Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a4/0352010e5727c976f7d16ce88a08da/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0b/46039edc432b8d750b285b04c05e4b/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/53/c9857bc90d280975f623e48b793586/aih-tih-sc-2a8dd7-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0b/46039edc432b8d750b285b04c05e4b/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cc/50ca75aacd54dde06930954d831e3e/aih-tih-sc-2a8dd7-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam
==> STAGING COMPLETE (5 inputs)

[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-2a8dd7-R1_A23WJ53LT4_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% (14693626) splicing reads. 246284 splicing junctions. 173680 known splicing junctions. 72604 novel splicing junctions.
sampling 10% (29387252) splicing reads. 301052 splicing junctions. 185729 known splicing junctions. 115323 novel splicing junctions.
sampling 15% (44080879) splicing reads. 339423 splicing junctions. 192249 known splicing junctions. 147174 novel splicing junctions.
sampling 20% (58774505) splicing reads. 368889 splicing junctions. 196555 known splicing junctions. 172334 novel splicing junctions.
sampling 25% (73468132) splicing reads. 392646 splicing junctions. 199677 known splicing junctions. 192969 novel splicing junctions.
sampling 30% (88161758) splicing reads. 412573 splicing junctions. 202108 known splicing junctions. 210465 novel splicing junctions.
sampling 35% (102855384) splicing reads. 429181 splicing junctions. 203982 known splicing junctions. 225199 novel splicing junctions.
sampling 40% (117549011) splicing reads. 443317 splicing junctions. 205454 known splicing junctions. 237863 novel splicing junctions.
sampling 45% (132242637) splicing reads. 455314 splicing junctions. 206617 known splicing junctions. 248697 novel splicing junctions.
sampling 50% (146936264) splicing reads. 465682 splicing junctions. 207591 known splicing junctions. 258091 novel splicing junctions.
sampling 55% (161629890) splicing reads. 474724 splicing junctions. 208475 known splicing junctions. 266249 novel splicing junctions.
sampling 60% (176323516) splicing reads. 482644 splicing junctions. 209185 known splicing junctions. 273459 novel splicing junctions.
sampling 65% (191017143) splicing reads. 489564 splicing junctions. 209818 known splicing junctions. 279746 novel splicing junctions.
sampling 70% (205710769) splicing reads. 495564 splicing junctions. 210343 known splicing junctions. 285221 novel splicing junctions.
sampling 75% (220404396) splicing reads. 500694 splicing junctions. 210781 known splicing junctions. 289913 novel splicing junctions.
sampling 80% (235098022) splicing reads. 505205 splicing junctions. 211152 known splicing junctions. 294053 novel splicing junctions.
sampling 85% (249791648) splicing reads. 508957 splicing junctions. 211490 known splicing junctions. 297467 novel splicing junctions.
sampling 90% (264485275) splicing reads. 511982 splicing junctions. 211734 known splicing junctions. 300248 novel splicing junctions.
sampling 95% (279178901) splicing reads. 514464 splicing junctions. 211935 known splicing junctions. 302529 novel splicing junctions.
sampling 100% (293872528) splicing reads. 516329 splicing junctions. 212088 known splicing junctions. 304241 novel splicing junctions.
null device 
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