.command.log - Workdir - NFCORE_SAREK:SAREK:BAM_CHIP_DETECTION:HARMONIZE_CHIP_CANDIDATES:BCFTOOLS_NORM (1136_7OO-N1-BDNA-1_A237CFYLT3_1)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0e/13af6af68491b74e96b0d9084f0e9c/.command.log
Size: 1.1 KB
Task: NFCORE_SAREK:SAREK:BAM_CHIP_DETECTION:HARMONIZE_CHIP_CANDIDATES:BCFTOOLS_NORM (1136_7OO-N1-BDNA-1_A237CFYLT3_1)
Attempt

Content

  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/90/3fe78526d714b4ee1605be6a1fc92e/1136_7OO-N1-BDNA-1_A237CFYLT3_1.tnseq_tumor_only.filtered_snpEff.ann.vcf.gz.tbi
  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Sequence/WholeGenomeFasta/Homo_sapiens_assembly38.fasta
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/90/3fe78526d714b4ee1605be6a1fc92e/1136_7OO-N1-BDNA-1_A237CFYLT3_1.tnseq_tumor_only.filtered_snpEff.ann.vcf.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0e/13af6af68491b74e96b0d9084f0e9c/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0e/13af6af68491b74e96b0d9084f0e9c/.command.run
==> STAGING COMPLETE (5 inputs)

Lines   total/split/joined/realigned/mismatch_removed/dup_removed/skipped:	24585/4728/0/10223/0/0/0
ls: cannot access '*.vcf': No such file or directory
ls: cannot access '*.bcf': No such file or directory
ls: cannot access '*.bcf.gz': No such file or directory
ls: cannot access '*.csi': No such file or directory