.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:STARFUSION_WORKFLOW:STARFUSION (dna_s759)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b5/c99eb3d46975672ba2d4f17bffe40e/.command.log
Size: 1.3 KB
Task: NFCORE_RNAFUSION:RNAFUSION:STARFUSION_WORKFLOW:STARFUSION (dna_s759)
Attempt

Content

  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/18/6fdacf0224a0893a736978a64bd783/dna_s759_1.fastp.fastq.gz
  Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b5/c99eb3d46975672ba2d4f17bffe40e/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b5/c99eb3d46975672ba2d4f17bffe40e/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/18/6fdacf0224a0893a736978a64bd783/dna_s759_2.fastp.fastq.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b8/0da8e3cf24966024b21db76ece6004/dna_s759.Chimeric.out.junction
==> STAGING COMPLETE (6 inputs)

-ctat genome lib [/tmp/nxf.uH8CihH3pn/ctat_genome_lib_build_dir] validates.
CMD: mkdir -p /tmp/nxf.uH8CihH3pn/./_starF_checkpoints
CMD: mkdir -p /tmp/nxf.uH8CihH3pn/./star-fusion.preliminary
-sample contains 167083415 rnaseq fragments
* Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.map_chimeric_reads_to_genes  --genome_lib_dir /tmp/nxf.uH8CihH3pn/ctat_genome_lib_build_dir  -J /tmp/nxf.uH8CihH3pn/dna_s759.Chimeric.out.junction  -O /tmp/nxf.uH8CihH3pn/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt --CPU 4 
-parsing fusion evidence: /tmp/nxf.uH8CihH3pn/dna_s759.Chimeric.out.junction