.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (659_cRa-T1-TRNA-1_B23MHV2LT4_1)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/06/2b08c098bc7d73805e834a4efc18f3/.command.log
Size: 821 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (659_cRa-T1-TRNA-1_B23MHV2LT4_1)
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/06/2b08c098bc7d73805e834a4efc18f3/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/44/325d54b523ff6a14adc3e4cbf36a80/659_cRa-T1-TRNA-1_B23MHV2LT4_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/06/2b08c098bc7d73805e834a4efc18f3/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/36/cf2b5fe6cf68a9035ab976eb7470cc/659_cRa-T1-TRNA-1_B23MHV2LT4_1.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