.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (V4_0001_RNA_0005_23H5VFLT4_s45)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9b/d8b8c08a62046617e910612226ae04/.command.log
Size: 821 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (V4_0001_RNA_0005_23H5VFLT4_s45)
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/9b/d8b8c08a62046617e910612226ae04/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9b/d8b8c08a62046617e910612226ae04/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/19/0b2da31b75931080f61353328fbf20/V4_0001_RNA_0005_23H5VFLT4_s45.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0b/fba8a6a3212fa7aa31c89b8574bc97/V4_0001_RNA_0005_23H5VFLT4_s45.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