.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (659_bCu-T1-TRNA-1_A23MVY2LT4_1)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cc/0a7fe19843059c9140812c1a29754b/.command.log
Size: 821 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (659_bCu-T1-TRNA-1_A23MVY2LT4_1)
Attempt

Content

  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0d/08673ee12ee6a0211e830547e14205/659_bCu-T1-TRNA-1_A23MVY2LT4_1.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/cc/0a7fe19843059c9140812c1a29754b/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cc/0a7fe19843059c9140812c1a29754b/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e4/4d11b394d48aa0fc84d79c8c8c6711/659_bCu-T1-TRNA-1_A23MVY2LT4_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