Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b5/82d3b82ba79d285fb61633dd0fb778/A673_FFPE_RNA_0001_B23LG7FLT4_3.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ce/f789d11d3dfd58975ba1c1dd754edc/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c2/0fba37edaa9ebafd012a2437570c9c/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c2/0fba37edaa9ebafd012a2437570c9c/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5f/3d013309291690d8fb86b67138cdef/A673_FFPE_RNA_0001_B23LG7FLT4_3.Aligned.sortedByCoord.out.bam.bai
==> STAGING COMPLETE (5 inputs)

null device 
          1 
null device 
          1 
total = 304295769
[W::hts_idx_load3] The index file is older than the data file: A673_FFPE_RNA_0001_B23LG7FLT4_3.Aligned.sortedByCoord.out.bam.bai
Reading reference bed file:  ref_annot.bed  ...  Done
Load BAM file ...  Done

===================================================================
Total splicing  Events:	304295769
Known Splicing Events:	301913323
Partial Novel Splicing Events:	1609906
Novel Splicing Events:	686219
Filtered Splicing Events:	86321

Total splicing  Junctions:	580463
Known Splicing Junctions:	274274
Partial Novel Splicing Junctions:	172764
Novel Splicing Junctions:	133425

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