cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i 1029_BMFL-N1-BDNA-1_B23KGCJLT4_1.bam -r Homo_sapiens_assembly38.fasta --algo LocusCollector --fun score_info 1029_BMFL-N1-BDNA-1_B23KGCJLT4_1.md.score
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:187000001, elapsed 1.4s, est remaining 27.0s, peak mem 1877MB, user 30.4s, sys 2.3s, output queue size 146
progress 10% @chr2:94000001, elapsed 2.5s, est remaining 22.7s, peak mem 2334MB, user 65.6s, sys 3.6s, output queue size 117
progress 15% @chr3:17000001, elapsed 3.8s, est remaining 21.6s, peak mem 3049MB, user 100.1s, sys 4.5s, output queue size 210
progress 20% @chr3:160000001, elapsed 4.8s, est remaining 19.2s, peak mem 3260MB, user 132.6s, sys 5.2s, output queue size 283
progress 25% @chr4:124000001, elapsed 5.8s, est remaining 17.5s, peak mem 3396MB, user 160.2s, sys 5.7s, output queue size 444
progress 30% @chr5:106000001, elapsed 6.6s, est remaining 15.3s, peak mem 3439MB, user 187.3s, sys 6.2s, output queue size 464
progress 35% @chr6:82000001, elapsed 7.5s, est remaining 14.0s, peak mem 3568MB, user 213.9s, sys 6.7s, output queue size 625
progress 40% @chr7:56000001, elapsed 8.8s, est remaining 13.1s, peak mem 3768MB, user 246.2s, sys 7.1s, output queue size 786
progress 45% @chr8:78000001, elapsed 10.2s, est remaining 12.5s, peak mem 3798MB, user 284.5s, sys 7.8s, output queue size 948
progress 50% @chr9:93000001, elapsed 11.4s, est remaining 11.4s, peak mem 3944MB, user 314.1s, sys 8.2s, output queue size 1110
progress 55% @chr10:115000001, elapsed 12.8s, est remaining 10.5s, peak mem 4044MB, user 365.0s, sys 9.0s, output queue size 527
progress 60% @chr11:1000001, elapsed 14.3s, est remaining 9.5s, peak mem 4047MB, user 404.7s, sys 9.5s, output queue size 689
progress 65% @chr13:24000001, elapsed 15.6s, est remaining 8.4s, peak mem 4118MB, user 443.7s, sys 9.9s, output queue size 851
progress 70% @chr14:71000001, elapsed 16.5s, est remaining 7.1s, peak mem 4118MB, user 465.3s, sys 10.3s, output queue size 1012
progress 75% @chr16:41000001, elapsed 18.1s, est remaining 6.0s, peak mem 4193MB, user 514.9s, sys 10.9s, output queue size 1174
progress 80% @chr18:27000001, elapsed 20.4s, est remaining 5.1s, peak mem 4310MB, user 578.1s, sys 11.5s, output queue size 1157
progress 85% @chr20:48000001, elapsed 22.6s, est remaining 4.0s, peak mem 4365MB, user 639.4s, sys 12.2s, output queue size 1319
progress 90% @chrX:32000001, elapsed 23.9s, est remaining 2.7s, peak mem 4493MB, user 702.8s, sys 12.8s, output queue size 947
progress 95% @chrY:50000001, elapsed 24.9s, est remaining 1.3s, peak mem 4544MB, user 724.4s, sys 13.2s, output queue size 1109
progress 100% @chr15:88000001, elapsed 30.6s, est remaining 0.0s, peak mem 4607MB, user 784.8s, sys 13.7s, output queue size 4099
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.83
cpu vendor: GenuineIntel
 signature: 000a06d1
  features: 1f8bfbff fffab20b
  extended: f1bf27eb 1b407f7e
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) 6975P-C
threads: 31 max 192
algo: LocusCollector
license: sentieon:Dedup=31
input file size: 19704993426
reads: 432889873
contig: 3367 intervals 3217346917 bases
LocusCollector::merge: 1 calls 0.436 user 0.079 sys 0.600 real
VcfLineRecordHelper::sort: 33 calls 0.700 user 0.050 sys 0.790 real
advance: 3219322 calls 411.950 user 9.808 sys 422.334 real
calc: 3219322 calls 150.229 user 1.140 sys 152.761 real
done: 1 calls 0.436 user 0.079 sys 0.600 real
execute: 1 calls 0.001 user 0.001 sys 30.589 real
fetch: 3219322 calls 190.244 user 1.167 sys 191.042 real
idle: 220 calls 0.148 user 0.002 sys 184.263 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 4830941184 mem 788.126 user 14.393 sys 31.923 real
cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i 1029_BMFL-N1-BDNA-1_B23KGCJLT4_1.bam -r Homo_sapiens_assembly38.fasta --algo Dedup --score_info 1029_BMFL-N1-BDNA-1_B23KGCJLT4_1.md.score --metrics 1029_BMFL-N1-BDNA-1_B23KGCJLT4_1.md.metrics 1029_BMFL-N1-BDNA-1_B23KGCJLT4_1.md.bam
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:151000001, elapsed 8.8s, est remaining 167.8s, peak mem 2318MB, user 229.4s, sys 4.1s, output queue size 44
