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Bug #9485

closed

[bcbio] Changing truth vcf/bed prevents variant calling jobs being reused in bcbio cwl pipelines

Added by Jiayong Li almost 8 years ago. Updated over 7 years ago.

Status:
Resolved
Priority:
Normal
Assigned To:
-
Category:
-
Target version:
-
Story points:
-

Description

The cwl workflow generated by bcbio_vm.py has variant calling steps "batch_for_variantcall.cwl", "get_parallel_regions.cwl", and "variantcall_batch_region.cwl". They all have variables "config__algorithm__validate" and "config__algorithm__validate_regions" passed as inputs. If we change the truth vcf/bed, the cwl of these steps will change, preventing them being reused.

Is this the intended behavior?

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