.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (OvarianN_FFPE_L03_RNA_01_B23LG7FLT4_2)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a3/7dae3f1462391fa7ca72c757b37fc6/.command.log
Size: 835 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (OvarianN_FFPE_L03_RNA_01_B23LG7FLT4_2)
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/a3/7dae3f1462391fa7ca72c757b37fc6/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a3/7dae3f1462391fa7ca72c757b37fc6/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/37/7cfce03111ac8e3e98ca6b3f545e68/OvarianN_FFPE_L03_RNA_01_B23LG7FLT4_2.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ef/3b7f45ba2b342f7f7d5c8d323cd4ed/OvarianN_FFPE_L03_RNA_01_B23LG7FLT4_2.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