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/1a/142c34d2f8c19c6dfcc73f3719a850/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1a/142c34d2f8c19c6dfcc73f3719a850/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4a/19a2adb1e26fc72e356badf0995a93/1173_FWA_T1_RNA_SLD_01_A23T55JLT4_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/64/df971a5a57f255d39b33c785d80bbb/1173_FWA_T1_RNA_SLD_01_A23T55JLT4_1.Aligned.sortedByCoord.out.bam.bai
==> STAGING COMPLETE (5 inputs)

[W::hts_idx_load3] The index file is older than the data file: 1173_FWA_T1_RNA_SLD_01_A23T55JLT4_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% (13786903) splicing reads. 251076 splicing junctions. 183149 known splicing junctions. 67927 novel splicing junctions.
sampling 10% (27573806) splicing reads. 304979 splicing junctions. 196047 known splicing junctions. 108932 novel splicing junctions.
sampling 15% (41360709) splicing reads. 343046 splicing junctions. 203032 known splicing junctions. 140014 novel splicing junctions.
sampling 20% (55147613) splicing reads. 372694 splicing junctions. 207556 known splicing junctions. 165138 novel splicing junctions.
sampling 25% (68934516) splicing reads. 396568 splicing junctions. 210946 known splicing junctions. 185622 novel splicing junctions.
sampling 30% (82721419) splicing reads. 416521 splicing junctions. 213486 known splicing junctions. 203035 novel splicing junctions.
sampling 35% (96508323) splicing reads. 433703 splicing junctions. 215536 known splicing junctions. 218167 novel splicing junctions.
sampling 40% (110295226) splicing reads. 448309 splicing junctions. 217092 known splicing junctions. 231217 novel splicing junctions.
sampling 45% (124082129) splicing reads. 460759 splicing junctions. 218391 known splicing junctions. 242368 novel splicing junctions.
sampling 50% (137869033) splicing reads. 471849 splicing junctions. 219516 known splicing junctions. 252333 novel splicing junctions.
sampling 55% (151655936) splicing reads. 481242 splicing junctions. 220446 known splicing junctions. 260796 novel splicing junctions.
sampling 60% (165442839) splicing reads. 489392 splicing junctions. 221262 known splicing junctions. 268130 novel splicing junctions.
sampling 65% (179229742) splicing reads. 496712 splicing junctions. 221979 known splicing junctions. 274733 novel splicing junctions.
sampling 70% (193016646) splicing reads. 502948 splicing junctions. 222573 known splicing junctions. 280375 novel splicing junctions.
sampling 75% (206803549) splicing reads. 508425 splicing junctions. 223051 known splicing junctions. 285374 novel splicing junctions.
sampling 80% (220590452) splicing reads. 512907 splicing junctions. 223447 known splicing junctions. 289460 novel splicing junctions.
sampling 85% (234377356) splicing reads. 516781 splicing junctions. 223794 known splicing junctions. 292987 novel splicing junctions.
sampling 90% (248164259) splicing reads. 519786 splicing junctions. 224071 known splicing junctions. 295715 novel splicing junctions.
sampling 95% (261951162) splicing reads. 522055 splicing junctions. 224274 known splicing junctions. 297781 novel splicing junctions.
sampling 100% (275738066) splicing reads. 523711 splicing junctions. 224435 known splicing junctions. 299276 novel splicing junctions.
null device 
          1