.command.log - Workdir - NFCORE_SAREK:SAREK:BAM_CHIP_DETECTION:HARMONIZE_GERMLINE:BCFTOOLS_NORM (1029_BTOJ-N1-BDNA-1_B23KGCJLT4_1)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/40/3982c1c71d5cace211a946d5f5010b/.command.log
Size: 1.0 KB
Task: NFCORE_SAREK:SAREK:BAM_CHIP_DETECTION:HARMONIZE_GERMLINE:BCFTOOLS_NORM (1029_BTOJ-N1-BDNA-1_B23KGCJLT4_1)
Attempt

Content

  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/15/9911f82e78eddc742a469d957b2258/1029_BTOJ-N1-BDNA-1_B23KGCJLT4_1.haplotyper_rf.gt_corrected.vcf.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/85/4a395331d6c955ca68b7a1d8828cf8/1029_BTOJ-N1-BDNA-1_B23KGCJLT4_1.haplotyper_rf.gt_corrected.vcf.gz.tbi
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/40/3982c1c71d5cace211a946d5f5010b/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/40/3982c1c71d5cace211a946d5f5010b/.command.run
==> STAGING COMPLETE (5 inputs)

Lines   total/split/joined/realigned/mismatch_removed/dup_removed/skipped:	30496/0/0/0/0/0/0
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