.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (tih_rna_sample_00146_B23WHTKLT4_2)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b9/ace44fe5155c837c02989a8dc7c729/.command.log
Size: 827 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (tih_rna_sample_00146_B23WHTKLT4_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/b9/ace44fe5155c837c02989a8dc7c729/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b9/ace44fe5155c837c02989a8dc7c729/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f3/92f0661e95754261fc1f20d768e522/tih_rna_sample_00146_B23WHTKLT4_2.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/15/e836127d592638b190d75255ec8a5c/tih_rna_sample_00146_B23WHTKLT4_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