.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (PX_FFPE_bld_TRNA_nat_02_A23MVY2LT4_1)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/de/a2a8d1a314e6ca3918786a265b0c6c/.command.log
Size: 833 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (PX_FFPE_bld_TRNA_nat_02_A23MVY2LT4_1)
Attempt

Content

  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d0/ccebab75d7e089188d14cf3ad92873/PX_FFPE_bld_TRNA_nat_02_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/de/a2a8d1a314e6ca3918786a265b0c6c/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/de/a2a8d1a314e6ca3918786a265b0c6c/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/89/e7cfab2ea8e2789f9cb3fef77f7cbe/PX_FFPE_bld_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