iossifovlab / gpf

GPF: Genotypes and Phenotypes in Families
MIT License
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[BUG] Cannot use annotation tools with instance pipeline. #652

Open IvoTod opened 5 months ago

IvoTod commented 5 months ago

What happened: When attempting to run annotate_columns without passing a pipeline argument, it attempts to read the pipeline configuration from the empty pipeline argument and resulting in a crash.

What you expected to happen: The tools are expected to use the annotation pipeline of the locally configured in the environment GPF instance.