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Fix tests for iVar variants

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This commit is contained in:
drpatelh 2021-02-16 23:29:15 +00:00
parent a282ecd8c7
commit c6a0976f52
1 changed files with 7 additions and 7 deletions
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4
tests/software/ivar/variants/main.nf
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@ -29,11 +29,11 @@ workflow test_ivar_variants_no_gff_with_mpileup {
} }
workflow test_ivar_variants_with_gff_with_mpileup { workflow test_ivar_variants_with_gff_with_mpileup {
params.gff = "${launchDir}/tests/data/gff/sarscov2/MN908947.3.gff3" params.gff = true
params.save_mpileup = true params.save_mpileup = true
def ref = file("${launchDir}/tests/data/fasta/sarscov2/MN908947.3.fa", checkIfExists: true) def ref = file("${launchDir}/tests/data/fasta/sarscov2/MN908947.3.fa", checkIfExists: true)
def gff = file(params.gff, checkIfExists: true) def gff = file("${launchDir}/tests/data/gff/sarscov2/MN908947.3.gff3", checkIfExists: true)
def input = [] def input = []
input = [ [ id:'test'], input = [ [ id:'test'],
file("${launchDir}/tests/data/bam/test-sc2-artic-v3-sorted-trimmed.bam", checkIfExists: true) ] file("${launchDir}/tests/data/bam/test-sc2-artic-v3-sorted-trimmed.bam", checkIfExists: true) ]