From cbe4c3741cea00944cb27ff8c9bb2cb0a3570066 Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Wed, 29 Mar 2023 14:15:45 +0200
Subject: [PATCH] split r1 and r2
---
src/main.nf | 9 ++++-----
1 file changed, 4 insertions(+), 5 deletions(-)
diff --git a/src/main.nf b/src/main.nf
index 9ebe5e7..1e27cd6 100644
--- a/src/main.nf
+++ b/src/main.nf
@@ -9,15 +9,14 @@ include { FASTKMERS } from "./modules/fastkmers.nf"
Channel.fromPath( file(params.csv) )
.splitCsv(header: true)
- .map{row ->
+ .multiMap{row ->
fastq_r1 = file("${row.r1}")
fastq_r2 = file("${row.r2}")
- meta = ['id': fastq_r1.simpleName, 'specie': row.specie, 'sex': row.sex]
- println(row)
- [meta, [fastq_r1, fastq_r2]]
+ r1: [['id': fastq_r1.simpleName, 'specie': row.specie, 'sex': row.sex, 'read': 'r1'], fastq_r1]
+ r2: [['id': fastq_r1.simpleName, 'specie': row.specie, 'sex': row.sex, 'read': 'r2'], fastq_r2]
}
.set{ fastq }
workflow {
- FASTKMERS(fastq)
+ FASTKMERS(fastq.r1.mix(fastq.r2))
}
--
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