.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (BVT_FFPE_TRNA_utn_02_A23WKFTLT4_2)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/84/25fcb92a6bf26861054a03220c4d57/.command.log
Size: 827 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (BVT_FFPE_TRNA_utn_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/84/25fcb92a6bf26861054a03220c4d57/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/28/a05e4a8f76fbde6886a7e76e59926c/BVT_FFPE_TRNA_utn_02_A23WKFTLT4_2.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/84/25fcb92a6bf26861054a03220c4d57/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/12/a3dfef8177e03fc8880ba2fecf7cd7/BVT_FFPE_TRNA_utn_02_A23WKFTLT4_2.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