File Info

Filename
.command.log
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bd/d9e7d28f5309885fb4643aa05124d0/.command.log
Size
1.3 KB
Task
NFCORE_RNAFUSION:RNAFUSION:STARFUSION_WORKFLOW:STARFUSION (dna_s777)
Attempt

Content

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  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4e/8b35609c2c094d30c5ced7f038e15f/dna_s777.Chimeric.out.junction
  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/09/d7bd47b57cbc822bc18e0ff0df6072/dna_s777_1.fastp.fastq.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bd/d9e7d28f5309885fb4643aa05124d0/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/09/d7bd47b57cbc822bc18e0ff0df6072/dna_s777_2.fastp.fastq.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bd/d9e7d28f5309885fb4643aa05124d0/.command.run
==> STAGING COMPLETE (6 inputs)

-ctat genome lib [/tmp/nxf.mTv8HuHmnY/ctat_genome_lib_build_dir] validates.
CMD: mkdir -p /tmp/nxf.mTv8HuHmnY/./_starF_checkpoints
CMD: mkdir -p /tmp/nxf.mTv8HuHmnY/./star-fusion.preliminary
-sample contains 184763975 rnaseq fragments
* Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.map_chimeric_reads_to_genes  --genome_lib_dir /tmp/nxf.mTv8HuHmnY/ctat_genome_lib_build_dir  -J /tmp/nxf.mTv8HuHmnY/dna_s777.Chimeric.out.junction  -O /tmp/nxf.mTv8HuHmnY/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt --CPU 4 
-parsing fusion evidence: /tmp/nxf.mTv8HuHmnY/dna_s777.Chimeric.out.junction