.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (BVT_FFPE_TRNA_bst_06_A23WKFTLT4_3)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/03/b6ca8f12bd90a6430bec1e68cf1cfb/.command.log
Size: 827 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (BVT_FFPE_TRNA_bst_06_A23WKFTLT4_3)
Attempt

Content

  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/57/c1290917fe24844986e8fbfa26759b/BVT_FFPE_TRNA_bst_06_A23WKFTLT4_3.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/03/b6ca8f12bd90a6430bec1e68cf1cfb/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/03/b6ca8f12bd90a6430bec1e68cf1cfb/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e3/b4f0ca5b62a80128b6e92a513bb1fa/BVT_FFPE_TRNA_bst_06_A23WKFTLT4_3.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