Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9b/2786f65bef8eb6f7e88315f2ae16d3/SkinN_FFPE_L02_RNA_01_B23LG7FLT4_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/9b/2786f65bef8eb6f7e88315f2ae16d3/SkinN_FFPE_L02_RNA_01_B23LG7FLT4_1_1.fastp.fastq.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/06/8aedf118c8a1dd9afd2ee8b8f8bac0/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/06/8aedf118c8a1dd9afd2ee8b8f8bac0/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/77/79b3f58b4dd235217623b237fa79d9/SkinN_FFPE_L02_RNA_01_B23LG7FLT4_1.Chimeric.out.junction
==> STAGING COMPLETE (6 inputs)

-ctat genome lib [/tmp/nxf.mB3Rh5PgQJ/ctat_genome_lib_build_dir] validates.
CMD: mkdir -p /tmp/nxf.mB3Rh5PgQJ/./_starF_checkpoints
CMD: mkdir -p /tmp/nxf.mB3Rh5PgQJ/./star-fusion.preliminary
-sample contains 73627138 rnaseq fragments
* Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.map_chimeric_reads_to_genes  --genome_lib_dir /tmp/nxf.mB3Rh5PgQJ/ctat_genome_lib_build_dir  -J /tmp/nxf.mB3Rh5PgQJ/SkinN_FFPE_L02_RNA_01_B23LG7FLT4_1.Chimeric.out.junction  -O /tmp/nxf.mB3Rh5PgQJ/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt --CPU 4 
-parsing fusion evidence: /tmp/nxf.mB3Rh5PgQJ/SkinN_FFPE_L02_RNA_01_B23LG7FLT4_1.Chimeric.out.junction