cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i 1136_4ZB-T1-TDNA-1_A23MHWWLT4_1.bam -r Homo_sapiens_assembly38.fasta --algo LocusCollector --fun score_info 1136_4ZB-T1-TDNA-1_A23MHWWLT4_1.md.score
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:173000001, elapsed 2.4s, est remaining 46.5s, peak mem 3105MB, user 53.1s, sys 3.0s, output queue size 146
progress 10% @chr2:46000001, elapsed 4.4s, est remaining 40.0s, peak mem 4017MB, user 116.8s, sys 4.8s, output queue size 117
progress 15% @chr3:8000001, elapsed 6.7s, est remaining 38.2s, peak mem 5194MB, user 183.0s, sys 9.4s, output queue size 203
progress 20% @chr3:165000001, elapsed 8.5s, est remaining 34.1s, peak mem 5448MB, user 233.2s, sys 11.4s, output queue size 283
progress 25% @chr4:133000001, elapsed 10.1s, est remaining 30.2s, peak mem 5492MB, user 279.6s, sys 12.3s, output queue size 444
progress 30% @chr5:81000001, elapsed 11.2s, est remaining 26.2s, peak mem 5646MB, user 318.3s, sys 13.4s, output queue size 464
progress 35% @chr6:79000001, elapsed 12.5s, est remaining 23.3s, peak mem 5684MB, user 355.5s, sys 14.0s, output queue size 625
progress 40% @chr7:65000001, elapsed 14.5s, est remaining 21.8s, peak mem 6319MB, user 406.9s, sys 14.9s, output queue size 786
progress 45% @chr8:66000001, elapsed 16.9s, est remaining 20.7s, peak mem 7197MB, user 479.9s, sys 16.2s, output queue size 393
progress 50% @chr9:87000001, elapsed 18.5s, est remaining 18.5s, peak mem 7495MB, user 524.4s, sys 17.0s, output queue size 366
progress 55% @chr10:99000001, elapsed 20.5s, est remaining 16.8s, peak mem 7526MB, user 583.4s, sys 18.0s, output queue size 527
progress 60% @chr11:124000001, elapsed 22.3s, est remaining 14.9s, peak mem 7781MB, user 628.6s, sys 18.4s, output queue size 689
progress 65% @chr12:114000001, elapsed 24.5s, est remaining 13.2s, peak mem 7983MB, user 692.8s, sys 19.0s, output queue size 851
progress 70% @chr14:76000001, elapsed 25.9s, est remaining 11.1s, peak mem 7995MB, user 738.5s, sys 19.5s, output queue size 970
progress 75% @chr16:42000001, elapsed 28.3s, est remaining 9.4s, peak mem 8099MB, user 820.3s, sys 20.3s, output queue size 989
progress 80% @chr18:25000001, elapsed 31.6s, est remaining 7.9s, peak mem 8332MB, user 904.4s, sys 21.3s, output queue size 1151
progress 85% @chr20:34000001, elapsed 34.6s, est remaining 6.1s, peak mem 8395MB, user 985.7s, sys 22.3s, output queue size 1313
progress 90% @chrX:36000001, elapsed 37.2s, est remaining 4.1s, peak mem 8792MB, user 1070.5s, sys 23.3s, output queue size 947
progress 95% @chrY:47000001, elapsed 38.6s, est remaining 2.0s, peak mem 8873MB, user 1122.1s, sys 24.0s, output queue size 1109
progress 100% @chr15:88000001, elapsed 52.5s, est remaining 0.0s, peak mem 8873MB, user 1211.8s, sys 24.8s, output queue size 4099
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
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: 40315395517
reads: 815252332
contig: 3367 intervals 3217346917 bases
LocusCollector::merge: 1 calls 0.457 user 0.115 sys 0.607 real
VcfLineRecordHelper::sort: 33 calls 0.843 user 0.040 sys 0.891 real
advance: 3219322 calls 685.586 user 19.679 sys 706.884 real
calc: 3219322 calls 228.373 user 1.756 sys 229.253 real
done: 1 calls 0.457 user 0.115 sys 0.607 real
execute: 1 calls 0.010 user 0.000 sys 52.522 real
fetch: 3219322 calls 254.250 user 1.566 sys 257.990 real
idle: 458 calls 0.118 user 0.002 sys 434.858 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 9304932352 mem 1215.740 user 25.458 sys 54.302 real
cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i 1136_4ZB-T1-TDNA-1_A23MHWWLT4_1.bam -r Homo_sapiens_assembly38.fasta --algo Dedup --score_info 1136_4ZB-T1-TDNA-1_A23MHWWLT4_1.md.score --metrics 1136_4ZB-T1-TDNA-1_A23MHWWLT4_1.md.metrics 1136_4ZB-T1-TDNA-1_A23MHWWLT4_1.md.bam
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:175000001, elapsed 16.9s, est remaining 320.4s, peak mem 4080MB, user 427.2s, sys 6.1s, output queue size 44
