.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (FFPE_HD789_02_RNA_0015_B23MHV2LT4_1)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/13/f4b0429b99bfc2100df9e3fe6dad26/.command.log
Size: 831 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (FFPE_HD789_02_RNA_0015_B23MHV2LT4_1)
Attempt

Content

  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e4/f923b7d0477d3b3224d6743a8423ca/FFPE_HD789_02_RNA_0015_B23MHV2LT4_1.Aligned.sortedByCoord.out.bam.bai
  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/13/f4b0429b99bfc2100df9e3fe6dad26/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/13/f4b0429b99bfc2100df9e3fe6dad26/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6d/e937969fa28045989dc6ed308c1651/FFPE_HD789_02_RNA_0015_B23MHV2LT4_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