.command.log - Workdir - NFCORE_SAREK:SAREK:BAM_VARIANT_CALLING_SOMATIC_ALL:VCF_SOMATIC_SNV_INDEL:BCFTOOLS_CONCAT (HCC1395_tumor_vs_HCC1395_BL)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/49/1be18d278cd070c98bc0d1c01a7660/.command.log
Size: 1.0 KB
Task: NFCORE_SAREK:SAREK:BAM_VARIANT_CALLING_SOMATIC_ALL:VCF_SOMATIC_SNV_INDEL:BCFTOOLS_CONCAT (HCC1395_tumor_vs_HCC1395_BL)
Attempt

Content

  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/49/1be18d278cd070c98bc0d1c01a7660/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/49/1be18d278cd070c98bc0d1c01a7660/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1c/e56c04a72e8a33a8d966ee5fbd8010/HCC1395_tumor_vs_HCC1395_BL.snv_indel.strelka.indel.vcf.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1c/e56c04a72e8a33a8d966ee5fbd8010/HCC1395_tumor_vs_HCC1395_BL.snv_indel.strelka.indel.vcf.gz.tbi
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f4/a5af5195c8ca94e8b4f6601085e0ce/HCC1395_tumor_vs_HCC1395_BL.snv_indel.tnseq.snv.vcf.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f4/a5af5195c8ca94e8b4f6601085e0ce/HCC1395_tumor_vs_HCC1395_BL.snv_indel.tnseq.snv.vcf.gz.tbi
==> STAGING COMPLETE (6 inputs)

Checking the headers and starting positions of 2 files
ls: HCC1395_tumor_vs_HCC1395_BL.snv_indel.merged.vcf.gz.csi: No such file or directory