using pipeline-structural-variation for non-human data

[splaisan]

Can this be done at all (I am working with Saccharomyces right now)?

I edited the config.yml to match my paths

After failing with the default command

snakemake all --config input_fastq=<my-path-to-fastq>/ reference_fasta=<my-path-to-fa> threads=64

complaining that all is not a valid Rule

I am now running a more complete command:

snakemake --snakefile ./Snakefile --configfile ./config.yml --jobs 64 eval

I see that the pipeline is using human data to compare to (HG002_SVs_Tier1_v0.6.vcf.gz)

Which Rule(s) should I run for a non human data in order to get the most out of this pipeline?

Thanks