cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i 1029_FZX-T1-TDNA-1_A23MHWWLT4_1.bam -r Homo_sapiens_assembly38.fasta --algo LocusCollector --fun score_info 1029_FZX-T1-TDNA-1_A23MHWWLT4_1.md.score
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:160000001, elapsed 3.3s, est remaining 63.1s, peak mem 4831MB, user 70.8s, sys 3.2s, output queue size 150
progress 10% @chr2:84000001, elapsed 6.5s, est remaining 58.7s, peak mem 7264MB, user 167.8s, sys 6.3s, output queue size 117
progress 15% @chr3:17000001, elapsed 10.8s, est remaining 61.1s, peak mem 11244MB, user 282.0s, sys 11.3s, output queue size 210
progress 20% @chr3:174000001, elapsed 14.1s, est remaining 56.3s, peak mem 12406MB, user 378.6s, sys 15.6s, output queue size 364
progress 25% @chr4:109000001, elapsed 16.5s, est remaining 49.5s, peak mem 12406MB, user 451.1s, sys 17.4s, output queue size 525
progress 30% @chr5:107000001, elapsed 18.4s, est remaining 43.0s, peak mem 12406MB, user 514.6s, sys 20.5s, output queue size 606
progress 35% @chr6:91000001, elapsed 21.5s, est remaining 39.8s, peak mem 12923MB, user 602.5s, sys 22.1s, output queue size 625
progress 40% @chr7:48000001, elapsed 24.9s, est remaining 37.4s, peak mem 13096MB, user 695.3s, sys 23.6s, output queue size 786
progress 45% @chr8:67000001, elapsed 28.9s, est remaining 35.3s, peak mem 13244MB, user 806.1s, sys 25.8s, output queue size 948
progress 50% @chr9:32000001, elapsed 32.2s, est remaining 32.2s, peak mem 13629MB, user 919.5s, sys 27.3s, output queue size 366
progress 55% @chr10:109000001, elapsed 35.7s, est remaining 29.2s, peak mem 14430MB, user 1028.8s, sys 28.9s, output queue size 485
progress 60% @chr12:5000001, elapsed 39.0s, est remaining 26.0s, peak mem 14430MB, user 1122.6s, sys 30.4s, output queue size 510
progress 65% @chr13:35000001, elapsed 43.1s, est remaining 23.2s, peak mem 14932MB, user 1222.2s, sys 31.2s, output queue size 672
progress 70% @chr14:69000001, elapsed 45.4s, est remaining 19.5s, peak mem 15064MB, user 1309.5s, sys 32.3s, output queue size 833
progress 75% @chr16:41000001, elapsed 49.4s, est remaining 16.5s, peak mem 15102MB, user 1409.3s, sys 33.2s, output queue size 995
progress 80% @chr17:50000001, elapsed 55.5s, est remaining 13.9s, peak mem 15210MB, user 1613.2s, sys 34.8s, output queue size 623
progress 85% @chr19:42000001, elapsed 60.8s, est remaining 10.7s, peak mem 15210MB, user 1769.7s, sys 36.0s, output queue size 785
progress 90% @chrX:36000001, elapsed 64.4s, est remaining 7.2s, peak mem 15535MB, user 1879.9s, sys 36.9s, output queue size 947
progress 95% @chrY:53000001, elapsed 66.6s, est remaining 3.5s, peak mem 15746MB, user 1940.2s, sys 37.7s, output queue size 1109
progress 100% @chr15:88000001, elapsed 77.1s, est remaining 0.0s, peak mem 15746MB, user 2091.0s, sys 38.8s, 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: 66196565620
reads: 1275212856
contig: 3367 intervals 3217346917 bases
LocusCollector::merge: 1 calls 3.028 user 0.559 sys 4.865 real
VcfLineRecordHelper::sort: 103 calls 4.519 user 0.240 sys 4.838 real
advance: 3219322 calls 1110.104 user 31.067 sys 1142.405 real
calc: 3219322 calls 417.167 user 3.521 sys 421.558 real
done: 1 calls 3.028 user 0.559 sys 4.865 real
execute: 1 calls 0.005 user 0.004 sys 77.108 real
fetch: 3219322 calls 481.787 user 2.463 sys 483.890 real
idle: 474 calls 0.185 user 0.002 sys 434.520 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 16511623168 mem 2106.052 user 40.124 sys 83.098 real
cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i 1029_FZX-T1-TDNA-1_A23MHWWLT4_1.bam -r Homo_sapiens_assembly38.fasta --algo Dedup --score_info 1029_FZX-T1-TDNA-1_A23MHWWLT4_1.md.score --metrics 1029_FZX-T1-TDNA-1_A23MHWWLT4_1.md.metrics 1029_FZX-T1-TDNA-1_A23MHWWLT4_1.md.bam
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:178000001, elapsed 24.3s, est remaining 462.3s, peak mem 5474MB, user 595.5s, sys 7.0s, output queue size 145
