Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e3/15a37bcdddf2e663bcdced70124d23/aih-tih-sc-d5506e-R1_B23WHYVLT4_1_1.fastp.fastq.gz
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e3/15a37bcdddf2e663bcdced70124d23/aih-tih-sc-d5506e-R1_B23WHYVLT4_1_2.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/25/f3e83bca52392b662d6244e7622c15/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/25/f3e83bca52392b662d6244e7622c15/.command.run
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6a/44c8f8f6a1d2dfc9a31df0f7e9e813/aih-tih-sc-d5506e-R1_B23WHYVLT4_1.Chimeric.out.junction
==> STAGING COMPLETE (6 inputs)
-ctat genome lib [/tmp/nxf.MbS5gfaAKI/ctat_genome_lib_build_dir] validates.
CMD: mkdir -p /tmp/nxf.MbS5gfaAKI/./_starF_checkpoints
CMD: mkdir -p /tmp/nxf.MbS5gfaAKI/./star-fusion.preliminary
-sample contains 256257728 rnaseq fragments
* Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.map_chimeric_reads_to_genes --genome_lib_dir /tmp/nxf.MbS5gfaAKI/ctat_genome_lib_build_dir -J /tmp/nxf.MbS5gfaAKI/aih-tih-sc-d5506e-R1_B23WHYVLT4_1.Chimeric.out.junction -O /tmp/nxf.MbS5gfaAKI/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt --CPU 4
-parsing fusion evidence: /tmp/nxf.MbS5gfaAKI/aih-tih-sc-d5506e-R1_B23WHYVLT4_1.Chimeric.out.junction
-building interval tree based on /tmp/nxf.MbS5gfaAKI/ctat_genome_lib_build_dir/ref_annot.gtf.mini.sortu
-done building interval tree (0.10 min).
-mapping reads to genes
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[2290000], rate=45227.12/min -building interval tree based on /tmp/nxf.MbS5gfaAKI/ctat_genome_lib_build_dir/ref_annot.gtf.mini.sortu
-done building interval tree (0.12 min).
-mapping reads to genes
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[2290000], rate=44595.91/min -building interval tree based on /tmp/nxf.MbS5gfaAKI/ctat_genome_lib_build_dir/ref_annot.gtf.mini.sortu
-done building interval tree (0.10 min).
-mapping reads to genes
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