.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (BVT_FFPE_TRNA_utn_04_A23WKFTLT4_2)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/50/82fcaa5d7876d845c56864925f7c5f/.command.log
Size: 827 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (BVT_FFPE_TRNA_utn_04_A23WKFTLT4_2)
Attempt

Content

  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8b/7e5a3f856c2c1c2aa50c727ec1f2a9/BVT_FFPE_TRNA_utn_04_A23WKFTLT4_2.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/50/82fcaa5d7876d845c56864925f7c5f/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/50/82fcaa5d7876d845c56864925f7c5f/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1c/81bdea34342821c6a560102a260623/BVT_FFPE_TRNA_utn_04_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