.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (659_cAd-T1-TRNA-1_A23MVY2LT4_2)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b5/92c00bd65c82b0606ddc825521a3e5/.command.log
Size: 821 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (659_cAd-T1-TRNA-1_A23MVY2LT4_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/b5/92c00bd65c82b0606ddc825521a3e5/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/47/5eb52abcefe9b328f1732d3fdde46a/659_cAd-T1-TRNA-1_A23MVY2LT4_2.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b5/92c00bd65c82b0606ddc825521a3e5/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/dc/92482f34132f19d9942348ae2e12ff/659_cAd-T1-TRNA-1_A23MVY2LT4_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