.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (FFPE_V4_0002_RNA_0001_B23MVV7LT4_1)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cc/da3b58fe5c69f4c766ac934e8571dc/.command.log
Size: 829 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (FFPE_V4_0002_RNA_0001_B23MVV7LT4_1)
Attempt

Content

  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/95/7d689d02309ab4996dad6f89d912a0/FFPE_V4_0002_RNA_0001_B23MVV7LT4_1.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/cc/da3b58fe5c69f4c766ac934e8571dc/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cc/da3b58fe5c69f4c766ac934e8571dc/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/09/14a19fb5f4ba677d8c6d6065a18b8f/FFPE_V4_0002_RNA_0001_B23MVV7LT4_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