.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (GM24385_0001_RNA_0001_23H5VFLT4_s16)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/87/dbbf26965ed46f315fa70c55e19062/.command.log
Size: 831 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (GM24385_0001_RNA_0001_23H5VFLT4_s16)
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/87/dbbf26965ed46f315fa70c55e19062/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/87/dbbf26965ed46f315fa70c55e19062/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ad/5fbc51a805066aeb16dbc3810c27aa/GM24385_0001_RNA_0001_23H5VFLT4_s16.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a4/778a96368c2b43fc71599e00d4c271/GM24385_0001_RNA_0001_23H5VFLT4_s16.Aligned.sortedByCoord.out.bam.bai
==> 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