I run into the errors below, when I try to run the StructuralVariationDiscoveryPipelineSpark to discover structural variants in a given sample:
ERROR Executor: Exception in task 0.0 in stage 5.0 (TID 50)
java.lang.IllegalArgumentException: provided start is negative: -36
I am not sure why the tool has to throw up these errors when every other thing seems fine. I wiil appreciate if you could shed some light on this.