic rewrite

  

  Brendan Kohrn

  committed
  c0e660c

• Update permissions for R scripts

  

  Brendan Kohrn

  committed
  0a9dcf7

• Update .cppipe files

  

  Brendan Kohrn

  committed
  54d60eb

• Remove core-specific options from nextflow.config

  

  Brendan Kohrn

  committed
  ae52ccc

• Finish removing core-specific options from nextflow.config

  

  Brendan Kohrn

  committed
  8209396

• Make slurm the executor

  

  Brendan Kohrn

  committed
  20058b2

Commits on Nov 8, 2022

• Fix regex for metadata extraction

  

  Brendan Kohrn

  committed
  3ff0a88

• Fix dauer metadata script

  

  Brendan Kohrn

  committed
  3278f45

Commits on Nov 15, 2022

• Update permissions

  

  Brendan Kohrn

  committed
  5e48ea2