.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (tih_rna_sample_00163_B23WHTKLT4_1)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/10/fddf9e4a5c6846f224daf70c6e0b04/.command.log
Size: 827 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (tih_rna_sample_00163_B23WHTKLT4_1)
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/10/fddf9e4a5c6846f224daf70c6e0b04/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/10/fddf9e4a5c6846f224daf70c6e0b04/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c1/2774f41b02e2a12497f7fed3127309/tih_rna_sample_00163_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/85/42b80babc6d43b8f5240be86f1af70/tih_rna_sample_00163_B23WHTKLT4_1.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