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subworkflows/local/consensus_sequence.nf

Lines changed: 3 additions & 3 deletions
Original file line numberDiff line numberDiff line change
@@ -20,7 +20,7 @@ workflow CONSENSUS_SEQUENCE {
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if (params.consensus_tool == 'multivcfanalyzer') {
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// Prepare VCF sets for MVCFA input.
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ch_mvcfa_vcf_input = ch_genotypes_vcf
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.map {
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.map {
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meta, vcfs, vcf_index ->
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[meta, vcfs]
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}
@@ -30,12 +30,12 @@ workflow CONSENSUS_SEQUENCE {
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.mix(
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// Mix in any additional VCFs
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ch_samplesheet_vcfs
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.map {
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.map {
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addNewMetaFromAttributes(it, "vcf_reference_id", "reference", true)
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}
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)
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// Filter out lines with missing VCF. Serves to remove the ifEmpty input of ch_samplesheet_vcfs.
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.filter{
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.filter{
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merge_meta, vcfs ->
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vcfs != []
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}

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