.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (SkinN_FFPE_L09_RNA_01_B23LG7FLT4_1)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/df/c0e5098d6b69071892b39ecb38e9e8/.command.log
Size: 829 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (SkinN_FFPE_L09_RNA_01_B23LG7FLT4_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/df/c0e5098d6b69071892b39ecb38e9e8/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/df/c0e5098d6b69071892b39ecb38e9e8/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/11/6a6841fce8fea2344ff1577a07a0ad/SkinN_FFPE_L09_RNA_01_B23LG7FLT4_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4e/6dae185a4cb141b18526b5561c1893/SkinN_FFPE_L09_RNA_01_B23LG7FLT4_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