.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (1173_J3R_T1_RNA_SLD_01_A23T55JLT4_1)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/99/55b883b0036bbe9180c69c2c774d64/.command.log
Size: 831 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (1173_J3R_T1_RNA_SLD_01_A23T55JLT4_1)
Attempt

Content

  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ad/a4e75ed89709eedd79b430f560b57d/1173_J3R_T1_RNA_SLD_01_A23T55JLT4_1.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/99/55b883b0036bbe9180c69c2c774d64/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/99/55b883b0036bbe9180c69c2c774d64/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/75/86add9b17813b45e84d18e5cb10cd6/1173_J3R_T1_RNA_SLD_01_A23T55JLT4_1.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