.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (tih_rna_sample_00473_B23WHTKLT4_2)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b8/b50c1376fbf64279c52fa5ce5a882c/.command.log
Size: 827 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (tih_rna_sample_00473_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/b8/b50c1376fbf64279c52fa5ce5a882c/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ef/11d766c87d40374a9bf6bb6d557a68/tih_rna_sample_00473_B23WHTKLT4_2.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/99/a10b7fabc46a6e028f4a4ac8d5aa76/tih_rna_sample_00473_B23WHTKLT4_2.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b8/b50c1376fbf64279c52fa5ce5a882c/.command.run
==> 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