.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (PX_FFPE_pan_TRNA_nat_02_A23MVY2LT4_1)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2b/82e7e60639007d72ae202eb8165080/.command.log
Size: 833 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (PX_FFPE_pan_TRNA_nat_02_A23MVY2LT4_1)
Attempt

Content

  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/2b/82e7e60639007d72ae202eb8165080/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2b/82e7e60639007d72ae202eb8165080/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/67/5dae4ac96d85986b29f8af27cae7c4/PX_FFPE_pan_TRNA_nat_02_A23MVY2LT4_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3d/7225d12a5ebdf60d078059cf8111ac/PX_FFPE_pan_TRNA_nat_02_A23MVY2LT4_1.Aligned.sortedByCoord.out.bam.bai
==> 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