.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (1173_NFO_T1_RNA_SLD_01_A23T55JLT4_1)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7c/e31d5abec1d3cdbea6bd01dc11e14a/.command.log
Size: 831 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (1173_NFO_T1_RNA_SLD_01_A23T55JLT4_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/7c/e31d5abec1d3cdbea6bd01dc11e14a/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/63/43f069d429426d7ef019a75b04c9b1/1173_NFO_T1_RNA_SLD_01_A23T55JLT4_1.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7c/e31d5abec1d3cdbea6bd01dc11e14a/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8a/9763433800af14cd26af7859716156/1173_NFO_T1_RNA_SLD_01_A23T55JLT4_1.Aligned.sortedByCoord.out.bam
==> 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