@kishwarshafin Khi PIn here. Filing a report of an issue I'm seeing. I'm trying to implement DeepSomatic into a pipeline. What the pipeline does now is that it splits the genome into equal interval and uses the --region parameter to call variants in just that region. However, when I was testing this with a toy example which doesn't have variants in most intervals, the DeepSomatic step stops progressing after call_variants.

Attaching a zip file of the log files collected here with the command used (command file). Thanks.

logs.zip