Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f8/e88fd7fc7045f143707b3a331bf8bc/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/098a38e4080ddec66a55ebda25b912/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/098a38e4080ddec66a55ebda25b912/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f9/0e201f0255b51ccc6c52864a1766dd/FFPE_HD789_01_RNA_13_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8b/b20793133ae036a6ff9d89481df6f1/FFPE_HD789_01_RNA_13_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
==> STAGING COMPLETE (5 inputs)

[W::hts_idx_load3] The index file is older than the data file: FFPE_HD789_01_RNA_13_B23MVV7LT4_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% (19012857) splicing reads. 284751 splicing junctions. 187572 known splicing junctions. 97179 novel splicing junctions.
sampling 10% (38025714) splicing reads. 353171 splicing junctions. 200763 known splicing junctions. 152408 novel splicing junctions.
sampling 15% (57038571) splicing reads. 401563 splicing junctions. 207751 known splicing junctions. 193812 novel splicing junctions.
sampling 20% (76051428) splicing reads. 440071 splicing junctions. 212396 known splicing junctions. 227675 novel splicing junctions.
sampling 25% (95064285) splicing reads. 471432 splicing junctions. 215800 known splicing junctions. 255632 novel splicing junctions.
sampling 30% (114077142) splicing reads. 498038 splicing junctions. 218395 known splicing junctions. 279643 novel splicing junctions.
sampling 35% (133089998) splicing reads. 521192 splicing junctions. 220515 known splicing junctions. 300677 novel splicing junctions.
sampling 40% (152102856) splicing reads. 541156 splicing junctions. 222144 known splicing junctions. 319012 novel splicing junctions.
sampling 45% (171115713) splicing reads. 558662 splicing junctions. 223515 known splicing junctions. 335147 novel splicing junctions.
sampling 50% (190128570) splicing reads. 574101 splicing junctions. 224709 known splicing junctions. 349392 novel splicing junctions.
sampling 55% (209141427) splicing reads. 588022 splicing junctions. 225739 known splicing junctions. 362283 novel splicing junctions.
sampling 60% (228154284) splicing reads. 600526 splicing junctions. 226616 known splicing junctions. 373910 novel splicing junctions.
sampling 65% (247167141) splicing reads. 611605 splicing junctions. 227365 known splicing junctions. 384240 novel splicing junctions.
sampling 70% (266179997) splicing reads. 621484 splicing junctions. 228045 known splicing junctions. 393439 novel splicing junctions.
sampling 75% (285192855) splicing reads. 630381 splicing junctions. 228610 known splicing junctions. 401771 novel splicing junctions.
sampling 80% (304205712) splicing reads. 638342 splicing junctions. 229168 known splicing junctions. 409174 novel splicing junctions.
sampling 85% (323218569) splicing reads. 645178 splicing junctions. 229596 known splicing junctions. 415582 novel splicing junctions.
sampling 90% (342231426) splicing reads. 651121 splicing junctions. 229989 known splicing junctions. 421132 novel splicing junctions.
sampling 95% (361244283) splicing reads. 656466 splicing junctions. 230330 known splicing junctions. 426136 novel splicing junctions.
sampling 100% (380257140) splicing reads. 660985 splicing junctions. 230603 known splicing junctions. 430382 novel splicing junctions.
null device 
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