Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6e/4b17ae02fdbf2d5e5becb85375002c/659_bGc-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/38/f083d5030fbf8e624be68b7d23af47/659_bGc-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e4/64379ab7b68cc2bf11652d87733d60/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/70/010b8a1d1b1f7e297d2336ef50327a/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/70/010b8a1d1b1f7e297d2336ef50327a/.command.run
==> STAGING COMPLETE (5 inputs)

[W::hts_idx_load3] The index file is older than the data file: 659_bGc-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% (5134577) splicing reads. 197795 splicing junctions. 166120 known splicing junctions. 31675 novel splicing junctions.
sampling 10% (10269154) splicing reads. 227001 splicing junctions. 177613 known splicing junctions. 49388 novel splicing junctions.
sampling 15% (15403731) splicing reads. 244461 splicing junctions. 183243 known splicing junctions. 61218 novel splicing junctions.
sampling 20% (20538308) splicing reads. 256705 splicing junctions. 186718 known splicing junctions. 69987 novel splicing junctions.
sampling 25% (25672885) splicing reads. 265766 splicing junctions. 189027 known splicing junctions. 76739 novel splicing junctions.
sampling 30% (30807462) splicing reads. 272736 splicing junctions. 190694 known splicing junctions. 82042 novel splicing junctions.
sampling 35% (35942039) splicing reads. 278145 splicing junctions. 191943 known splicing junctions. 86202 novel splicing junctions.
sampling 40% (41076616) splicing reads. 282530 splicing junctions. 192909 known splicing junctions. 89621 novel splicing junctions.
sampling 45% (46211193) splicing reads. 286093 splicing junctions. 193721 known splicing junctions. 92372 novel splicing junctions.
sampling 50% (51345770) splicing reads. 289133 splicing junctions. 194351 known splicing junctions. 94782 novel splicing junctions.
sampling 55% (56480347) splicing reads. 291657 splicing junctions. 194868 known splicing junctions. 96789 novel splicing junctions.
sampling 60% (61614924) splicing reads. 293783 splicing junctions. 195300 known splicing junctions. 98483 novel splicing junctions.
sampling 65% (66749501) splicing reads. 295600 splicing junctions. 195654 known splicing junctions. 99946 novel splicing junctions.
sampling 70% (71884078) splicing reads. 297171 splicing junctions. 195927 known splicing junctions. 101244 novel splicing junctions.
sampling 75% (77018655) splicing reads. 298415 splicing junctions. 196165 known splicing junctions. 102250 novel splicing junctions.
sampling 80% (82153232) splicing reads. 299491 splicing junctions. 196340 known splicing junctions. 103151 novel splicing junctions.
sampling 85% (87287809) splicing reads. 300408 splicing junctions. 196497 known splicing junctions. 103911 novel splicing junctions.
sampling 90% (92422386) splicing reads. 301118 splicing junctions. 196625 known splicing junctions. 104493 novel splicing junctions.
sampling 95% (97556963) splicing reads. 301675 splicing junctions. 196735 known splicing junctions. 104940 novel splicing junctions.
sampling 100% (102691541) splicing reads. 302052 splicing junctions. 196815 known splicing junctions. 105237 novel splicing junctions.
null device 
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