Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f5/62dc79c5ff4d5d7a4b796df9427e23/rna_s1221_S42.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3f/7edb91db9f93ce5e9c93cc4ac692e8/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/47/b70b1d19c5651b3b9d750ac1a3f5b6/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/47/b70b1d19c5651b3b9d750ac1a3f5b6/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/73/ecab1d0cf3a4a6e8d39607a94864b2/rna_s1221_S42.Aligned.sortedByCoord.out.bam
==> STAGING COMPLETE (5 inputs)

[W::hts_idx_load3] The index file is older than the data file: rna_s1221_S42.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% (560912) splicing reads. 94112 splicing junctions. 89715 known splicing junctions. 4397 novel splicing junctions.
sampling 10% (1121824) splicing reads. 112917 splicing junctions. 104909 known splicing junctions. 8008 novel splicing junctions.
sampling 15% (1682736) splicing reads. 123747 splicing junctions. 112566 known splicing junctions. 11181 novel splicing junctions.
sampling 20% (2243649) splicing reads. 131432 splicing junctions. 117504 known splicing junctions. 13928 novel splicing junctions.
sampling 25% (2804561) splicing reads. 137544 splicing junctions. 121083 known splicing junctions. 16461 novel splicing junctions.
sampling 30% (3365473) splicing reads. 142669 splicing junctions. 123928 known splicing junctions. 18741 novel splicing junctions.
sampling 35% (3926385) splicing reads. 147134 splicing junctions. 126264 known splicing junctions. 20870 novel splicing junctions.
sampling 40% (4487298) splicing reads. 150981 splicing junctions. 128160 known splicing junctions. 22821 novel splicing junctions.
sampling 45% (5048210) splicing reads. 154369 splicing junctions. 129804 known splicing junctions. 24565 novel splicing junctions.
sampling 50% (5609122) splicing reads. 157479 splicing junctions. 131252 known splicing junctions. 26227 novel splicing junctions.
sampling 55% (6170034) splicing reads. 160296 splicing junctions. 132494 known splicing junctions. 27802 novel splicing junctions.
sampling 60% (6730947) splicing reads. 162816 splicing junctions. 133603 known splicing junctions. 29213 novel splicing junctions.
sampling 65% (7291859) splicing reads. 165109 splicing junctions. 134595 known splicing junctions. 30514 novel splicing junctions.
sampling 70% (7852771) splicing reads. 167056 splicing junctions. 135385 known splicing junctions. 31671 novel splicing junctions.
sampling 75% (8413683) splicing reads. 168939 splicing junctions. 136198 known splicing junctions. 32741 novel splicing junctions.
sampling 80% (8974596) splicing reads. 170677 splicing junctions. 136906 known splicing junctions. 33771 novel splicing junctions.
sampling 85% (9535508) splicing reads. 172256 splicing junctions. 137528 known splicing junctions. 34728 novel splicing junctions.
sampling 90% (10096420) splicing reads. 173738 splicing junctions. 138096 known splicing junctions. 35642 novel splicing junctions.
sampling 95% (10657332) splicing reads. 175005 splicing junctions. 138589 known splicing junctions. 36416 novel splicing junctions.
sampling 100% (11218245) splicing reads. 176197 splicing junctions. 139062 known splicing junctions. 37135 novel splicing junctions.
null device 
          1