Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c0/b32f1613cc5cc643875b9ddf6bf94e/659_1q-T1-TRNA-1_B23MHV2LT4_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/77/03cafb423c59e14fcbd4a149a5cb07/659_1q-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/4f/0e2341360963648ebc6574fccd3869/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4f/0e2341360963648ebc6574fccd3869/.command.run
==> STAGING COMPLETE (5 inputs)

[W::hts_idx_load3] The index file is older than the data file: 659_1q-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% (15811381) splicing reads. 261101 splicing junctions. 180071 known splicing junctions. 81030 novel splicing junctions.
sampling 10% (31622763) splicing reads. 323276 splicing junctions. 193157 known splicing junctions. 130119 novel splicing junctions.
sampling 15% (47434144) splicing reads. 368984 splicing junctions. 200469 known splicing junctions. 168515 novel splicing junctions.
sampling 20% (63245526) splicing reads. 405246 splicing junctions. 205299 known splicing junctions. 199947 novel splicing junctions.
sampling 25% (79056907) splicing reads. 435835 splicing junctions. 208938 known splicing junctions. 226897 novel splicing junctions.
sampling 30% (94868289) splicing reads. 461996 splicing junctions. 211698 known splicing junctions. 250298 novel splicing junctions.
sampling 35% (110679670) splicing reads. 484668 splicing junctions. 213921 known splicing junctions. 270747 novel splicing junctions.
sampling 40% (126491052) splicing reads. 504594 splicing junctions. 215718 known splicing junctions. 288876 novel splicing junctions.
sampling 45% (142302433) splicing reads. 522180 splicing junctions. 217247 known splicing junctions. 304933 novel splicing junctions.
sampling 50% (158113815) splicing reads. 537823 splicing junctions. 218559 known splicing junctions. 319264 novel splicing junctions.
sampling 55% (173925197) splicing reads. 551797 splicing junctions. 219709 known splicing junctions. 332088 novel splicing junctions.
sampling 60% (189736578) splicing reads. 564455 splicing junctions. 220692 known splicing junctions. 343763 novel splicing junctions.
sampling 65% (205547960) splicing reads. 575488 splicing junctions. 221526 known splicing junctions. 353962 novel splicing junctions.
sampling 70% (221359341) splicing reads. 585245 splicing junctions. 222233 known splicing junctions. 363012 novel splicing junctions.
sampling 75% (237170723) splicing reads. 593853 splicing junctions. 222845 known splicing junctions. 371008 novel splicing junctions.
sampling 80% (252982104) splicing reads. 601509 splicing junctions. 223381 known splicing junctions. 378128 novel splicing junctions.
sampling 85% (268793486) splicing reads. 608025 splicing junctions. 223783 known splicing junctions. 384242 novel splicing junctions.
sampling 90% (284604867) splicing reads. 613604 splicing junctions. 224173 known splicing junctions. 389431 novel splicing junctions.
sampling 95% (300416249) splicing reads. 618264 splicing junctions. 224498 known splicing junctions. 393766 novel splicing junctions.
sampling 100% (316227631) splicing reads. 621945 splicing junctions. 224722 known splicing junctions. 397223 novel splicing junctions.
null device 
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