Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/63/b02a7396bf6caf366aae276126d7b9/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b4/7cdf78d7e14d3f52e78c36a182416b/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b4/7cdf78d7e14d3f52e78c36a182416b/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b9/426fc4c9e5b1d3bbc25c389f266aaa/659_6i-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c2/457c5c1f7e05f6b759eced2f965783/659_6i-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
==> STAGING COMPLETE (5 inputs)

[W::hts_idx_load3] The index file is older than the data file: 659_6i-T1-TRNA-1_B23WHTKLT4_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% (9344844) splicing reads. 215269 splicing junctions. 172392 known splicing junctions. 42877 novel splicing junctions.
sampling 10% (18689688) splicing reads. 237518 splicing junctions. 179519 known splicing junctions. 57999 novel splicing junctions.
sampling 15% (28034532) splicing reads. 248324 splicing junctions. 182421 known splicing junctions. 65903 novel splicing junctions.
sampling 20% (37379377) splicing reads. 255121 splicing junctions. 184042 known splicing junctions. 71079 novel splicing junctions.
sampling 25% (46724221) splicing reads. 259681 splicing junctions. 185096 known splicing junctions. 74585 novel splicing junctions.
sampling 30% (56069065) splicing reads. 263012 splicing junctions. 185839 known splicing junctions. 77173 novel splicing junctions.
sampling 35% (65413910) splicing reads. 265587 splicing junctions. 186417 known splicing junctions. 79170 novel splicing junctions.
sampling 40% (74758754) splicing reads. 267697 splicing junctions. 186828 known splicing junctions. 80869 novel splicing junctions.
sampling 45% (84103598) splicing reads. 269317 splicing junctions. 187152 known splicing junctions. 82165 novel splicing junctions.
sampling 50% (93448443) splicing reads. 270716 splicing junctions. 187415 known splicing junctions. 83301 novel splicing junctions.
sampling 55% (102793287) splicing reads. 271951 splicing junctions. 187620 known splicing junctions. 84331 novel splicing junctions.
sampling 60% (112138131) splicing reads. 272940 splicing junctions. 187778 known splicing junctions. 85162 novel splicing junctions.
sampling 65% (121482975) splicing reads. 273770 splicing junctions. 187922 known splicing junctions. 85848 novel splicing junctions.
sampling 70% (130827820) splicing reads. 274516 splicing junctions. 188043 known splicing junctions. 86473 novel splicing junctions.
sampling 75% (140172664) splicing reads. 275153 splicing junctions. 188154 known splicing junctions. 86999 novel splicing junctions.
sampling 80% (149517508) splicing reads. 275692 splicing junctions. 188254 known splicing junctions. 87438 novel splicing junctions.
sampling 85% (158862353) splicing reads. 276111 splicing junctions. 188320 known splicing junctions. 87791 novel splicing junctions.
sampling 90% (168207197) splicing reads. 276444 splicing junctions. 188376 known splicing junctions. 88068 novel splicing junctions.
sampling 95% (177552041) splicing reads. 276665 splicing junctions. 188403 known splicing junctions. 88262 novel splicing junctions.
sampling 100% (186896886) splicing reads. 276809 splicing junctions. 188433 known splicing junctions. 88376 novel splicing junctions.
null device 
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