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Unverified Commit 9f34d846 authored by Laurent Modolo's avatar Laurent Modolo
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samtools: fix catched bams names

parent a8e8560a
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...@@ -27,7 +27,7 @@ process filter_bam_mapped { ...@@ -27,7 +27,7 @@ process filter_bam_mapped {
tuple val(file_id), path(bam) tuple val(file_id), path(bam)
output: output:
tuple val(file_id), path("*_filtered.bam"), emit: bam tuple val(file_id), path("*_mapped.bam"), emit: bam
script: script:
""" """
samtools view -@ ${task.cpus} -F 4 -hb ${bam} -L ${bed} > ${file_id}_mapped.bam samtools view -@ ${task.cpus} -F 4 -hb ${bam} -L ${bed} > ${file_id}_mapped.bam
...@@ -43,7 +43,7 @@ process filter_bam_unmapped { ...@@ -43,7 +43,7 @@ process filter_bam_unmapped {
tuple val(file_id), path(bam) tuple val(file_id), path(bam)
output: output:
tuple val(file_id), path("*_filtered.bam"), emit: bam tuple val(file_id), path("*_unmapped.bam"), emit: bam
script: script:
""" """
samtools view -@ ${task.cpus} -f 4 -hb ${bam} > ${file_id}_unmapped.bam samtools view -@ ${task.cpus} -f 4 -hb ${bam} > ${file_id}_unmapped.bam
......
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