Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d0/db0390e137cf3062481f869034d2c8/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e0/7edf3217cdde0bc633ea8557786482/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5d/656f8edff1e3674d630472541a32b6/aih-tih-sc-28eb14-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c2/acc01efe0f9c856ea684e6d2eedd41/aih-tih-sc-28eb14-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e0/7edf3217cdde0bc633ea8557786482/.command.run
==> STAGING COMPLETE (5 inputs)

[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-28eb14-R1_A23YTGFLT4_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% (16383657) splicing reads. 265387 splicing junctions. 187038 known splicing junctions. 78349 novel splicing junctions.
sampling 10% (32767314) splicing reads. 326119 splicing junctions. 200027 known splicing junctions. 126092 novel splicing junctions.
sampling 15% (49150971) splicing reads. 370171 splicing junctions. 207423 known splicing junctions. 162748 novel splicing junctions.
sampling 20% (65534628) splicing reads. 405552 splicing junctions. 212257 known splicing junctions. 193295 novel splicing junctions.
sampling 25% (81918285) splicing reads. 435010 splicing junctions. 215776 known splicing junctions. 219234 novel splicing junctions.
sampling 30% (98301942) splicing reads. 460258 splicing junctions. 218497 known splicing junctions. 241761 novel splicing junctions.
sampling 35% (114685599) splicing reads. 482168 splicing junctions. 220675 known splicing junctions. 261493 novel splicing junctions.
sampling 40% (131069256) splicing reads. 501638 splicing junctions. 222486 known splicing junctions. 279152 novel splicing junctions.
sampling 45% (147452913) splicing reads. 518693 splicing junctions. 223953 known splicing junctions. 294740 novel splicing junctions.
sampling 50% (163836570) splicing reads. 533927 splicing junctions. 225209 known splicing junctions. 308718 novel splicing junctions.
sampling 55% (180220227) splicing reads. 547697 splicing junctions. 226351 known splicing junctions. 321346 novel splicing junctions.
sampling 60% (196603884) splicing reads. 559722 splicing junctions. 227273 known splicing junctions. 332449 novel splicing junctions.
sampling 65% (212987541) splicing reads. 570282 splicing junctions. 228051 known splicing junctions. 342231 novel splicing junctions.
sampling 70% (229371198) splicing reads. 579692 splicing junctions. 228705 known splicing junctions. 350987 novel splicing junctions.
sampling 75% (245754855) splicing reads. 588023 splicing junctions. 229325 known splicing junctions. 358698 novel splicing junctions.
sampling 80% (262138512) splicing reads. 595524 splicing junctions. 229829 known splicing junctions. 365695 novel splicing junctions.
sampling 85% (278522169) splicing reads. 601987 splicing junctions. 230292 known splicing junctions. 371695 novel splicing junctions.
sampling 90% (294905826) splicing reads. 607533 splicing junctions. 230653 known splicing junctions. 376880 novel splicing junctions.
sampling 95% (311289483) splicing reads. 612118 splicing junctions. 230942 known splicing junctions. 381176 novel splicing junctions.
sampling 100% (327673140) splicing reads. 615961 splicing junctions. 231193 known splicing junctions. 384768 novel splicing junctions.
null device 
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