.command.log - Workdir - NFCORE_SAREK:SAREK:BAM_CHIP_DETECTION:HARMONIZE_CHIP_CANDIDATES:BCFTOOLS_NORM (1136_5WB-N1-BDNA-1_B23KFG5LT4_1)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/f8d1ae00005d9af3c794e748fc5407/.command.log
Size: 1.1 KB
Task: NFCORE_SAREK:SAREK:BAM_CHIP_DETECTION:HARMONIZE_CHIP_CANDIDATES:BCFTOOLS_NORM (1136_5WB-N1-BDNA-1_B23KFG5LT4_1)
Attempt

Content

  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b5/fdd0488faeb3f175132c56033c6230/1136_5WB-N1-BDNA-1_B23KFG5LT4_1.tnseq_tumor_only.filtered_snpEff.ann.vcf.gz
  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/8e/f8d1ae00005d9af3c794e748fc5407/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/f8d1ae00005d9af3c794e748fc5407/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b5/fdd0488faeb3f175132c56033c6230/1136_5WB-N1-BDNA-1_B23KFG5LT4_1.tnseq_tumor_only.filtered_snpEff.ann.vcf.gz.tbi
==> STAGING COMPLETE (5 inputs)

Lines   total/split/joined/realigned/mismatch_removed/dup_removed/skipped:	19800/3222/0/6337/0/0/0
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