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annotate_sv renamed to annotate_svs #344

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Nicolai-vKuegelgen opened this issue Jan 13, 2023 · 0 comments · Fixed by #345
Closed

annotate_sv renamed to annotate_svs #344

Nicolai-vKuegelgen opened this issue Jan 13, 2023 · 0 comments · Fixed by #345

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@Nicolai-vKuegelgen
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Describe the bug
The varfish wrappers for 'annotate_sv' has been renamed to 'annotate_svs' in 7c35ec3.
However the workflows wgs_sv_export_external and wgs_cnv_export_external still try to call the 'annotate_sv' warpper from their snakefiles.

To Reproduce
Execute snappy rule wgs_sv_export_external or wgs_sv_export_external with a current version (i.e. 20bb62c or 7c35ec3 )

Fix
If the renaming is intentional then the wrapper calls in Snakefiles need to be adjusted to call 'annotate_svs'
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fix: correct name of annotate_svs in Snakefiles (#344) bihealth/snappy-pipeline
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@Nicolai-vKuegelgen