.command.log - Workdir - NFCORE_SAREK:SAREK:BAM_VARIANT_CALLING_SOMATIC_ALL:VCF_SOMATIC_SNV_INDEL:BCFTOOLS_CONCAT (custom_Sig_18_tumor_normal)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/99/b3c01bf979540cb898112a06b3f83f/.command.log
Size: 1.0 KB
Task: NFCORE_SAREK:SAREK:BAM_VARIANT_CALLING_SOMATIC_ALL:VCF_SOMATIC_SNV_INDEL:BCFTOOLS_CONCAT (custom_Sig_18_tumor_normal)
Attempt

Content

  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e0/3bafd310e93c609656d15a6859a324/custom_Sig_18_tumor_normal.snv_indel.tnseq.snv.vcf.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2c/8f9bdbc90713aa69f374aacca3ca29/custom_Sig_18_tumor_normal.snv_indel.strelka.indel.vcf.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2c/8f9bdbc90713aa69f374aacca3ca29/custom_Sig_18_tumor_normal.snv_indel.strelka.indel.vcf.gz.tbi
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/99/b3c01bf979540cb898112a06b3f83f/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/99/b3c01bf979540cb898112a06b3f83f/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e0/3bafd310e93c609656d15a6859a324/custom_Sig_18_tumor_normal.snv_indel.tnseq.snv.vcf.gz.tbi
==> STAGING COMPLETE (6 inputs)

Checking the headers and starting positions of 2 files
ls: custom_Sig_18_tumor_normal.snv_indel.merged.vcf.gz.csi: No such file or directory