155 add serotypefinder module #268
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Feb 19, 2024
samuell
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Feb 21, 2024
| @@ -108,13 +112,13 @@ process { | |||
| container = "${params.containerDir}/bwakit.sif" | |||
| cpus = 16 | |||
| memory = '20 GB' | |||
| publishDir = [ path: "${params.outdir}/${params.speciesDir}/bwa", mode: 'copy', overwrite: true ] | |||
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Not sure what happened here... Guess it is legit, but so the publishdir was just moved (same for the other files)?
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I was publishing the wrong bam file. bwa is run on it's own assembly for qc purposes as well as against a reference genome to check variants
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Description
Summary of the changes made:
Primary function of PR
Testing
Tested in conjunction with unreleased bonsai-prp version (currently being reviewed)