.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (aih-tih-sc-41b5f1-R1_A23WJ53LT4_1)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6f/ad5e6f7a2028e5b8ace91ed1987ac0/.command.log
Size: 827 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (aih-tih-sc-41b5f1-R1_A23WJ53LT4_1)
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/6f/ad5e6f7a2028e5b8ace91ed1987ac0/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/3a0ff67a1f5a6a3bea0a66ad2cd32b/aih-tih-sc-41b5f1-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6f/ad5e6f7a2028e5b8ace91ed1987ac0/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3f/80d18f1a743819ba0866dcd01584eb/aih-tih-sc-41b5f1-R1_A23WJ53LT4_1.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