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Deprecated option in Snakefile `call_sniffles` #14

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sotakan opened this issue Aug 16, 2020 · 0 comments

sotakan commented Aug 16, 2020

snakemake -p all returns error from sniffles

Error:
Couldn't find match for argument
Short usage:
sniffles [options] -m <sorted.bam> -v <output.vcf>
Version: 1.0.12
Contact: fritz.sedlazeck@gmail.com
For complete USAGE and HELP type:
sniffles --help

removing the --report_read_strands option seems to fix the issue

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