.command.log - Workdir - NFCORE_SAREK:SAREK:VCF_ANNOTATE_ALL:VCF_ANNOTATE_BLACKLIST:BCFTOOLS_ANNOTATE (HCC1395_BL;sentieon_haplotyper_rf)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2d/da59eddafff60c6e07685c4b42aa64/.command.log
Size: 982 bytes
Task: NFCORE_SAREK:SAREK:VCF_ANNOTATE_ALL:VCF_ANNOTATE_BLACKLIST:BCFTOOLS_ANNOTATE (HCC1395_BL;sentieon_haplotyper_rf)
Attempt

Content

  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Annotation/CustomBEDs/blacklist_grch38.bed.gz
  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Annotation/CustomBEDs/blacklist_grch38.bed.gz.tbi
  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Annotation/CustomBEDs/blacklist_header.txt
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2d/da59eddafff60c6e07685c4b42aa64/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2d/da59eddafff60c6e07685c4b42aa64/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f6/e4ba49af4a85546a81d8c3ab38a376/HCC1395_BL.deconflicted_germline_RPM.vcf.gz
==> STAGING COMPLETE (6 inputs)

ls: *.vcf: No such file or directory
ls: *.bcf: No such file or directory
ls: *.bcf.gz: No such file or directory