[W::hts_idx_load3] The index file is older than the data file: BreastNP_FFPE_L03_RNA_01_B23LG7FLT4_1.Aligned.sortedByCoord.out.bam.bai
Reading reference bed file:  ref_annot.bed  ...  Done
Load BAM file ...  Done

===================================================================
Total splicing  Events:	17152373
Known Splicing Events:	16784245
Partial Novel Splicing Events:	75308
Novel Splicing Events:	275803
Filtered Splicing Events:	17017

Total splicing  Junctions:	100995
Known Splicing Junctions:	95240
Partial Novel Splicing Junctions:	2123
Novel Splicing Junctions:	3632

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