Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/33/bf9d5023d1dbda636e538cae24b759/659_bhK-T1-TRNA-1_B23MHV2LT4_1.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4a/0243baf59143a09530ee8911e13e43/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/39/8835742037a9241f6c2ee8dfad65bd/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/39/8835742037a9241f6c2ee8dfad65bd/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/da/5f0b4e94c40683ce2acca17a73c04d/659_bhK-T1-TRNA-1_B23MHV2LT4_1.Aligned.sortedByCoord.out.bam
==> STAGING COMPLETE (5 inputs)

[W::hts_idx_load3] The index file is older than the data file: 659_bhK-T1-TRNA-1_B23MHV2LT4_1.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% (17912332) splicing reads. 249261 splicing junctions. 181707 known splicing junctions. 67554 novel splicing junctions.
sampling 10% (35824665) splicing reads. 304655 splicing junctions. 195031 known splicing junctions. 109624 novel splicing junctions.
sampling 15% (53736997) splicing reads. 345190 splicing junctions. 202440 known splicing junctions. 142750 novel splicing junctions.
sampling 20% (71649330) splicing reads. 377832 splicing junctions. 207408 known splicing junctions. 170424 novel splicing junctions.
sampling 25% (89561663) splicing reads. 405387 splicing junctions. 211063 known splicing junctions. 194324 novel splicing junctions.
sampling 30% (107473995) splicing reads. 428870 splicing junctions. 213881 known splicing junctions. 214989 novel splicing junctions.
sampling 35% (125386328) splicing reads. 449425 splicing junctions. 216140 known splicing junctions. 233285 novel splicing junctions.
sampling 40% (143298660) splicing reads. 467515 splicing junctions. 218053 known splicing junctions. 249462 novel splicing junctions.
sampling 45% (161210993) splicing reads. 483670 splicing junctions. 219627 known splicing junctions. 264043 novel splicing junctions.
sampling 50% (179123326) splicing reads. 497964 splicing junctions. 220993 known splicing junctions. 276971 novel splicing junctions.
sampling 55% (197035658) splicing reads. 510679 splicing junctions. 222134 known splicing junctions. 288545 novel splicing junctions.
sampling 60% (214947991) splicing reads. 522235 splicing junctions. 223136 known splicing junctions. 299099 novel splicing junctions.
sampling 65% (232860323) splicing reads. 532459 splicing junctions. 224013 known splicing junctions. 308446 novel splicing junctions.
sampling 70% (250772656) splicing reads. 541494 splicing junctions. 224759 known splicing junctions. 316735 novel splicing junctions.
sampling 75% (268684989) splicing reads. 549549 splicing junctions. 225457 known splicing junctions. 324092 novel splicing junctions.
sampling 80% (286597321) splicing reads. 556672 splicing junctions. 226009 known splicing junctions. 330663 novel splicing junctions.
sampling 85% (304509654) splicing reads. 562915 splicing junctions. 226497 known splicing junctions. 336418 novel splicing junctions.
sampling 90% (322421986) splicing reads. 568319 splicing junctions. 226933 known splicing junctions. 341386 novel splicing junctions.
sampling 95% (340334319) splicing reads. 572763 splicing junctions. 227283 known splicing junctions. 345480 novel splicing junctions.
sampling 100% (358246652) splicing reads. 576373 splicing junctions. 227574 known splicing junctions. 348799 novel splicing junctions.
null device 
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