.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (KG1_FFPE_01_RNA_0003_B23LG7FLT4_2)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/68/61640db582891eda1505abd44769a0/.command.log
Size: 827 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (KG1_FFPE_01_RNA_0003_B23LG7FLT4_2)
Attempt

Content

  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fa/bf65593fc92c8cc54fce55b133bd0c/KG1_FFPE_01_RNA_0003_B23LG7FLT4_2.Aligned.sortedByCoord.out.bam
  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/68/61640db582891eda1505abd44769a0/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/68/61640db582891eda1505abd44769a0/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1e/2c2bb10a0d1f6d002625d2dc00d142/KG1_FFPE_01_RNA_0003_B23LG7FLT4_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