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fix: move config access in gcnv/contig_ploidy wrapper to params #508

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@tedil tedil commented Apr 30, 2024

Fixes #500
@Nicolai-vKuegelgen this is just a suggestion, let me know if it makes sense to you. It's a little bit of code duplication that could probably be avoided by somehow obtaining the step_name within RunGcnvStepPart. Also I am not at all sure about the config paths I put in there.

@sellth sellth force-pushed the main branch 3 times, most recently from 9664352 to bf39678 Compare June 28, 2024 16:18
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Coverage Status

coverage: 85.748% (-0.05%) from 85.8%
when pulling ee3bfc7 on fix-contig-ploidy-wrapper-config-params
into ebf2d24 on main.

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The gcnv contig_ploidy wrapper hardcodes config paths
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