.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (KG1_FFPE_01_RNA_0003_B23LG7FLT4_1)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d9/d23ddfa281fc3c718b0cbcfd69898a/.command.log
Size: 827 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (KG1_FFPE_01_RNA_0003_B23LG7FLT4_1)
Attempt

Content

  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a9/30a178c5f71ac74d02401d30e02736/KG1_FFPE_01_RNA_0003_B23LG7FLT4_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f8/b7e706e9aa1f886f1c40b8df8702e2/KG1_FFPE_01_RNA_0003_B23LG7FLT4_1.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/d9/d23ddfa281fc3c718b0cbcfd69898a/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d9/d23ddfa281fc3c718b0cbcfd69898a/.command.run
==> 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