Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/83/119cba6023617775e65acda6fa1b55/22Rv1_FFPE_RNA_0001_B23LG7FLT4_1.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/8a/cd7f097a7b4c15d3135a7869fc1046/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8a/cd7f097a7b4c15d3135a7869fc1046/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b6/3d93137fc0ce6a8b84c346e03a77c5/22Rv1_FFPE_RNA_0001_B23LG7FLT4_1.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_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% (341067) splicing reads. 77893 splicing junctions. 74629 known splicing junctions. 3264 novel splicing junctions.
sampling 10% (682134) splicing reads. 96665 splicing junctions. 91527 known splicing junctions. 5138 novel splicing junctions.
sampling 15% (1023202) splicing reads. 105771 splicing junctions. 99375 known splicing junctions. 6396 novel splicing junctions.
sampling 20% (1364269) splicing reads. 111303 splicing junctions. 104013 known splicing junctions. 7290 novel splicing junctions.
sampling 25% (1705336) splicing reads. 115113 splicing junctions. 107086 known splicing junctions. 8027 novel splicing junctions.
sampling 30% (2046404) splicing reads. 117798 splicing junctions. 109161 known splicing junctions. 8637 novel splicing junctions.
sampling 35% (2387471) splicing reads. 119868 splicing junctions. 110730 known splicing junctions. 9138 novel splicing junctions.
sampling 40% (2728538) splicing reads. 121440 splicing junctions. 111902 known splicing junctions. 9538 novel splicing junctions.
sampling 45% (3069606) splicing reads. 122664 splicing junctions. 112784 known splicing junctions. 9880 novel splicing junctions.
sampling 50% (3410673) splicing reads. 123712 splicing junctions. 113538 known splicing junctions. 10174 novel splicing junctions.
sampling 55% (3751740) splicing reads. 124521 splicing junctions. 114103 known splicing junctions. 10418 novel splicing junctions.
sampling 60% (4092808) splicing reads. 125188 splicing junctions. 114540 known splicing junctions. 10648 novel splicing junctions.
sampling 65% (4433875) splicing reads. 125719 splicing junctions. 114903 known splicing junctions. 10816 novel splicing junctions.
sampling 70% (4774942) splicing reads. 126194 splicing junctions. 115228 known splicing junctions. 10966 novel splicing junctions.
sampling 75% (5116010) splicing reads. 126633 splicing junctions. 115513 known splicing junctions. 11120 novel splicing junctions.
sampling 80% (5457077) splicing reads. 126947 splicing junctions. 115720 known splicing junctions. 11227 novel splicing junctions.
sampling 85% (5798144) splicing reads. 127187 splicing junctions. 115879 known splicing junctions. 11308 novel splicing junctions.
sampling 90% (6139212) splicing reads. 127361 splicing junctions. 115994 known splicing junctions. 11367 novel splicing junctions.
sampling 95% (6480279) splicing reads. 127463 splicing junctions. 116055 known splicing junctions. 11408 novel splicing junctions.
sampling 100% (6821347) splicing reads. 127514 splicing junctions. 116090 known splicing junctions. 11424 novel splicing junctions.
null device 
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