.command.log - Workdir - NFCORE_SAREK:SAREK:BAM_VARIANT_CALLING_GERMLINE_ALL:BAM_VARIANT_CALLING_SENTIEON_HAPLOTYPER_RF:VCF_ANNOTATE_INDEL_ENTROPY:SAMTOOLS_MPILEUP (HCC1395_BL;HCC1395_BL)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/dd/60f9897ed6fac968a27e89e6d85e84/.command.log
Size: 789 bytes
Task: NFCORE_SAREK:SAREK:BAM_VARIANT_CALLING_GERMLINE_ALL:BAM_VARIANT_CALLING_SENTIEON_HAPLOTYPER_RF:VCF_ANNOTATE_INDEL_ENTROPY:SAMTOOLS_MPILEUP (HCC1395_BL;HCC1395_BL)
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/dd/60f9897ed6fac968a27e89e6d85e84/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/dd/60f9897ed6fac968a27e89e6d85e84/.command.run
  Downloading: s3://natera-platform-sandbox/pipeline-inputs/test_sarek/end_to_end_regression/output_runs/dev_latest_regression_eks__47a821d--20260221-174447/preprocessing/recalibrated/HCC1395_BL/HCC1395_BL.recal.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/03/94bc940bbf5fa677d84c3968ce6701/HCC1395_BL.bed
==> STAGING COMPLETE (5 inputs)

[mpileup] 1 samples in 1 input files