.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (FFPE_HD789_01_RNA_13_A23MVY2LT4_1)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1d/3a667a9a1dc2003064fcedc8211969/.command.log
Size: 827 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (FFPE_HD789_01_RNA_13_A23MVY2LT4_1)
Attempt

Content

  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7a/ac10c554c9f99b35fd9055db7ebf9d/FFPE_HD789_01_RNA_13_A23MVY2LT4_1.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f0/9541499dff295f093fcec238da6a78/FFPE_HD789_01_RNA_13_A23MVY2LT4_1.Aligned.sortedByCoord.out.bam
  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/1d/3a667a9a1dc2003064fcedc8211969/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1d/3a667a9a1dc2003064fcedc8211969/.command.run
==> 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