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fix channel input
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maxulysse committed Apr 11, 2024
1 parent 881bd34 commit 3c05085
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Expand Up @@ -32,7 +32,7 @@ workflow FASTQ_ALIGN_BWAMEM_MEM2_DRAGMAP_SENTIEON {
SENTIEON_BWAMEM(reads, index, fasta, fasta_fai) // If aligner is sentieon-bwamem
// The parabricks-fq2bam module performs alignment and sorting as part of the conversion from fastq to bam.
// Additionally, it can perform mark duplicates and generate a bqsr table (input for parabricks-applybqsr module)
PARABRICKS_FQ2BAM(reads, [[id:'null'], []], fasta, index, [[id:'null'], []],)
PARABRICKS_FQ2BAM(reads.map{meta, reads -> [meta, reads, []] } , fasta, index, [])

// Get the bam files from the aligner
// Only one aligner is run
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