.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (PX_FFPE_gb_TRNA_nat_02_A23MVY2LT4_1)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/87/d2dbaba6af1fce3b6db4e820bf1505/.command.log
Size: 831 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (PX_FFPE_gb_TRNA_nat_02_A23MVY2LT4_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/87/d2dbaba6af1fce3b6db4e820bf1505/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a3/ff07ab7879c2e94305ef4c558462c8/PX_FFPE_gb_TRNA_nat_02_A23MVY2LT4_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/87/d2dbaba6af1fce3b6db4e820bf1505/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/14/c1c60c16ac60c264ba129b4f678e6f/PX_FFPE_gb_TRNA_nat_02_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