Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/04/2abf8629e46df45072d2bc27d2c722/BVT_FFPE_TRNA_brn_01_A23WKFTLT4_3.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bf/45904938647225fa3c48f5dcd2aa95/BVT_FFPE_TRNA_brn_01_A23WKFTLT4_3.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/17/0a96b55d84d45d8460e84d472820bc/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bf/aa54ec9e8f927ddcd196c5800dcbd9/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bf/aa54ec9e8f927ddcd196c5800dcbd9/.command.run
==> STAGING COMPLETE (5 inputs)

[W::hts_idx_load3] The index file is older than the data file: BVT_FFPE_TRNA_brn_01_A23WKFTLT4_3.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% (7481406) splicing reads. 193525 splicing junctions. 161134 known splicing junctions. 32391 novel splicing junctions.
sampling 10% (14962813) splicing reads. 213019 splicing junctions. 168733 known splicing junctions. 44286 novel splicing junctions.
sampling 15% (22444220) splicing reads. 222665 splicing junctions. 171834 known splicing junctions. 50831 novel splicing junctions.
sampling 20% (29925627) splicing reads. 228435 splicing junctions. 173585 known splicing junctions. 54850 novel splicing junctions.
sampling 25% (37407034) splicing reads. 232465 splicing junctions. 174689 known splicing junctions. 57776 novel splicing junctions.
sampling 30% (44888441) splicing reads. 235359 splicing junctions. 175428 known splicing junctions. 59931 novel splicing junctions.
sampling 35% (52369848) splicing reads. 237559 splicing junctions. 176015 known splicing junctions. 61544 novel splicing junctions.
sampling 40% (59851255) splicing reads. 239322 splicing junctions. 176416 known splicing junctions. 62906 novel splicing junctions.
sampling 45% (67332662) splicing reads. 240724 splicing junctions. 176749 known splicing junctions. 63975 novel splicing junctions.
sampling 50% (74814069) splicing reads. 241893 splicing junctions. 177021 known splicing junctions. 64872 novel splicing junctions.
sampling 55% (82295476) splicing reads. 242871 splicing junctions. 177238 known splicing junctions. 65633 novel splicing junctions.
sampling 60% (89776883) splicing reads. 243731 splicing junctions. 177424 known splicing junctions. 66307 novel splicing junctions.
sampling 65% (97258290) splicing reads. 244419 splicing junctions. 177571 known splicing junctions. 66848 novel splicing junctions.
sampling 70% (104739697) splicing reads. 245026 splicing junctions. 177698 known splicing junctions. 67328 novel splicing junctions.
sampling 75% (112221104) splicing reads. 245512 splicing junctions. 177799 known splicing junctions. 67713 novel splicing junctions.
sampling 80% (119702511) splicing reads. 245938 splicing junctions. 177889 known splicing junctions. 68049 novel splicing junctions.
sampling 85% (127183918) splicing reads. 246277 splicing junctions. 177960 known splicing junctions. 68317 novel splicing junctions.
sampling 90% (134665325) splicing reads. 246532 splicing junctions. 178000 known splicing junctions. 68532 novel splicing junctions.
sampling 95% (142146732) splicing reads. 246729 splicing junctions. 178034 known splicing junctions. 68695 novel splicing junctions.
sampling 100% (149628139) splicing reads. 246840 splicing junctions. 178057 known splicing junctions. 68783 novel splicing junctions.
null device 
          1