.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (1173_NWE_T1_RNA_SLD_01_A23T55JLT4_1)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/35/edbe5ddbd9d9f115940b1897dbeca4/.command.log
Size: 831 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (1173_NWE_T1_RNA_SLD_01_A23T55JLT4_1)
Attempt

Content

  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3a/749404dcc92b09ae79684642c5f60a/1173_NWE_T1_RNA_SLD_01_A23T55JLT4_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/35/edbe5ddbd9d9f115940b1897dbeca4/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/35/edbe5ddbd9d9f115940b1897dbeca4/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6a/b75b2a1deee2a2bbb937514e6a4b27/1173_NWE_T1_RNA_SLD_01_A23T55JLT4_1.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