Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/25/508d78e264609b343e2e4f5162da7d/659_bNS-T1-TRNA-1_B23MHV2LT4_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/63/e259f3e2b41b84b4bd5b11f0a1285c/659_bNS-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/36/0f61234fb7d2b5044a9ed9313defa4/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/36/0f61234fb7d2b5044a9ed9313defa4/.command.run
==> STAGING COMPLETE (5 inputs)

[W::hts_idx_load3] The index file is older than the data file: 659_bNS-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% (16903009) splicing reads. 273831 splicing junctions. 191957 known splicing junctions. 81874 novel splicing junctions.
sampling 10% (33806018) splicing reads. 339374 splicing junctions. 205376 known splicing junctions. 133998 novel splicing junctions.
sampling 15% (50709027) splicing reads. 387978 splicing junctions. 212542 known splicing junctions. 175436 novel splicing junctions.
sampling 20% (67612037) splicing reads. 427292 splicing junctions. 217563 known splicing junctions. 209729 novel splicing junctions.
sampling 25% (84515046) splicing reads. 460654 splicing junctions. 221036 known splicing junctions. 239618 novel splicing junctions.
sampling 30% (101418055) splicing reads. 489155 splicing junctions. 223767 known splicing junctions. 265388 novel splicing junctions.
sampling 35% (118321065) splicing reads. 513812 splicing junctions. 225868 known splicing junctions. 287944 novel splicing junctions.
sampling 40% (135224074) splicing reads. 535857 splicing junctions. 227650 known splicing junctions. 308207 novel splicing junctions.
sampling 45% (152127083) splicing reads. 555222 splicing junctions. 229147 known splicing junctions. 326075 novel splicing junctions.
sampling 50% (169030093) splicing reads. 572548 splicing junctions. 230404 known splicing junctions. 342144 novel splicing junctions.
sampling 55% (185933102) splicing reads. 587849 splicing junctions. 231447 known splicing junctions. 356402 novel splicing junctions.
sampling 60% (202836111) splicing reads. 601588 splicing junctions. 232341 known splicing junctions. 369247 novel splicing junctions.
sampling 65% (219739120) splicing reads. 613855 splicing junctions. 233137 known splicing junctions. 380718 novel splicing junctions.
sampling 70% (236642130) splicing reads. 624797 splicing junctions. 233823 known splicing junctions. 390974 novel splicing junctions.
sampling 75% (253545139) splicing reads. 634431 splicing junctions. 234411 known splicing junctions. 400020 novel splicing junctions.
sampling 80% (270448148) splicing reads. 643017 splicing junctions. 234927 known splicing junctions. 408090 novel splicing junctions.
sampling 85% (287351158) splicing reads. 650447 splicing junctions. 235316 known splicing junctions. 415131 novel splicing junctions.
sampling 90% (304254167) splicing reads. 656763 splicing junctions. 235724 known splicing junctions. 421039 novel splicing junctions.
sampling 95% (321157176) splicing reads. 661977 splicing junctions. 236018 known splicing junctions. 425959 novel splicing junctions.
sampling 100% (338060186) splicing reads. 666248 splicing junctions. 236283 known splicing junctions. 429965 novel splicing junctions.
null device 
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