Rewrite#7

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bkohrn wants to merge 17 commits intoAndersenLab:mainfrom

Commits on Oct 28, 2022

Fix shebangs on R scripts
Brendan Kohrn
committed
Move processes to modules
Brendan Kohrn
committed
Reformat modules for readability
Brendan Kohrn
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Move scripts into templates
Brendan Kohrn
committed
Move dauer and toxin to subworkflows
Brendan Kohrn
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Clean up options
Brendan Kohrn
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Move fixed inputs out of sub-workflows
Brendan Kohrn
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Finish moving common options out of subworkflows
Brendan Kohrn
committed

Commits on Nov 4, 2022

Give up on gradual modifications in favor of drastic rewrite
Brendan Kohrn
committed
Update permissions for R scripts
Brendan Kohrn
committed
Update .cppipe files
Brendan Kohrn
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Remove core-specific options from nextflow.config
Brendan Kohrn
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Finish removing core-specific options from nextflow.config
Brendan Kohrn
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Make slurm the executor
Brendan Kohrn
committed

Commits on Nov 8, 2022

Fix regex for metadata extraction
Brendan Kohrn
committed
Fix dauer metadata script
Brendan Kohrn
committed

Commits on Nov 15, 2022

Update permissions
Brendan Kohrn
committed