.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (NCI-H2228_FFPE_RNA_0001_B23LG7FLT4_2)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2c/3b3a76af70d35d08b18d5bc4defdb0/.command.log
Size: 833 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (NCI-H2228_FFPE_RNA_0001_B23LG7FLT4_2)
Attempt

Content

  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/07/90eabb1801485fdfae1d7fc4320c64/NCI-H2228_FFPE_RNA_0001_B23LG7FLT4_2.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/2c/3b3a76af70d35d08b18d5bc4defdb0/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2c/3b3a76af70d35d08b18d5bc4defdb0/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/49/1f4793fdb40e46ad8a50a50af8d770/NCI-H2228_FFPE_RNA_0001_B23LG7FLT4_2.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