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6.2 (2023-03-30)

  • Issue #7: new location for genepanels. Format of panels changed as they are created by the Gene Panel Builder
  • Issue #4: Add variables for parental CNV_VCF files in annopipe
  • Issue #5: Don't create per-base.bed.gz as it's not used
  • Issue #10: Bug: basepipe fails for HG002 due to lacking variable
  • Issue #11: Bug: QC outside threshold limits still passes as OK

6.1.1 (2023-01-24)

  • don't change ownership or permission of files copied to preprocessed. TSD's cluster often fails on 'chown'

6.1 (2022-12-08)

  • git backed config file defining svtools 0.1.4
  • use rolling logging in executor
  • msh2 caller for WGS samples
  • PMS2 pseudegene masking for WGS samples
  • Add contamination fraction filter to reduce sensitivity of the caller
  • removed old, unused settings file config/nextflow-test.config