.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (GM24385_0001_RNA_0001_23H5VFLT4_s40)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/34/9041dbafc11f60f3aa9e97511fb4ec/.command.log
Size: 831 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (GM24385_0001_RNA_0001_23H5VFLT4_s40)
Attempt

Content

  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/82/f8df3fd8be85d652f52eb0a049ce6d/GM24385_0001_RNA_0001_23H5VFLT4_s40.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/34/9041dbafc11f60f3aa9e97511fb4ec/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/34/9041dbafc11f60f3aa9e97511fb4ec/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8a/c5cc515c34737032947922f164dbb6/GM24385_0001_RNA_0001_23H5VFLT4_s40.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