.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (BT-20_FFPE_RNA_0001_B23LG7FLT4_3)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ca/cfc92d96311eaee946a39052b5f10d/.command.log
Size: 825 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (BT-20_FFPE_RNA_0001_B23LG7FLT4_3)
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/ca/cfc92d96311eaee946a39052b5f10d/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ca/cfc92d96311eaee946a39052b5f10d/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2b/edd4ab6b335ff90bd8bbbd80a43ca1/BT-20_FFPE_RNA_0001_B23LG7FLT4_3.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ea/7ae0417ca64cd752e041b073380633/BT-20_FFPE_RNA_0001_B23LG7FLT4_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