Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/56/13a0da7a90913d31925104f03d721b/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/25/4950eab0fb4a53afe239b444c9a84b/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b7/46684ef348b139d247eeb2ee8b39ae/786-O_FFPE_RNA_0001_B23LG7FLT4_2.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/25/4950eab0fb4a53afe239b444c9a84b/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/79/d4c8b5afe08cd46361b538a8d10336/786-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. 250228 splicing junctions. 170534 known splicing junctions. 79694 novel splicing junctions.
sampling 10% (31768371) splicing reads. 312120 splicing junctions. 183209 known splicing junctions. 128911 novel splicing junctions.
sampling 15% (47652557) splicing reads. 357327 splicing junctions. 190242 known splicing junctions. 167085 novel splicing junctions.
sampling 20% (63536742) splicing reads. 393970 splicing junctions. 195027 known splicing junctions. 198943 novel splicing junctions.
sampling 25% (79420928) splicing reads. 424341 splicing junctions. 198511 known splicing junctions. 225830 novel splicing junctions.
sampling 30% (95305114) splicing reads. 450471 splicing junctions. 201206 known splicing junctions. 249265 novel splicing junctions.
sampling 35% (111189299) splicing reads. 473304 splicing junctions. 203463 known splicing junctions. 269841 novel splicing junctions.
sampling 40% (127073485) splicing reads. 493349 splicing junctions. 205254 known splicing junctions. 288095 novel splicing junctions.
sampling 45% (142957671) splicing reads. 510925 splicing junctions. 206811 known splicing junctions. 304114 novel splicing junctions.
sampling 50% (158841857) splicing reads. 526919 splicing junctions. 208118 known splicing junctions. 318801 novel splicing junctions.
sampling 55% (174726042) splicing reads. 540760 splicing junctions. 209186 known splicing junctions. 331574 novel splicing junctions.
sampling 60% (190610228) splicing reads. 553231 splicing junctions. 210095 known splicing junctions. 343136 novel splicing junctions.
sampling 65% (206494414) splicing reads. 564329 splicing junctions. 210902 known splicing junctions. 353427 novel splicing junctions.
sampling 70% (222378599) splicing reads. 574203 splicing junctions. 211602 known splicing junctions. 362601 novel splicing junctions.
sampling 75% (238262785) splicing reads. 582862 splicing junctions. 212202 known splicing junctions. 370660 novel splicing junctions.
sampling 80% (254146971) splicing reads. 590302 splicing junctions. 212741 known splicing junctions. 377561 novel splicing junctions.
sampling 85% (270031156) splicing reads. 596871 splicing junctions. 213212 known splicing junctions. 383659 novel splicing junctions.
sampling 90% (285915342) splicing reads. 602462 splicing junctions. 213596 known splicing junctions. 388866 novel splicing junctions.
sampling 95% (301799528) splicing reads. 607088 splicing junctions. 213905 known splicing junctions. 393183 novel splicing junctions.
sampling 100% (317683714) splicing reads. 610853 splicing junctions. 214176 known splicing junctions. 396677 novel splicing junctions.
null device 
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