.command.out - Workdir - NFCORE_HARMONIZE:HARMONIZE:HARMONIZE_SV:HARMONIZE_SV_ALTERA_INHOUSE_DNA:MANTA_SV_NORMALIZE (869_VZQ-T1-TDNA-1_A23WGJTLT4_3_vs_869_VZQ-N1-BDNA-1_A23FG3YLT4_1)

File Info

Filename: .command.out
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cd/6d9a208decfc2a795ee8ce4906d3f9/.command.out
Size: 450 bytes
Task: NFCORE_HARMONIZE:HARMONIZE:HARMONIZE_SV:HARMONIZE_SV_ALTERA_INHOUSE_DNA:MANTA_SV_NORMALIZE (869_VZQ-T1-TDNA-1_A23WGJTLT4_3_vs_869_VZQ-N1-BDNA-1_A23FG3YLT4_1)
Attempt

Content

Parsing Manta VCF: 869_VZQ-T1-TDNA-1_A23WGJTLT4_3_vs_869_VZQ-N1-BDNA-1_A23FG3YLT4_1.manta.somatic_sv_custom.ann_snpEff_VEP.ann.vcf.gz
  Found 83 SV records
  TSV written to: 869_VZQ-T1-TDNA-1_A23WGJTLT4_3_vs_869_VZQ-N1-BDNA-1_A23FG3YLT4_1.sv.hmnz.tsv
  BEDPE written to: 869_VZQ-T1-TDNA-1_A23WGJTLT4_3_vs_869_VZQ-N1-BDNA-1_A23FG3YLT4_1.sv.hmnz.bedpe
  SV type counts: {'DEL': 57, 'INS': 6, 'BND': 12, 'DUP': 8}
  Records with gene1 annotation: 83/83