Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/97/56e589829c5a223a59869eaffe5a5b/BreastNP_FFPE_L02_RNA_01_B23LG7FLT4_1.Aligned.sortedByCoord.out.bam.bai
  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/9c/9f65139d203e43f1c118014d212edc/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9c/9f65139d203e43f1c118014d212edc/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d1/05e9e37ee3344725e12eb87bcbdf74/BreastNP_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: BreastNP_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% (206932) splicing reads. 57862 splicing junctions. 55906 known splicing junctions. 1956 novel splicing junctions.
sampling 10% (413864) splicing reads. 73673 splicing junctions. 70637 known splicing junctions. 3036 novel splicing junctions.
sampling 15% (620796) splicing reads. 81515 splicing junctions. 77722 known splicing junctions. 3793 novel splicing junctions.
sampling 20% (827729) splicing reads. 86221 splicing junctions. 81889 known splicing junctions. 4332 novel splicing junctions.
sampling 25% (1034661) splicing reads. 89414 splicing junctions. 84622 known splicing junctions. 4792 novel splicing junctions.
sampling 30% (1241593) splicing reads. 91702 splicing junctions. 86545 known splicing junctions. 5157 novel splicing junctions.
sampling 35% (1448526) splicing reads. 93440 splicing junctions. 87926 known splicing junctions. 5514 novel splicing junctions.
sampling 40% (1655458) splicing reads. 94805 splicing junctions. 89027 known splicing junctions. 5778 novel splicing junctions.
sampling 45% (1862390) splicing reads. 95801 splicing junctions. 89816 known splicing junctions. 5985 novel splicing junctions.
sampling 50% (2069323) splicing reads. 96625 splicing junctions. 90464 known splicing junctions. 6161 novel splicing junctions.
sampling 55% (2276255) splicing reads. 97338 splicing junctions. 91001 known splicing junctions. 6337 novel splicing junctions.
sampling 60% (2483187) splicing reads. 97870 splicing junctions. 91405 known splicing junctions. 6465 novel splicing junctions.
sampling 65% (2690119) splicing reads. 98369 splicing junctions. 91776 known splicing junctions. 6593 novel splicing junctions.
sampling 70% (2897052) splicing reads. 98793 splicing junctions. 92080 known splicing junctions. 6713 novel splicing junctions.
sampling 75% (3103984) splicing reads. 99104 splicing junctions. 92302 known splicing junctions. 6802 novel splicing junctions.
sampling 80% (3310916) splicing reads. 99349 splicing junctions. 92468 known splicing junctions. 6881 novel splicing junctions.
sampling 85% (3517849) splicing reads. 99530 splicing junctions. 92594 known splicing junctions. 6936 novel splicing junctions.
sampling 90% (3724781) splicing reads. 99677 splicing junctions. 92703 known splicing junctions. 6974 novel splicing junctions.
sampling 95% (3931713) splicing reads. 99765 splicing junctions. 92768 known splicing junctions. 6997 novel splicing junctions.
sampling 100% (4138646) splicing reads. 99801 splicing junctions. 92791 known splicing junctions. 7010 novel splicing junctions.
null device 
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