.command.log - Workdir - NFCORE_SAREK:SAREK:VCF_ANNOTATE_ALL:VCF_ANNOTATE_REPEATMASKER:BCFTOOLS_ANNOTATE (Sig_18_Blood;germline_cnv)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9b/81d628dfc903142c0be59ae02b3b2d/.command.log
Size: 967 bytes
Task: NFCORE_SAREK:SAREK:VCF_ANNOTATE_ALL:VCF_ANNOTATE_REPEATMASKER:BCFTOOLS_ANNOTATE (Sig_18_Blood;germline_cnv)
Attempt

Content

  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4f/0c23ca3450afea240b1ca61b565b4b/Sig_18_Blood.vcf.gz
  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Annotation/CustomBEDs/repeatmasker_grch38.bed.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9b/81d628dfc903142c0be59ae02b3b2d/.command.sh
  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Annotation/CustomBEDs/repeatmasker_grch38.bed.gz.tbi
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9b/81d628dfc903142c0be59ae02b3b2d/.command.run
  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Annotation/CustomBEDs/repeatmasker_header.txt
==> 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