Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ce/f789d11d3dfd58975ba1c1dd754edc/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d4/ce24945f2fe556a57333bf7071a377/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d4/ce24945f2fe556a57333bf7071a377/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/71/65f06cd3e9e66d1e34a7491dc5105b/BreastNB_FFPE_L02_RNA_01_B23LG7FLT4_1.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a6/e106d13faaf71d982b3721a6e6dcf1/BreastNB_FFPE_L02_RNA_01_B23LG7FLT4_1.Aligned.sortedByCoord.out.bam
==> STAGING COMPLETE (5 inputs)

[W::hts_idx_load3] The index file is older than the data file: BreastNB_FFPE_L02_RNA_01_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% (1427205) splicing reads. 100290 splicing junctions. 95109 known splicing junctions. 5181 novel splicing junctions.
sampling 10% (2854410) splicing reads. 108778 splicing junctions. 102260 known splicing junctions. 6518 novel splicing junctions.
sampling 15% (4281616) splicing reads. 112222 splicing junctions. 104875 known splicing junctions. 7347 novel splicing junctions.
sampling 20% (5708821) splicing reads. 114346 splicing junctions. 106302 known splicing junctions. 8044 novel splicing junctions.
sampling 25% (7136027) splicing reads. 115777 splicing junctions. 107191 known splicing junctions. 8586 novel splicing junctions.
sampling 30% (8563232) splicing reads. 116878 splicing junctions. 107831 known splicing junctions. 9047 novel splicing junctions.
sampling 35% (9990437) splicing reads. 117710 splicing junctions. 108288 known splicing junctions. 9422 novel splicing junctions.
sampling 40% (11417643) splicing reads. 118389 splicing junctions. 108621 known splicing junctions. 9768 novel splicing junctions.
sampling 45% (12844848) splicing reads. 118998 splicing junctions. 108925 known splicing junctions. 10073 novel splicing junctions.
sampling 50% (14272054) splicing reads. 119542 splicing junctions. 109188 known splicing junctions. 10354 novel splicing junctions.
sampling 55% (15699259) splicing reads. 119956 splicing junctions. 109391 known splicing junctions. 10565 novel splicing junctions.
sampling 60% (17126464) splicing reads. 120319 splicing junctions. 109551 known splicing junctions. 10768 novel splicing junctions.
sampling 65% (18553670) splicing reads. 120663 splicing junctions. 109706 known splicing junctions. 10957 novel splicing junctions.
sampling 70% (19980875) splicing reads. 120952 splicing junctions. 109832 known splicing junctions. 11120 novel splicing junctions.
sampling 75% (21408081) splicing reads. 121168 splicing junctions. 109925 known splicing junctions. 11243 novel splicing junctions.
sampling 80% (22835286) splicing reads. 121345 splicing junctions. 110006 known splicing junctions. 11339 novel splicing junctions.
sampling 85% (24262491) splicing reads. 121481 splicing junctions. 110062 known splicing junctions. 11419 novel splicing junctions.
sampling 90% (25689697) splicing reads. 121571 splicing junctions. 110097 known splicing junctions. 11474 novel splicing junctions.
sampling 95% (27116902) splicing reads. 121637 splicing junctions. 110127 known splicing junctions. 11510 novel splicing junctions.
sampling 100% (28544108) splicing reads. 121677 splicing junctions. 110143 known splicing junctions. 11534 novel splicing junctions.
null device 
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