Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6e/8af83348c10fab5a0aa13fa2175d18/22Rv1_FFPE_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/78/b60441933c2fdf3a739addc4538f9d/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/78/b60441933c2fdf3a739addc4538f9d/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b3/fabb87851698c222da39b3d189853e/22Rv1_FFPE_RNA_0001_B23LG7FLT4_1.Aligned.sortedByCoord.out.bam.bai
==> STAGING COMPLETE (5 inputs)

null device 
          1 
null device 
          1 
total = 6827351
[W::hts_idx_load3] The index file is older than the data file: 22Rv1_FFPE_RNA_0001_B23LG7FLT4_1.Aligned.sortedByCoord.out.bam.bai
Reading reference bed file:  ref_annot.bed  ...  Done
Load BAM file ...  Done

===================================================================
Total splicing  Events:	6827351
Known Splicing Events:	6699179
Partial Novel Splicing Events:	45856
Novel Splicing Events:	77277
Filtered Splicing Events:	5039

Total splicing  Junctions:	127628
Known Splicing Junctions:	118013
Partial Novel Splicing Junctions:	4437
Novel Splicing Junctions:	5178

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