.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (RT4_FFPE_RNA_0001_B23LG7FLT4_3)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6a/544ea5d996ef440e7a5b077e9de08e/.command.log
Size: 821 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (RT4_FFPE_RNA_0001_B23LG7FLT4_3)
Attempt

Content

  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/22/b79e8b464a9b6577a50bb46314c3ce/RT4_FFPE_RNA_0001_B23LG7FLT4_3.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/6a/544ea5d996ef440e7a5b077e9de08e/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6a/544ea5d996ef440e7a5b077e9de08e/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0f/ec8732ea0ed0b9762962840c526ca4/RT4_FFPE_RNA_0001_B23LG7FLT4_3.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