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/66/db0ab457b8bbc19e5b9afdc6dababc/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b7/f198a43e0b3b36a809705502818a7f/659_bhK-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/66/db0ab457b8bbc19e5b9afdc6dababc/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/70/4472770aae09656741932a093fa6a1/659_bhK-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam
==> STAGING COMPLETE (5 inputs)

[W::hts_idx_load3] The index file is older than the data file: 659_bhK-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% (19118384) splicing reads. 248243 splicing junctions. 181133 known splicing junctions. 67110 novel splicing junctions.
sampling 10% (38236768) splicing reads. 292748 splicing junctions. 192011 known splicing junctions. 100737 novel splicing junctions.
sampling 15% (57355153) splicing reads. 320335 splicing junctions. 197409 known splicing junctions. 122926 novel splicing junctions.
sampling 20% (76473537) splicing reads. 339415 splicing junctions. 200614 known splicing junctions. 138801 novel splicing junctions.
sampling 25% (95591922) splicing reads. 353771 splicing junctions. 202913 known splicing junctions. 150858 novel splicing junctions.
sampling 30% (114710306) splicing reads. 364647 splicing junctions. 204555 known splicing junctions. 160092 novel splicing junctions.
sampling 35% (133828691) splicing reads. 373354 splicing junctions. 205788 known splicing junctions. 167566 novel splicing junctions.
sampling 40% (152947075) splicing reads. 380466 splicing junctions. 206770 known splicing junctions. 173696 novel splicing junctions.
sampling 45% (172065460) splicing reads. 386320 splicing junctions. 207538 known splicing junctions. 178782 novel splicing junctions.
sampling 50% (191183844) splicing reads. 391142 splicing junctions. 208165 known splicing junctions. 182977 novel splicing junctions.
sampling 55% (210302228) splicing reads. 395242 splicing junctions. 208665 known splicing junctions. 186577 novel splicing junctions.
sampling 60% (229420613) splicing reads. 398751 splicing junctions. 209094 known splicing junctions. 189657 novel splicing junctions.
sampling 65% (248538997) splicing reads. 401720 splicing junctions. 209464 known splicing junctions. 192256 novel splicing junctions.
sampling 70% (267657382) splicing reads. 404326 splicing junctions. 209772 known splicing junctions. 194554 novel splicing junctions.
sampling 75% (286775766) splicing reads. 406478 splicing junctions. 210026 known splicing junctions. 196452 novel splicing junctions.
sampling 80% (305894151) splicing reads. 408391 splicing junctions. 210237 known splicing junctions. 198154 novel splicing junctions.
sampling 85% (325012535) splicing reads. 410015 splicing junctions. 210420 known splicing junctions. 199595 novel splicing junctions.
sampling 90% (344130920) splicing reads. 411319 splicing junctions. 210574 known splicing junctions. 200745 novel splicing junctions.
sampling 95% (363249304) splicing reads. 412430 splicing junctions. 210713 known splicing junctions. 201717 novel splicing junctions.
sampling 100% (382367689) splicing reads. 413271 splicing junctions. 210830 known splicing junctions. 202441 novel splicing junctions.
null device 
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