Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/61/8f45fd2eb51d82dd397ffdc1de7cdc/659_bGc-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9b/e640dac831905516eb931426ebee99/659_bGc-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/63/b02a7396bf6caf366aae276126d7b9/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/58/c15ad260832065fb62b613a1b7ffaa/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/58/c15ad260832065fb62b613a1b7ffaa/.command.run
==> STAGING COMPLETE (5 inputs)

[W::hts_idx_load3] The index file is older than the data file: 659_bGc-T1-TRNA-1_B23WHTKLT4_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% (9981973) splicing reads. 226949 splicing junctions. 177834 known splicing junctions. 49115 novel splicing junctions.
sampling 10% (19963947) splicing reads. 257515 splicing junctions. 186918 known splicing junctions. 70597 novel splicing junctions.
sampling 15% (29945920) splicing reads. 274489 splicing junctions. 191081 known splicing junctions. 83408 novel splicing junctions.
sampling 20% (39927894) splicing reads. 285488 splicing junctions. 193419 known splicing junctions. 92069 novel splicing junctions.
sampling 25% (49909867) splicing reads. 292958 splicing junctions. 195008 known splicing junctions. 97950 novel splicing junctions.
sampling 30% (59891841) splicing reads. 298599 splicing junctions. 196078 known splicing junctions. 102521 novel splicing junctions.
sampling 35% (69873814) splicing reads. 302872 splicing junctions. 196831 known splicing junctions. 106041 novel splicing junctions.
sampling 40% (79855788) splicing reads. 306155 splicing junctions. 197427 known splicing junctions. 108728 novel splicing junctions.
sampling 45% (89837761) splicing reads. 308937 splicing junctions. 197934 known splicing junctions. 111003 novel splicing junctions.
sampling 50% (99819735) splicing reads. 311257 splicing junctions. 198315 known splicing junctions. 112942 novel splicing junctions.
sampling 55% (109801708) splicing reads. 313143 splicing junctions. 198621 known splicing junctions. 114522 novel splicing junctions.
sampling 60% (119783682) splicing reads. 314687 splicing junctions. 198873 known splicing junctions. 115814 novel splicing junctions.
sampling 65% (129765655) splicing reads. 316056 splicing junctions. 199073 known splicing junctions. 116983 novel splicing junctions.
sampling 70% (139747629) splicing reads. 317216 splicing junctions. 199270 known splicing junctions. 117946 novel splicing junctions.
sampling 75% (149729602) splicing reads. 318147 splicing junctions. 199405 known splicing junctions. 118742 novel splicing junctions.
sampling 80% (159711576) splicing reads. 318992 splicing junctions. 199536 known splicing junctions. 119456 novel splicing junctions.
sampling 85% (169693549) splicing reads. 319630 splicing junctions. 199641 known splicing junctions. 119989 novel splicing junctions.
sampling 90% (179675523) splicing reads. 320195 splicing junctions. 199722 known splicing junctions. 120473 novel splicing junctions.
sampling 95% (189657496) splicing reads. 320636 splicing junctions. 199792 known splicing junctions. 120844 novel splicing junctions.
sampling 100% (199639470) splicing reads. 320929 splicing junctions. 199845 known splicing junctions. 121084 novel splicing junctions.
null device 
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