progress 10% @chr2:71000001, elapsed 15.2s, est remaining 137.0s, peak mem 3301MB, user 432.9s, sys 6.6s, output queue size 48
progress 15% @chr2:237000001, elapsed 22.8s, est remaining 129.4s, peak mem 3806MB, user 652.2s, sys 9.2s, output queue size 122
progress 20% @chr3:167000001, elapsed 29.4s, est remaining 117.7s, peak mem 3848MB, user 847.3s, sys 10.5s, output queue size 174
progress 25% @chr4:130000001, elapsed 35.0s, est remaining 104.9s, peak mem 3956MB, user 1025.9s, sys 11.9s, output queue size 302
progress 30% @chr5:107000001, elapsed 40.3s, est remaining 94.0s, peak mem 4088MB, user 1191.3s, sys 13.5s, output queue size 464
progress 35% @chr6:79000001, elapsed 47.7s, est remaining 88.6s, peak mem 4116MB, user 1389.3s, sys 15.2s, output queue size 625
progress 40% @chr7:48000001, elapsed 56.8s, est remaining 85.2s, peak mem 4267MB, user 1626.8s, sys 17.4s, output queue size 786
progress 45% @chr8:75000001, elapsed 66.8s, est remaining 81.7s, peak mem 4270MB, user 1926.9s, sys 19.3s, output queue size 948
progress 50% @chr9:42000001, elapsed 74.6s, est remaining 74.6s, peak mem 4376MB, user 2192.3s, sys 20.8s, output queue size 366
progress 55% @chr10:104000001, elapsed 83.0s, est remaining 67.9s, peak mem 4432MB, user 2421.6s, sys 22.5s, output queue size 527
progress 60% @chr12:5000001, elapsed 91.7s, est remaining 61.1s, peak mem 4452MB, user 2719.2s, sys 24.1s, output queue size 510
progress 65% @chr13:33000001, elapsed 99.9s, est remaining 53.8s, peak mem 4493MB, user 2946.7s, sys 25.5s, output queue size 672
progress 70% @chr14:78000001, elapsed 104.7s, est remaining 44.9s, peak mem 4493MB, user 3105.2s, sys 26.4s, output queue size 833
progress 75% @chr16:41000001, elapsed 113.0s, est remaining 37.7s, peak mem 4520MB, user 3329.4s, sys 27.8s, output queue size 995
progress 80% @chr18:11000001, elapsed 125.4s, est remaining 31.3s, peak mem 4520MB, user 3652.3s, sys 29.4s, output queue size 1157
progress 85% @chr20:39000001, elapsed 135.7s, est remaining 23.9s, peak mem 4520MB, user 4079.0s, sys 31.7s, output queue size 351
progress 90% @chr22:37000001, elapsed 142.9s, est remaining 15.9s, peak mem 4604MB, user 4289.7s, sys 33.1s, output queue size 513
progress 95% @chrY:51000001, elapsed 149.0s, est remaining 7.8s, peak mem 4677MB, user 4446.8s, sys 34.0s, output queue size 675
progress 100% @chr15:88000001, elapsed 162.1s, est remaining 0.0s, peak mem 4692MB, user 4672.4s, sys 35.6s, output queue size 4099
library 1029_BMFL-N1-BDNA-1_B23KGCJLT4_1:
chimeric_paired 3842501
duped 169795888
duped_chimeric_paired 499756
duped_paired 169794340
duped_unpaired 1548
optical_dup 52561892
paired 431076136
reads 432888497
secondary_supplementary 1808375
unmapped 3369
unpaired 1993
optical dup clusters 30525538, maxdup 26, total optical dup pairs 52561892
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.83
cpu vendor: GenuineIntel
 signature: 000a06d1
  features: 1f8bfbff fffab20b
  extended: f1bf27eb 1b407f7e
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) 6975P-C
threads: 31 max 192
algo: Dedup
license: sentieon:Dedup=31
input file size: 19704993426
reads: 432889873
contig: 3367 intervals 3217346917 bases
MateInfoByVcf::buildInfoMap: 2301844 calls 3.677 user 0.202 sys 4.302 real
MateInfoByVcf::load: 2301844 calls 1285.134 user 9.332 sys 1219.408 real
MateInfoByVcf::parse_events: 2301844 calls 1243.776 user 8.253 sys 1193.380 real
advance: 3219322 calls 373.290 user 9.017 sys 426.194 real
calc: 3219322 calls 2707.100 user 13.546 sys 2778.776 real
done: 1 calls 0.106 user 0.000 sys 0.114 real
exec_no_coor: 1 calls 0.000 user 0.004 sys 0.010 real
execute: 1 calls 0.001 user 0.001 sys 163.143 real
fetch: 3219323 calls 211.614 user 0.996 sys 207.626 real
find_pairEnds: 2301844 calls 220.496 user 0.648 sys 232.044 real
idle: 24722 calls 14.379 user 0.176 sys 335.412 real
init: 1 calls 0.000 user 0.010 sys 0.009 real
markDup: 2301844 calls 862.914 user 3.637 sys 917.463 real
vcfadvance: 2301844 calls 2.233 user 0.448 sys 2.732 real
write: 3219323 calls 1829.094 user 8.915 sys 1843.685 real
overall: 4920184832 mem 4692.407 user 42.058 sys 164.376 real