Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/80/467a172a351744d0022a2b489fe3f4/22Rv1_FFPE_RNA_0001_B23LG7FLT4_3.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/56/13a0da7a90913d31925104f03d721b/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/be/6cb587d4917662a35b517e6364669f/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/be/6cb587d4917662a35b517e6364669f/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/85/6f9ac063266d64cee505e81c8f3c33/22Rv1_FFPE_RNA_0001_B23LG7FLT4_3.Aligned.sortedByCoord.out.bam.bai
==> STAGING COMPLETE (5 inputs)

[W::hts_idx_load3] The index file is older than the data file: 22Rv1_FFPE_RNA_0001_B23LG7FLT4_3.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% (339428) splicing reads. 79049 splicing junctions. 75692 known splicing junctions. 3357 novel splicing junctions.
sampling 10% (678856) splicing reads. 98042 splicing junctions. 92886 known splicing junctions. 5156 novel splicing junctions.
sampling 15% (1018284) splicing reads. 107381 splicing junctions. 100960 known splicing junctions. 6421 novel splicing junctions.
sampling 20% (1357713) splicing reads. 112969 splicing junctions. 105602 known splicing junctions. 7367 novel splicing junctions.
sampling 25% (1697141) splicing reads. 116806 splicing junctions. 108700 known splicing junctions. 8106 novel splicing junctions.
sampling 30% (2036569) splicing reads. 119564 splicing junctions. 110874 known splicing junctions. 8690 novel splicing junctions.
sampling 35% (2375997) splicing reads. 121652 splicing junctions. 112451 known splicing junctions. 9201 novel splicing junctions.
sampling 40% (2715426) splicing reads. 123314 splicing junctions. 113673 known splicing junctions. 9641 novel splicing junctions.
sampling 45% (3054854) splicing reads. 124588 splicing junctions. 114611 known splicing junctions. 9977 novel splicing junctions.
sampling 50% (3394282) splicing reads. 125674 splicing junctions. 115372 known splicing junctions. 10302 novel splicing junctions.
sampling 55% (3733710) splicing reads. 126510 splicing junctions. 115988 known splicing junctions. 10522 novel splicing junctions.
sampling 60% (4073139) splicing reads. 127227 splicing junctions. 116492 known splicing junctions. 10735 novel splicing junctions.
sampling 65% (4412567) splicing reads. 127839 splicing junctions. 116909 known splicing junctions. 10930 novel splicing junctions.
sampling 70% (4751995) splicing reads. 128363 splicing junctions. 117267 known splicing junctions. 11096 novel splicing junctions.
sampling 75% (5091423) splicing reads. 128818 splicing junctions. 117574 known splicing junctions. 11244 novel splicing junctions.
sampling 80% (5430852) splicing reads. 129169 splicing junctions. 117808 known splicing junctions. 11361 novel splicing junctions.
sampling 85% (5770280) splicing reads. 129409 splicing junctions. 117963 known splicing junctions. 11446 novel splicing junctions.
sampling 90% (6109708) splicing reads. 129576 splicing junctions. 118068 known splicing junctions. 11508 novel splicing junctions.
sampling 95% (6449136) splicing reads. 129681 splicing junctions. 118140 known splicing junctions. 11541 novel splicing junctions.
sampling 100% (6788565) splicing reads. 129729 splicing junctions. 118168 known splicing junctions. 11561 novel splicing junctions.
null device 
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