.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (659_djb-T1-TRNA-1_A23MVY2LT4_1)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e4/66e6b541e6f53146cc207136e3d8db/.command.log
Size: 821 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (659_djb-T1-TRNA-1_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/e4/66e6b541e6f53146cc207136e3d8db/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/54/92f21db05e0d64837856a2eb773d11/659_djb-T1-TRNA-1_A23MVY2LT4_1.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e4/66e6b541e6f53146cc207136e3d8db/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5c/cba2b3a9e7bd8962e27e12678ebcc4/659_djb-T1-TRNA-1_A23MVY2LT4_1.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