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Verified Commit 9cc57a97 authored by Laurent Modolo's avatar Laurent Modolo
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fastp: add json output for multiqc

parent 6faa2900
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...@@ -25,6 +25,7 @@ fastp --thread ${task.cpus} \ ...@@ -25,6 +25,7 @@ fastp --thread ${task.cpus} \
--out1 ${pair_id}_R1_trim.fastq.gz \ --out1 ${pair_id}_R1_trim.fastq.gz \
--out2 ${pair_id}_R2_trim.fastq.gz \ --out2 ${pair_id}_R2_trim.fastq.gz \
--html ${pair_id}.html \ --html ${pair_id}.html \
--json ${pair_id}.json \
--report_title ${pair_id} --report_title ${pair_id}
""" """
} }
...@@ -50,6 +51,7 @@ fastp --thread ${task.cpus} \ ...@@ -50,6 +51,7 @@ fastp --thread ${task.cpus} \
--in1 ${reads} \ --in1 ${reads} \
--out1 ${pair_id}_trim.fastq.gz \ --out1 ${pair_id}_trim.fastq.gz \
--html ${pair_id}.html \ --html ${pair_id}.html \
--json ${pair_id}.json \
--report_title ${pair_id} --report_title ${pair_id}
""" """
} }
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