.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (BVT_FFPE_TRNA_bst_01_02_A23WKFTLT4_2)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/07f224c38130d8508c22a84e348291/.command.log
Size: 833 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (BVT_FFPE_TRNA_bst_01_02_A23WKFTLT4_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/8e/07f224c38130d8508c22a84e348291/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/07f224c38130d8508c22a84e348291/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f0/e7fe4b48f817cfc84e2177bbff47fd/BVT_FFPE_TRNA_bst_01_02_A23WKFTLT4_2.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/de/f758e671ab576f3b93b2d94f1ed304/BVT_FFPE_TRNA_bst_01_02_A23WKFTLT4_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