Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b1/278e745aa6471c36eb394d2cb8f8ba/A673_FFPE_RNA_0001_B23LG7FLT4_2.Aligned.sortedByCoord.out.bam.bai
  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/38/11b5479ca7686ce66c9fc7f164ee8f/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/38/11b5479ca7686ce66c9fc7f164ee8f/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cb/cc27e81fbc52ec9b867b07a3cda21c/A673_FFPE_RNA_0001_B23LG7FLT4_2.Aligned.sortedByCoord.out.bam
==> STAGING COMPLETE (5 inputs)

[W::hts_idx_load3] The index file is older than the data file: A673_FFPE_RNA_0001_B23LG7FLT4_2.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% (15317119) splicing reads. 246662 splicing junctions. 167845 known splicing junctions. 78817 novel splicing junctions.
sampling 10% (30634239) splicing reads. 308012 splicing junctions. 180818 known splicing junctions. 127194 novel splicing junctions.
sampling 15% (45951359) splicing reads. 352554 splicing junctions. 187950 known splicing junctions. 164604 novel splicing junctions.
sampling 20% (61268479) splicing reads. 388552 splicing junctions. 192802 known splicing junctions. 195750 novel splicing junctions.
sampling 25% (76585599) splicing reads. 418768 splicing junctions. 196465 known splicing junctions. 222303 novel splicing junctions.
sampling 30% (91902719) splicing reads. 444651 splicing junctions. 199323 known splicing junctions. 245328 novel splicing junctions.
sampling 35% (107219839) splicing reads. 466993 splicing junctions. 201556 known splicing junctions. 265437 novel splicing junctions.
sampling 40% (122536959) splicing reads. 486488 splicing junctions. 203405 known splicing junctions. 283083 novel splicing junctions.
sampling 45% (137854079) splicing reads. 503806 splicing junctions. 204920 known splicing junctions. 298886 novel splicing junctions.
sampling 50% (153171199) splicing reads. 519045 splicing junctions. 206199 known splicing junctions. 312846 novel splicing junctions.
sampling 55% (168488319) splicing reads. 532599 splicing junctions. 207314 known splicing junctions. 325285 novel splicing junctions.
sampling 60% (183805439) splicing reads. 544663 splicing junctions. 208298 known splicing junctions. 336365 novel splicing junctions.
sampling 65% (199122559) splicing reads. 555367 splicing junctions. 209134 known splicing junctions. 346233 novel splicing junctions.
sampling 70% (214439679) splicing reads. 564758 splicing junctions. 209812 known splicing junctions. 354946 novel splicing junctions.
sampling 75% (229756799) splicing reads. 573029 splicing junctions. 210357 known splicing junctions. 362672 novel splicing junctions.
sampling 80% (245073919) splicing reads. 580165 splicing junctions. 210878 known splicing junctions. 369287 novel splicing junctions.
sampling 85% (260391039) splicing reads. 586418 splicing junctions. 211303 known splicing junctions. 375115 novel splicing junctions.
sampling 90% (275708159) splicing reads. 591596 splicing junctions. 211672 known splicing junctions. 379924 novel splicing junctions.
sampling 95% (291025279) splicing reads. 595920 splicing junctions. 211949 known splicing junctions. 383971 novel splicing junctions.
sampling 100% (306342399) splicing reads. 599313 splicing junctions. 212163 known splicing junctions. 387150 novel splicing junctions.
null device 
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