Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c0/033958a18674a5615a5a96ba89cc07/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8d/4dfbb07a68b02cd80367deaf1d566c/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8d/4dfbb07a68b02cd80367deaf1d566c/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/55/903d31aaa433cced5c511733d56801/rna_s1200_S21.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/82/44a7784f722eb7eb67eb932cbc86e1/rna_s1200_S21.Aligned.sortedByCoord.out.bam.bai
==> STAGING COMPLETE (5 inputs)

[W::hts_idx_load3] The index file is older than the data file: rna_s1200_S21.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% (586985) splicing reads. 95531 splicing junctions. 90917 known splicing junctions. 4614 novel splicing junctions.
sampling 10% (1173971) splicing reads. 114547 splicing junctions. 106140 known splicing junctions. 8407 novel splicing junctions.
sampling 15% (1760957) splicing reads. 125583 splicing junctions. 113756 known splicing junctions. 11827 novel splicing junctions.
sampling 20% (2347942) splicing reads. 133383 splicing junctions. 118657 known splicing junctions. 14726 novel splicing junctions.
sampling 25% (2934928) splicing reads. 139873 splicing junctions. 122399 known splicing junctions. 17474 novel splicing junctions.
sampling 30% (3521914) splicing reads. 145082 splicing junctions. 125213 known splicing junctions. 19869 novel splicing junctions.
sampling 35% (4108899) splicing reads. 149688 splicing junctions. 127597 known splicing junctions. 22091 novel splicing junctions.
sampling 40% (4695885) splicing reads. 153729 splicing junctions. 129503 known splicing junctions. 24226 novel splicing junctions.
sampling 45% (5282871) splicing reads. 157247 splicing junctions. 131222 known splicing junctions. 26025 novel splicing junctions.
sampling 50% (5869857) splicing reads. 160401 splicing junctions. 132679 known splicing junctions. 27722 novel splicing junctions.
sampling 55% (6456842) splicing reads. 163300 splicing junctions. 133968 known splicing junctions. 29332 novel splicing junctions.
sampling 60% (7043828) splicing reads. 165876 splicing junctions. 135092 known splicing junctions. 30784 novel splicing junctions.
sampling 65% (7630814) splicing reads. 168254 splicing junctions. 136111 known splicing junctions. 32143 novel splicing junctions.
sampling 70% (8217799) splicing reads. 170380 splicing junctions. 136977 known splicing junctions. 33403 novel splicing junctions.
sampling 75% (8804785) splicing reads. 172310 splicing junctions. 137742 known splicing junctions. 34568 novel splicing junctions.
sampling 80% (9391771) splicing reads. 174044 splicing junctions. 138427 known splicing junctions. 35617 novel splicing junctions.
sampling 85% (9978756) splicing reads. 175638 splicing junctions. 139064 known splicing junctions. 36574 novel splicing junctions.
sampling 90% (10565742) splicing reads. 177108 splicing junctions. 139645 known splicing junctions. 37463 novel splicing junctions.
sampling 95% (11152728) splicing reads. 178438 splicing junctions. 140126 known splicing junctions. 38312 novel splicing junctions.
sampling 100% (11739714) splicing reads. 179686 splicing junctions. 140590 known splicing junctions. 39096 novel splicing junctions.
null device 
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