.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (aih-tih-sc-5b8b4a-R1_A23YTGFLT4_1)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c7/82826de78a5e407e46d9c93e207f77/.command.log
Size: 827 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (aih-tih-sc-5b8b4a-R1_A23YTGFLT4_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/c7/82826de78a5e407e46d9c93e207f77/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c7/fd14625e0757b95902b77a776c2c42/aih-tih-sc-5b8b4a-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c7/82826de78a5e407e46d9c93e207f77/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ed/3f207b8487d879ed1b515ee85e4eb2/aih-tih-sc-5b8b4a-R1_A23YTGFLT4_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