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/11/7fc619ffc8387a4ecd619ccd4720b4/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/57/0e875cb50de5e926b2780a973f1280/786-O_FFPE_RNA_0001_B23LG7FLT4_2.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/11/7fc619ffc8387a4ecd619ccd4720b4/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2e/0a564da64801430f766c7668398f5b/786-O_FFPE_RNA_0001_B23LG7FLT4_2.Aligned.sortedByCoord.out.bam
==> STAGING COMPLETE (5 inputs)

[W::hts_idx_load3] The index file is older than the data file: 786-O_FFPE_RNA_0001_B23LG7FLT4_2.Aligned.sortedByCoord.out.bam.bai
reading reference bed file:  ref_annot.bed  ...  Done! Total 386135 known splicing junctions.
Load BAM file ...  Done
shuffling alignments ... Done
sampling 5% (15884185) splicing reads. 250120 splicing junctions. 170465 known splicing junctions. 79655 novel splicing junctions.
sampling 10% (31768371) splicing reads. 311654 splicing junctions. 182994 known splicing junctions. 128660 novel splicing junctions.
sampling 15% (47652557) splicing reads. 357059 splicing junctions. 190017 known splicing junctions. 167042 novel splicing junctions.
sampling 20% (63536742) splicing reads. 393683 splicing junctions. 194822 known splicing junctions. 198861 novel splicing junctions.
sampling 25% (79420928) splicing reads. 424192 splicing junctions. 198399 known splicing junctions. 225793 novel splicing junctions.
sampling 30% (95305114) splicing reads. 450506 splicing junctions. 201083 known splicing junctions. 249423 novel splicing junctions.
sampling 35% (111189299) splicing reads. 473148 splicing junctions. 203332 known splicing junctions. 269816 novel splicing junctions.
sampling 40% (127073485) splicing reads. 493148 splicing junctions. 205144 known splicing junctions. 288004 novel splicing junctions.
sampling 45% (142957671) splicing reads. 510880 splicing junctions. 206705 known splicing junctions. 304175 novel splicing junctions.
sampling 50% (158841857) splicing reads. 526602 splicing junctions. 208005 known splicing junctions. 318597 novel splicing junctions.
sampling 55% (174726042) splicing reads. 540490 splicing junctions. 209137 known splicing junctions. 331353 novel splicing junctions.
sampling 60% (190610228) splicing reads. 553031 splicing junctions. 210064 known splicing junctions. 342967 novel splicing junctions.
sampling 65% (206494414) splicing reads. 564277 splicing junctions. 210873 known splicing junctions. 353404 novel splicing junctions.
sampling 70% (222378599) splicing reads. 574155 splicing junctions. 211618 known splicing junctions. 362537 novel splicing junctions.
sampling 75% (238262785) splicing reads. 582838 splicing junctions. 212218 known splicing junctions. 370620 novel splicing junctions.
sampling 80% (254146971) splicing reads. 590331 splicing junctions. 212760 known splicing junctions. 377571 novel splicing junctions.
sampling 85% (270031156) splicing reads. 596860 splicing junctions. 213215 known splicing junctions. 383645 novel splicing junctions.
sampling 90% (285915342) splicing reads. 602490 splicing junctions. 213595 known splicing junctions. 388895 novel splicing junctions.
sampling 95% (301799528) splicing reads. 607123 splicing junctions. 213911 known splicing junctions. 393212 novel splicing junctions.
sampling 100% (317683714) splicing reads. 610853 splicing junctions. 214176 known splicing junctions. 396677 novel splicing junctions.
null device 
          1