.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (rna_s1221_S42)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4e/031f508cc36990658ef22e026f527a/.command.log
Size: 787 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (rna_s1221_S42)
Attempt

Content

  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0d/a08acf255317d4582ce245333d6e77/rna_s1221_S42.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir/ref_genome.fa
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4e/031f508cc36990658ef22e026f527a/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4e/031f508cc36990658ef22e026f527a/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/77/4d40ad7538894f3daef343612a34d4/rna_s1221_S42.Aligned.sortedByCoord.out.bam
==> STAGING COMPLETE (5 inputs)

ls: *.sam: No such file or directory
ls: *.csi: No such file or directory
ls: *.crai: No such file or directory