.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (V4_0001_RNA_0005_23H5VFLT4_s25)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c4/470311ddb5b814fb2348c0fe6b5cf4/.command.log
Size: 821 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (V4_0001_RNA_0005_23H5VFLT4_s25)
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/c4/470311ddb5b814fb2348c0fe6b5cf4/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c4/470311ddb5b814fb2348c0fe6b5cf4/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fd/9194acd52747f5f8576d067259c3fa/V4_0001_RNA_0005_23H5VFLT4_s25.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/20/cc664ed38cd8a6fba581233f7aa409/V4_0001_RNA_0005_23H5VFLT4_s25.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