Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8f/31c39c8f066eda72f7e73d301df784/BreastNB_FFPE_L01_RNA_01_B23LG7FLT4_1.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/56/13a0da7a90913d31925104f03d721b/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/10/565f74158ae75cdcc9122127ec5d5e/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a3/ebb454649b9ac609ab407d41fec8e2/BreastNB_FFPE_L01_RNA_01_B23LG7FLT4_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/10/565f74158ae75cdcc9122127ec5d5e/.command.run
==> STAGING COMPLETE (5 inputs)

null device 
          1 
null device 
          1 
total = 22651915
[W::hts_idx_load3] The index file is older than the data file: BreastNB_FFPE_L01_RNA_01_B23LG7FLT4_1.Aligned.sortedByCoord.out.bam.bai
Reading reference bed file:  ref_annot.bed  ...  Done
Load BAM file ...  Done

===================================================================
Total splicing  Events:	22651915
Known Splicing Events:	22373594
Partial Novel Splicing Events:	136541
Novel Splicing Events:	125022
Filtered Splicing Events:	16758

Total splicing  Junctions:	126082
Known Splicing Junctions:	114330
Partial Novel Splicing Junctions:	4116
Novel Splicing Junctions:	7636

===================================================================
Create BED file ...
Create Interact file ...