progress 10% @chr2:46000001, elapsed 29.3s, est remaining 263.5s, peak mem 5712MB, user 840.6s, sys 9.7s, output queue size 48
progress 15% @chr2:197000001, elapsed 43.5s, est remaining 246.4s, peak mem 6453MB, user 1263.4s, sys 12.7s, output queue size 122
progress 20% @chr3:128000001, elapsed 56.6s, est remaining 226.2s, peak mem 6618MB, user 1658.6s, sys 15.2s, output queue size 141
progress 25% @chr4:124000001, elapsed 67.5s, est remaining 202.5s, peak mem 6678MB, user 1995.8s, sys 17.7s, output queue size 302
progress 30% @chr5:107000001, elapsed 76.2s, est remaining 177.9s, peak mem 6790MB, user 2255.2s, sys 19.3s, output queue size 464
progress 35% @chr6:74000001, elapsed 85.8s, est remaining 159.4s, peak mem 6964MB, user 2537.2s, sys 21.3s, output queue size 625
progress 40% @chr7:67000001, elapsed 99.2s, est remaining 148.8s, peak mem 7398MB, user 2940.6s, sys 23.6s, output queue size 231
progress 45% @chr8:75000001, elapsed 115.9s, est remaining 141.6s, peak mem 7930MB, user 3417.8s, sys 26.3s, output queue size 204
progress 50% @chr9:88000001, elapsed 127.7s, est remaining 127.7s, peak mem 8018MB, user 3730.5s, sys 28.2s, output queue size 366
progress 55% @chr10:86000001, elapsed 141.9s, est remaining 116.1s, peak mem 8276MB, user 4126.1s, sys 30.5s, output queue size 527
progress 60% @chr11:121000001, elapsed 154.9s, est remaining 103.2s, peak mem 8367MB, user 4589.1s, sys 33.1s, output queue size 647
progress 65% @chr13:31000001, elapsed 169.3s, est remaining 91.1s, peak mem 8555MB, user 5042.9s, sys 35.7s, output queue size 666
progress 70% @chr14:82000001, elapsed 179.0s, est remaining 76.7s, peak mem 8644MB, user 5327.1s, sys 37.5s, output queue size 827
progress 75% @chr16:41000001, elapsed 195.8s, est remaining 65.3s, peak mem 8776MB, user 5765.6s, sys 39.8s, output queue size 989
progress 80% @chr18:11000001, elapsed 218.3s, est remaining 54.6s, peak mem 9050MB, user 6475.2s, sys 43.4s, output queue size 623
progress 85% @chr19:50000001, elapsed 239.1s, est remaining 42.2s, peak mem 9050MB, user 7035.6s, sys 45.9s, output queue size 785
progress 90% @chrX:34000001, elapsed 255.5s, est remaining 28.4s, peak mem 9387MB, user 7656.8s, sys 49.0s, output queue size 513
progress 95% @chrY:54000001, elapsed 265.1s, est remaining 14.0s, peak mem 9422MB, user 7936.6s, sys 50.4s, output queue size 675
progress 100% @chr15:88000001, elapsed 305.2s, est remaining 0.0s, peak mem 9435MB, user 8313.0s, sys 52.3s, output queue size 4099
library 1136_4ZB-T1-TDNA-1_A23MHWWLT4_1:
chimeric_paired 10936713
duped 393250799
duped_chimeric_paired 1978408
duped_paired 393247754
duped_unpaired 3045
optical_dup 55024024
paired 809472178
reads 815247230
secondary_supplementary 5767964
unmapped 8646
unpaired 3544
optical dup clusters 33072673, maxdup 83, total optical dup pairs 55024024
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
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: 40315395517
reads: 815252332
contig: 3367 intervals 3217346917 bases
MateInfoByVcf::buildInfoMap: 2560360 calls 4.755 user 0.229 sys 4.936 real
MateInfoByVcf::load: 2560360 calls 1729.487 user 10.178 sys 1647.788 real
MateInfoByVcf::parse_events: 2560360 calls 1671.438 user 8.771 sys 1611.772 real
advance: 3219322 calls 636.548 user 14.981 sys 721.643 real
calc: 3219322 calls 5504.343 user 23.173 sys 5588.007 real
done: 1 calls 0.054 user 0.002 sys 0.058 real
exec_no_coor: 1 calls 0.018 user 0.000 sys 0.024 real
execute: 1 calls 0.002 user 0.002 sys 307.021 real
fetch: 3219323 calls 318.818 user 1.363 sys 312.298 real
find_pairEnds: 2560360 calls 365.582 user 0.769 sys 381.165 real
idle: 50770 calls 19.209 user 0.474 sys 1123.463 real
init: 1 calls 0.009 user 0.001 sys 0.006 real
markDup: 2560360 calls 1425.972 user 4.846 sys 1503.369 real
vcfadvance: 2560360 calls 2.928 user 0.444 sys 2.956 real
write: 3219323 calls 4051.141 user 17.189 sys 4053.316 real
overall: 9893916672 mem 8338.412 user 64.844 sys 308.420 real