.command.out - Workdir - NFCORE_HARMONIZE:HARMONIZE:HARMONIZE_SV:HARMONIZE_SV_ALTERA_INHOUSE_DNA:MANTA_SV_NORMALIZE (869_HUS-N1-BDNA-1_A23WGJTLT4_1_vs_869_HUS-N1-BDNA-1_A23FG3YLT4_1)

File Info

Filename: .command.out
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/45/e6ef9f34fdbaac996b35a6ad0c5b2c/.command.out
Size: 444 bytes
Task: NFCORE_HARMONIZE:HARMONIZE:HARMONIZE_SV:HARMONIZE_SV_ALTERA_INHOUSE_DNA:MANTA_SV_NORMALIZE (869_HUS-N1-BDNA-1_A23WGJTLT4_1_vs_869_HUS-N1-BDNA-1_A23FG3YLT4_1)
Attempt

Content

Parsing Manta VCF: 869_HUS-N1-BDNA-1_A23WGJTLT4_1_vs_869_HUS-N1-BDNA-1_A23FG3YLT4_1.manta.somatic_sv_custom.ann_snpEff_VEP.ann.vcf.gz
  Found 146 SV records
  TSV written to: 869_HUS-N1-BDNA-1_A23WGJTLT4_1_vs_869_HUS-N1-BDNA-1_A23FG3YLT4_1.sv.hmnz.tsv
  BEDPE written to: 869_HUS-N1-BDNA-1_A23WGJTLT4_1_vs_869_HUS-N1-BDNA-1_A23FG3YLT4_1.sv.hmnz.bedpe
  SV type counts: {'DEL': 126, 'DUP': 6, 'BND': 14}
  Records with gene1 annotation: 146/146