Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/27/f0db693207c4ea37134ed5d798efb1/aih-tih-sc-027d27-R1_B23WHYVLT4_1_2.fastp.fastq.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/af/ff6f471a2567bd706601567e3178a2/aih-tih-sc-027d27-R1_B23WHYVLT4_1.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/38/816be6e22b563c997279911284afab/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/38/816be6e22b563c997279911284afab/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/27/f0db693207c4ea37134ed5d798efb1/aih-tih-sc-027d27-R1_B23WHYVLT4_1_1.fastp.fastq.gz
==> STAGING COMPLETE (6 inputs)

-ctat genome lib [/tmp/nxf.fvjWfWspZm/ctat_genome_lib_build_dir] validates.
CMD: mkdir -p /tmp/nxf.fvjWfWspZm/./_starF_checkpoints
CMD: mkdir -p /tmp/nxf.fvjWfWspZm/./star-fusion.preliminary
-sample contains 259634172 rnaseq fragments
* Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.map_chimeric_reads_to_genes  --genome_lib_dir /tmp/nxf.fvjWfWspZm/ctat_genome_lib_build_dir  -J /tmp/nxf.fvjWfWspZm/aih-tih-sc-027d27-R1_B23WHYVLT4_1.Chimeric.out.junction  -O /tmp/nxf.fvjWfWspZm/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt --CPU 4 
-parsing fusion evidence: /tmp/nxf.fvjWfWspZm/aih-tih-sc-027d27-R1_B23WHYVLT4_1.Chimeric.out.junction
-building interval tree based on /tmp/nxf.fvjWfWspZm/ctat_genome_lib_build_dir/ref_annot.gtf.mini.sortu
-done building interval tree (0.07 min).
-mapping reads to genes

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[2480000], rate=42033.90/min -building interval tree based on /tmp/nxf.fvjWfWspZm/ctat_genome_lib_build_dir/ref_annot.gtf.mini.sortu
-done building interval tree (0.08 min).
-mapping reads to genes

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[2480000], rate=41610.74/min -building interval tree based on /tmp/nxf.fvjWfWspZm/ctat_genome_lib_build_dir/ref_annot.gtf.mini.sortu
-done building interval tree (0.07 min).
-mapping reads to genes

[10000], rate=42857.14/min 
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