Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/de/4678714b8e162a7dbf4c6cced3c370/659_bQZ-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4f/d65ed465f175f5538488cd32c35f64/659_bQZ-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/63/b02a7396bf6caf366aae276126d7b9/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b2/7d8adab3c27ed58c6891c46fe9d3df/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b2/7d8adab3c27ed58c6891c46fe9d3df/.command.run
==> STAGING COMPLETE (5 inputs)

[W::hts_idx_load3] The index file is older than the data file: 659_bQZ-T1-TRNA-1_B23WHTKLT4_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% (15559209) splicing reads. 256531 splicing junctions. 184076 known splicing junctions. 72455 novel splicing junctions.
sampling 10% (31118418) splicing reads. 297296 splicing junctions. 193703 known splicing junctions. 103593 novel splicing junctions.
sampling 15% (46677627) splicing reads. 320019 splicing junctions. 198158 known splicing junctions. 121861 novel splicing junctions.
sampling 20% (62236836) splicing reads. 334575 splicing junctions. 200642 known splicing junctions. 133933 novel splicing junctions.
sampling 25% (77796046) splicing reads. 345040 splicing junctions. 202257 known splicing junctions. 142783 novel splicing junctions.
sampling 30% (93355255) splicing reads. 352686 splicing junctions. 203437 known splicing junctions. 149249 novel splicing junctions.
sampling 35% (108914464) splicing reads. 358458 splicing junctions. 204275 known splicing junctions. 154183 novel splicing junctions.
sampling 40% (124473673) splicing reads. 363195 splicing junctions. 204906 known splicing junctions. 158289 novel splicing junctions.
sampling 45% (140032882) splicing reads. 367084 splicing junctions. 205438 known splicing junctions. 161646 novel splicing junctions.
sampling 50% (155592092) splicing reads. 370181 splicing junctions. 205829 known splicing junctions. 164352 novel splicing junctions.
sampling 55% (171151301) splicing reads. 372845 splicing junctions. 206161 known splicing junctions. 166684 novel splicing junctions.
sampling 60% (186710510) splicing reads. 374989 splicing junctions. 206445 known splicing junctions. 168544 novel splicing junctions.
sampling 65% (202269719) splicing reads. 376893 splicing junctions. 206670 known splicing junctions. 170223 novel splicing junctions.
sampling 70% (217828928) splicing reads. 378526 splicing junctions. 206862 known splicing junctions. 171664 novel splicing junctions.
sampling 75% (233388138) splicing reads. 379868 splicing junctions. 207020 known splicing junctions. 172848 novel splicing junctions.
sampling 80% (248947347) splicing reads. 380961 splicing junctions. 207134 known splicing junctions. 173827 novel splicing junctions.
sampling 85% (264506556) splicing reads. 381920 splicing junctions. 207237 known splicing junctions. 174683 novel splicing junctions.
sampling 90% (280065765) splicing reads. 382694 splicing junctions. 207313 known splicing junctions. 175381 novel splicing junctions.
sampling 95% (295624974) splicing reads. 383322 splicing junctions. 207360 known splicing junctions. 175962 novel splicing junctions.
sampling 100% (311184184) splicing reads. 383843 splicing junctions. 207409 known splicing junctions. 176434 novel splicing junctions.
null device 
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