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remove typo
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AmstlerStephan committed Jul 25, 2024
1 parent 877f052 commit 7135f82
Showing 2 changed files with 3 additions and 5 deletions.
4 changes: 2 additions & 2 deletions lib/processes/cluster.nf
Original file line number Diff line number Diff line change
@@ -1,11 +1,11 @@
consensus_fasta="consensus.fasta"
vsearch_dir="vsearch_clusters"
detected_umis_file_name="dected_umis.fastq"
detected_umis_file_name="detected_umis.fastq"
process CLUSTER {
publishDir "${params.output}/${sample.baseName}/clustering/${type}", pattern: "cluster*", mode: 'copy'

input:
path sample
val ( type )
output:
tuple val( "${sample.baseName}" ), path( "cluster*" ), optional: true, emit:cluster_fastas

4 changes: 1 addition & 3 deletions lib/workflows/umi-pipeline.nf
Original file line number Diff line number Diff line change
@@ -35,8 +35,6 @@ Channel.fromPath("${params.input}/*", type: 'dir')
.filter( ~/.*barcode(([0-9][0-9]))/ )
.set { detected_umis_ch }

detected_umis_ch.view()

////////////////////
// BEGIN PIPELINE //
////////////////////
@@ -56,7 +54,7 @@ include {REFORMAT_FILTER_CLUSTER} from '../processes/reformat_filter_cluster.nf'
workflow UMI_PIPELINE {

main:
CLUSTER( detected_umis_ch)
CLUSTER( detected_umis_ch, raw )
REFORMAT_FILTER_CLUSTER( CLUSTER.out.cluster_fastas, raw, umi_parse_clusters )
}

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