Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b0/e8de49e5c10f98aa80b5f9edeb8658/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/30/3cf4336b6d6237aae68dc4a0d3f4c1/aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c2/68a0e4fe9b712d598a431d27357208/aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/arriba/cytobands_hg38_GRCh38_v2.4.0.tsv
  Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir/ref_annot.gtf
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b7/7590d9b790e37c23223a6be23cc5e2/aih-tih-sc-242a7d-R1_A23YTGFLT4_1.FusionInspector.fusions.tsv
  Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/arriba/protein_domains_hg38_GRCh38_v2.4.0.gff3
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b0/e8de49e5c10f98aa80b5f9edeb8658/.command.run
==> STAGING COMPLETE (8 inputs)

Loading annotation
Read 3041209 records
Warning in parseGtfAttribute("exon_number", exons) :
  Failed to parse 'exon_number' attribute of 8 record(s).
Loading protein domains
Read 134356 records
Drawing fusion #1: DIS3L2:PTMA
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #2: STX16:NPEPL1
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #3: STX16:NPEPL1
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #4: EIF2AK1:HDAC9
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #5: GTF2IRD1:NCF1
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #6: GTF2IRD1:NCF1
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #7: EIF2AK1:DGKB
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #8: TLK2:AC240565.1
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #9: MLLT1:RANBP3
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-242a7d-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
Done