Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f9/9b7e7b2ef1237e3e9faba4ba632e7a/A549_FFPE_01_RNA_0001_B23LG7FLT4_1.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/9a/07bae38521169d93c48921c517f357/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9a/07bae38521169d93c48921c517f357/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2d/1b6839c2f11fb05d655d02c6eec5b1/A549_FFPE_01_RNA_0001_B23LG7FLT4_1.Aligned.sortedByCoord.out.bam.bai
==> STAGING COMPLETE (5 inputs)

null device 
          1 
null device 
          1 
total = 581
[W::hts_idx_load3] The index file is older than the data file: A549_FFPE_01_RNA_0001_B23LG7FLT4_1.Aligned.sortedByCoord.out.bam.bai
Reading reference bed file:  ref_annot.bed  ...  Done
Load BAM file ...  Done

===================================================================
Total splicing  Events:	581
Known Splicing Events:	36
Partial Novel Splicing Events:	1
Novel Splicing Events:	544
Filtered Splicing Events:	0

Total splicing  Junctions:	98
Known Splicing Junctions:	16
Partial Novel Splicing Junctions:	1
Novel Splicing Junctions:	81

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