progress 10% @chr2:58000001, elapsed 45.1s, est remaining 405.9s, peak mem 10405MB, user 1260.1s, sys 11.5s, output queue size 48
progress 15% @chr2:238000001, elapsed 73.4s, est remaining 416.1s, peak mem 13699MB, user 2067.3s, sys 16.7s, output queue size 203
progress 20% @chr3:155000001, elapsed 97.9s, est remaining 391.7s, peak mem 13699MB, user 2826.5s, sys 22.4s, output queue size 283
progress 25% @chr4:124000001, elapsed 114.3s, est remaining 342.9s, peak mem 13699MB, user 3377.0s, sys 24.9s, output queue size 302
progress 30% @chr5:99000001, elapsed 127.9s, est remaining 298.4s, peak mem 13699MB, user 3817.0s, sys 27.1s, output queue size 464
progress 35% @chr6:78000001, elapsed 149.6s, est remaining 277.8s, peak mem 14124MB, user 4357.1s, sys 29.8s, output queue size 625
progress 40% @chr7:64000001, elapsed 174.2s, est remaining 261.2s, peak mem 14529MB, user 5116.8s, sys 33.0s, output queue size 195
progress 45% @chr8:72000001, elapsed 201.9s, est remaining 246.8s, peak mem 15023MB, user 5976.2s, sys 36.7s, output queue size 204
progress 50% @chr9:88000001, elapsed 226.8s, est remaining 226.8s, peak mem 15395MB, user 6599.1s, sys 39.4s, output queue size 366
progress 55% @chr10:99000001, elapsed 253.0s, est remaining 207.0s, peak mem 15941MB, user 7497.2s, sys 43.0s, output queue size 348
progress 60% @chr11:134000001, elapsed 277.6s, est remaining 185.1s, peak mem 15941MB, user 8187.6s, sys 45.6s, output queue size 510
progress 65% @chr13:33000001, elapsed 308.1s, est remaining 165.9s, peak mem 16339MB, user 9052.9s, sys 48.8s, output queue size 672
progress 70% @chr14:79000001, elapsed 325.3s, est remaining 139.4s, peak mem 16339MB, user 9672.6s, sys 51.3s, output queue size 635
progress 75% @chr16:42000001, elapsed 351.3s, est remaining 117.1s, peak mem 16339MB, user 10533.2s, sys 54.2s, output queue size 461
progress 80% @chr18:11000001, elapsed 395.4s, est remaining 98.8s, peak mem 16472MB, user 11669.9s, sys 58.4s, output queue size 623
progress 85% @chr20:29000001, elapsed 433.9s, est remaining 76.6s, peak mem 16611MB, user 12948.1s, sys 62.4s, output queue size 785
progress 90% @chrX:34000001, elapsed 463.6s, est remaining 51.5s, peak mem 17310MB, user 13709.6s, sys 65.4s, output queue size 947
progress 95% @chrY:55000001, elapsed 478.8s, est remaining 25.2s, peak mem 17312MB, user 14177.1s, sys 67.4s, output queue size 1109
progress 100% @chr22:23000001, elapsed 529.9s, est remaining 0.0s, peak mem 17312MB, user 15065.3s, sys 70.4s, output queue size 3635
library 1029_FZX-T1-TDNA-1_A23MHWWLT4_1:
chimeric_paired 24869303
duped 745168315
duped_chimeric_paired 5961322
duped_paired 745162379
duped_unpaired 5936
optical_dup 170510318
paired 1266130570
reads 1275207548
secondary_supplementary 9063222
unmapped 12186
unpaired 6878
optical dup clusters 79869075, maxdup 88, total optical dup pairs 170510318
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: 66196565620
reads: 1275212856
contig: 3367 intervals 3217346917 bases
MateInfoByVcf::buildInfoMap: 2651122 calls 18.753 user 0.441 sys 18.977 real
MateInfoByVcf::load: 2651122 calls 2316.058 user 10.415 sys 2256.871 real
MateInfoByVcf::parse_events: 2651122 calls 2203.180 user 8.640 sys 2188.604 real
advance: 3219322 calls 1065.287 user 22.134 sys 1145.832 real
calc: 3219322 calls 10888.943 user 32.329 sys 11004.220 real
done: 1 calls 0.053 user 0.017 sys 0.073 real
exec_no_coor: 1 calls 0.006 user 0.006 sys 0.022 real
execute: 1 calls 0.003 user 0.002 sys 530.676 real
fetch: 3219323 calls 575.289 user 1.642 sys 555.635 real
find_pairEnds: 2651122 calls 687.913 user 1.116 sys 705.600 real
idle: 58112 calls 26.748 user 0.388 sys 1257.298 real
init: 1 calls 0.009 user 0.001 sys 0.006 real
markDup: 2651122 calls 2581.723 user 6.994 sys 2666.363 real
vcfadvance: 2651122 calls 9.408 user 1.394 sys 10.455 real
write: 3219323 calls 8252.308 user 24.144 sys 8278.459 real
overall: 18153369600 mem 15100.780 user 91.297 sys 532.234 real