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Fix iVar output file path
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workflow/rules/vaf.smk

Lines changed: 2 additions & 1 deletion
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@@ -42,12 +42,13 @@ rule snps_to_ancestor:
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-f renamed_reference.fasta \
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{input.bam} \
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| ivar variants \
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-p {wildcards.sample} \
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-p variants \
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-q {params.ivar_quality} \
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-t {params.ivar_freq} \
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-m {params.ivar_depth} \
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-g {input.gff} \
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-r renamed_reference.fasta
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mv variants.tsv {output.tsv:q}
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"""
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