.command.out - Workdir - NFCORE_HARMONIZE:HARMONIZE:HARMONIZE_SV:HARMONIZE_SV_ALTERA_INHOUSE_DNA:MANTA_SV_NORMALIZE (1136_85O-T1-TDNA-1_A23WJ5GLT4_7_vs_1136_85O-N1-BDNA-1_B23KGCJLT4_1)

File Info

Filename: .command.out
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2c/e5e7cf23b0db7b5800f1f22beb674d/.command.out
Size: 460 bytes
Task: NFCORE_HARMONIZE:HARMONIZE:HARMONIZE_SV:HARMONIZE_SV_ALTERA_INHOUSE_DNA:MANTA_SV_NORMALIZE (1136_85O-T1-TDNA-1_A23WJ5GLT4_7_vs_1136_85O-N1-BDNA-1_B23KGCJLT4_1)
Attempt

Content

Parsing Manta VCF: 1136_85O-T1-TDNA-1_A23WJ5GLT4_7_vs_1136_85O-N1-BDNA-1_B23KGCJLT4_1.manta.somatic_sv_custom.ann_snpEff_VEP.ann.vcf.gz
  Found 125 SV records
  TSV written to: 1136_85O-T1-TDNA-1_A23WJ5GLT4_7_vs_1136_85O-N1-BDNA-1_B23KGCJLT4_1.sv.hmnz.tsv
  BEDPE written to: 1136_85O-T1-TDNA-1_A23WJ5GLT4_7_vs_1136_85O-N1-BDNA-1_B23KGCJLT4_1.sv.hmnz.bedpe
  SV type counts: {'BND': 88, 'DEL': 18, 'DUP': 18, 'INS': 1}
  Records with gene1 annotation: 125/125