.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (EndoN_FFPE_L02_RNA_01_B23LG7FLT4_2)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bf/0e009b9ba5225e6e882de7f83b4ba3/.command.log
Size: 829 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (EndoN_FFPE_L02_RNA_01_B23LG7FLT4_2)
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/bf/0e009b9ba5225e6e882de7f83b4ba3/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bf/0e009b9ba5225e6e882de7f83b4ba3/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bd/0a6e772a4fba4b6bd51e187c41688f/EndoN_FFPE_L02_RNA_01_B23LG7FLT4_2.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c8/159fa032d09b22016209400bf3d6ad/EndoN_FFPE_L02_RNA_01_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