.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (FFPE_V4_0002_RNA_0001_A23WKFTLT4_1)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/05/2d18797ee369f07ae724d267c9afef/.command.log
Size: 829 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (FFPE_V4_0002_RNA_0001_A23WKFTLT4_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/05/2d18797ee369f07ae724d267c9afef/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/05/2d18797ee369f07ae724d267c9afef/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/72/b38867e1aff4bf8113cd03d548e0c4/FFPE_V4_0002_RNA_0001_A23WKFTLT4_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/88/ba99ac4a0350ff65b81bf1ab8ecaf7/FFPE_V4_0002_RNA_0001_A23WKFTLT4_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