.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (BVT_FFPE_TRNA_utn_07_A23WKFTLT4_3)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/59/95eb3f0a666230b7b667ae0fb2f1b5/.command.log
Size: 827 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (BVT_FFPE_TRNA_utn_07_A23WKFTLT4_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/59/95eb3f0a666230b7b667ae0fb2f1b5/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3b/78198e51037a5f2923e13118a09762/BVT_FFPE_TRNA_utn_07_A23WKFTLT4_3.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/59/95eb3f0a666230b7b667ae0fb2f1b5/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c7/8b6f8e331884be94ce2a5ba4d7b906/BVT_FFPE_TRNA_utn_07_A23WKFTLT4_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