Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/87/9432b492030b76af3248c3b7e8a412/1173_CRX_T1_RNA_SLD_01_A23T55JLT4_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c9/a468fe33321ec2f592004e83ccc3bc/1173_CRX_T1_RNA_SLD_01_A23T55JLT4_1.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0b/ca4d20e41802bc8c33ea65523f74cb/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bd/27504f4e91cbe26eeb1c0e1658f5c5/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bd/27504f4e91cbe26eeb1c0e1658f5c5/.command.run
==> STAGING COMPLETE (5 inputs)

[W::hts_idx_load3] The index file is older than the data file: 1173_CRX_T1_RNA_SLD_01_A23T55JLT4_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% (475542) splicing reads. 100934 splicing junctions. 97372 known splicing junctions. 3562 novel splicing junctions.
sampling 10% (951084) splicing reads. 124133 splicing junctions. 117765 known splicing junctions. 6368 novel splicing junctions.
sampling 15% (1426626) splicing reads. 136688 splicing junctions. 127867 known splicing junctions. 8821 novel splicing junctions.
sampling 20% (1902168) splicing reads. 145154 splicing junctions. 134186 known splicing junctions. 10968 novel splicing junctions.
sampling 25% (2377711) splicing reads. 151624 splicing junctions. 138718 known splicing junctions. 12906 novel splicing junctions.
sampling 30% (2853253) splicing reads. 156588 splicing junctions. 142095 known splicing junctions. 14493 novel splicing junctions.
sampling 35% (3328795) splicing reads. 160727 splicing junctions. 144733 known splicing junctions. 15994 novel splicing junctions.
sampling 40% (3804337) splicing reads. 164243 splicing junctions. 146872 known splicing junctions. 17371 novel splicing junctions.
sampling 45% (4279879) splicing reads. 167179 splicing junctions. 148598 known splicing junctions. 18581 novel splicing junctions.
sampling 50% (4755422) splicing reads. 169769 splicing junctions. 150112 known splicing junctions. 19657 novel splicing junctions.
sampling 55% (5230964) splicing reads. 171956 splicing junctions. 151334 known splicing junctions. 20622 novel splicing junctions.
sampling 60% (5706506) splicing reads. 173829 splicing junctions. 152366 known splicing junctions. 21463 novel splicing junctions.
sampling 65% (6182048) splicing reads. 175472 splicing junctions. 153266 known splicing junctions. 22206 novel splicing junctions.
sampling 70% (6657590) splicing reads. 176903 splicing junctions. 154020 known splicing junctions. 22883 novel splicing junctions.
sampling 75% (7133133) splicing reads. 178101 splicing junctions. 154656 known splicing junctions. 23445 novel splicing junctions.
sampling 80% (7608675) splicing reads. 179085 splicing junctions. 155171 known splicing junctions. 23914 novel splicing junctions.
sampling 85% (8084217) splicing reads. 179864 splicing junctions. 155577 known splicing junctions. 24287 novel splicing junctions.
sampling 90% (8559759) splicing reads. 180471 splicing junctions. 155890 known splicing junctions. 24581 novel splicing junctions.
sampling 95% (9035301) splicing reads. 180930 splicing junctions. 156146 known splicing junctions. 24784 novel splicing junctions.
sampling 100% (9510844) splicing reads. 181208 splicing junctions. 156278 known splicing junctions. 24930 novel splicing junctions.
null device 
          1