Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ff/5d6fc876c16ba284d60eee2cd75675/1173_CRL_T1_RNA_SLD_01_A23T55JLT4_2.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0b/ca4d20e41802bc8c33ea65523f74cb/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/80/71af50a1e6a3346602d714a58de2ae/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/17/2f8b76f8eef9c6ab2c47588011c787/1173_CRL_T1_RNA_SLD_01_A23T55JLT4_2.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/80/71af50a1e6a3346602d714a58de2ae/.command.run
==> STAGING COMPLETE (5 inputs)

[W::hts_idx_load3] The index file is older than the data file: 1173_CRL_T1_RNA_SLD_01_A23T55JLT4_2.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% (14104844) splicing reads. 255134 splicing junctions. 184056 known splicing junctions. 71078 novel splicing junctions.
sampling 10% (28209688) splicing reads. 311435 splicing junctions. 197228 known splicing junctions. 114207 novel splicing junctions.
sampling 15% (42314532) splicing reads. 351680 splicing junctions. 204399 known splicing junctions. 147281 novel splicing junctions.
sampling 20% (56419377) splicing reads. 383672 splicing junctions. 209262 known splicing junctions. 174410 novel splicing junctions.
sampling 25% (70524221) splicing reads. 410107 splicing junctions. 212761 known splicing junctions. 197346 novel splicing junctions.
sampling 30% (84629065) splicing reads. 432155 splicing junctions. 215423 known splicing junctions. 216732 novel splicing junctions.
sampling 35% (98733909) splicing reads. 451578 splicing junctions. 217533 known splicing junctions. 234045 novel splicing junctions.
sampling 40% (112838754) splicing reads. 468301 splicing junctions. 219240 known splicing junctions. 249061 novel splicing junctions.
sampling 45% (126943598) splicing reads. 482982 splicing junctions. 220699 known splicing junctions. 262283 novel splicing junctions.
sampling 50% (141048442) splicing reads. 495765 splicing junctions. 221862 known splicing junctions. 273903 novel splicing junctions.
sampling 55% (155153286) splicing reads. 507204 splicing junctions. 222927 known splicing junctions. 284277 novel splicing junctions.
sampling 60% (169258131) splicing reads. 517238 splicing junctions. 223805 known splicing junctions. 293433 novel splicing junctions.
sampling 65% (183362975) splicing reads. 525947 splicing junctions. 224618 known splicing junctions. 301329 novel splicing junctions.
sampling 70% (197467819) splicing reads. 533627 splicing junctions. 225259 known splicing junctions. 308368 novel splicing junctions.
sampling 75% (211572663) splicing reads. 540304 splicing junctions. 225799 known splicing junctions. 314505 novel splicing junctions.
sampling 80% (225677508) splicing reads. 545876 splicing junctions. 226252 known splicing junctions. 319624 novel splicing junctions.
sampling 85% (239782352) splicing reads. 550654 splicing junctions. 226633 known splicing junctions. 324021 novel splicing junctions.
sampling 90% (253887196) splicing reads. 554582 splicing junctions. 226969 known splicing junctions. 327613 novel splicing junctions.
sampling 95% (267992040) splicing reads. 557586 splicing junctions. 227240 known splicing junctions. 330346 novel splicing junctions.
sampling 100% (282096885) splicing reads. 559664 splicing junctions. 227450 known splicing junctions. 332214 novel splicing junctions.
null device 
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