cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i 1136_4XR-T1-TDNA-1_A23MHWWLT4_1.bam -r Homo_sapiens_assembly38.fasta --algo LocusCollector --fun score_info 1136_4XR-T1-TDNA-1_A23MHWWLT4_1.md.score
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:181000001, elapsed 4.1s, est remaining 78.5s, peak mem 5756MB, user 85.8s, sys 8.4s, output queue size 146
progress 10% @chr2:46000001, elapsed 7.4s, est remaining 66.6s, peak mem 7258MB, user 184.2s, sys 12.5s, output queue size 166
progress 15% @chr3:18000001, elapsed 10.5s, est remaining 59.4s, peak mem 9579MB, user 275.4s, sys 16.8s, output queue size 203
progress 20% @chr3:175000001, elapsed 13.1s, est remaining 52.3s, peak mem 9921MB, user 350.6s, sys 19.0s, output queue size 364
progress 25% @chr4:129000001, elapsed 15.5s, est remaining 46.5s, peak mem 10052MB, user 436.5s, sys 22.0s, output queue size 302
progress 30% @chr5:102000001, elapsed 17.4s, est remaining 40.5s, peak mem 10185MB, user 486.4s, sys 22.8s, output queue size 464
progress 35% @chr6:91000001, elapsed 19.9s, est remaining 37.0s, peak mem 10585MB, user 560.6s, sys 23.9s, output queue size 625
progress 40% @chr7:48000001, elapsed 23.0s, est remaining 34.5s, peak mem 11247MB, user 634.6s, sys 24.7s, output queue size 786
progress 45% @chr8:67000001, elapsed 26.6s, est remaining 32.5s, peak mem 11937MB, user 739.6s, sys 25.9s, output queue size 948
progress 50% @chr9:102000001, elapsed 29.5s, est remaining 29.5s, peak mem 12174MB, user 819.7s, sys 27.2s, output queue size 1110
progress 55% @chr10:103000001, elapsed 33.0s, est remaining 27.0s, peak mem 12419MB, user 934.5s, sys 28.9s, output queue size 527
progress 60% @chr12:1000001, elapsed 36.2s, est remaining 24.2s, peak mem 12419MB, user 1033.9s, sys 30.0s, output queue size 689
progress 65% @chr13:26000001, elapsed 39.4s, est remaining 21.2s, peak mem 12419MB, user 1131.0s, sys 31.0s, output queue size 672
progress 70% @chr14:76000001, elapsed 41.4s, est remaining 17.7s, peak mem 12419MB, user 1187.7s, sys 31.5s, output queue size 833
progress 75% @chr16:42000001, elapsed 45.4s, est remaining 15.1s, peak mem 12419MB, user 1292.1s, sys 32.4s, output queue size 995
progress 80% @chr17:35000001, elapsed 50.7s, est remaining 12.7s, peak mem 12419MB, user 1469.3s, sys 33.9s, output queue size 623
progress 85% @chr20:43000001, elapsed 55.0s, est remaining 9.7s, peak mem 12419MB, user 1587.8s, sys 34.9s, output queue size 785
progress 90% @chrX:42000001, elapsed 58.5s, est remaining 6.5s, peak mem 12419MB, user 1691.9s, sys 35.8s, output queue size 947
progress 95% @chrY:52000001, elapsed 61.1s, est remaining 3.2s, peak mem 12535MB, user 1777.4s, sys 36.7s, output queue size 1109
progress 100% @chr15:88000001, elapsed 77.1s, est remaining 0.0s, peak mem 12535MB, user 1927.1s, sys 37.7s, 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: 59913204754
reads: 1205609827
contig: 3367 intervals 3217346917 bases
LocusCollector::merge: 1 calls 1.099 user 0.397 sys 2.056 real
VcfLineRecordHelper::sort: 67 calls 2.404 user 0.200 sys 2.586 real
advance: 3219322 calls 1019.728 user 30.759 sys 1051.325 real
calc: 3219322 calls 380.675 user 3.183 sys 384.588 real
done: 1 calls 1.099 user 0.397 sys 2.056 real
execute: 1 calls 0.006 user 0.004 sys 77.115 real
fetch: 3219322 calls 450.235 user 1.841 sys 452.360 real
idle: 536 calls 0.181 user 0.003 sys 516.065 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 13144334336 mem 1935.202 user 38.592 sys 80.369 real
cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i 1136_4XR-T1-TDNA-1_A23MHWWLT4_1.bam -r Homo_sapiens_assembly38.fasta --algo Dedup --score_info 1136_4XR-T1-TDNA-1_A23MHWWLT4_1.md.score --metrics 1136_4XR-T1-TDNA-1_A23MHWWLT4_1.md.metrics 1136_4XR-T1-TDNA-1_A23MHWWLT4_1.md.bam
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:177000001, elapsed 27.3s, est remaining 518.8s, peak mem 6856MB, user 688.8s, sys 8.9s, output queue size 44
progress 10% @chr2:90000001, elapsed 48.1s, est remaining 433.2s, peak mem 9894MB, user 1370.7s, sys 13.4s, output queue size 48
progress 15% @chr2:197000001, elapsed 69.4s, est remaining 393.4s, peak mem 11299MB, user 1995.5s, sys 16.8s, output queue size 203
progress 20% @chr3:167000001, elapsed 89.2s, est remaining 356.7s, peak mem 11534MB, user 2607.6s, sys 21.4s, output queue size 141
progress 25% @chr4:136000001, elapsed 105.9s, est remaining 317.6s, peak mem 11857MB, user 3118.7s, sys 23.8s, output queue size 302
progress 30% @chr5:99000001, elapsed 119.5s, est remaining 278.9s, peak mem 12108MB, user 3563.2s, sys 26.0s, output queue size 464
progress 35% @chr6:81000001, elapsed 138.1s, est remaining 256.5s, peak mem 12149MB, user 4051.5s, sys 28.2s, output queue size 625
progress 40% @chr7:65000001, elapsed 161.3s, est remaining 242.0s, peak mem 12554MB, user 4611.1s, sys 30.7s, output queue size 786
progress 45% @chr8:70000001, elapsed 185.4s, est remaining 226.6s, peak mem 12558MB, user 5509.0s, sys 34.2s, output queue size 204
progress 50% @chr9:88000001, elapsed 205.1s, est remaining 205.1s, peak mem 12974MB, user 5986.5s, sys 36.3s, output queue size 366
progress 55% @chr10:104000001, elapsed 229.6s, est remaining 187.9s, peak mem 13048MB, user 6732.2s, sys 38.9s, output queue size 527
progress 60% @chr12:5000001, elapsed 251.4s, est remaining 167.6s, peak mem 13050MB, user 7493.8s, sys 41.9s, output queue size 510
progress 65% @chr13:33000001, elapsed 273.2s, est remaining 147.1s, peak mem 13084MB, user 8093.0s, sys 44.5s, output queue size 672
progress 70% @chr14:78000001, elapsed 287.8s, est remaining 123.3s, peak mem 13093MB, user 8587.0s, sys 46.9s, output queue size 833
progress 75% @chr16:42000001, elapsed 313.6s, est remaining 104.5s, peak mem 13158MB, user 9354.7s, sys 49.9s, output queue size 461
progress 80% @chr18:9000001, elapsed 351.8s, est remaining 87.9s, peak mem 13290MB, user 10403.5s, sys 53.8s, output queue size 623
progress 85% @chr20:9000001, elapsed 383.3s, est remaining 67.6s, peak mem 13290MB, user 11326.7s, sys 57.2s, output queue size 785
progress 90% @chrX:34000001, elapsed 408.7s, est remaining 45.4s, peak mem 13674MB, user 12115.9s, sys 60.2s, output queue size 947
progress 95% @chrY:53000001, elapsed 427.2s, est remaining 22.5s, peak mem 13944MB, user 12782.5s, sys 62.4s, output queue size 675
progress 100% @chr15:88000001, elapsed 485.9s, est remaining 0.0s, peak mem 13944MB, user 13515.6s, sys 65.0s, output queue size 4099
library 1136_4XR-T1-TDNA-1_A23MHWWLT4_1:
chimeric_paired 15207416
duped 671477047
duped_chimeric_paired 2788998
duped_paired 671472432
duped_unpaired 4615
optical_dup 151010456
paired 1198364686
reads 1205604539
secondary_supplementary 7229141
unmapped 10644
unpaired 5356
optical dup clusters 74085234, maxdup 77, total optical dup pairs 151010456
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: 59913204754
reads: 1205609827
contig: 3367 intervals 3217346917 bases
MateInfoByVcf::buildInfoMap: 2663606 calls 12.164 user 0.302 sys 13.055 real
MateInfoByVcf::load: 2663606 calls 2138.342 user 10.738 sys 2077.969 real
MateInfoByVcf::parse_events: 2663606 calls 2049.018 user 9.213 sys 2021.590 real
advance: 3219322 calls 979.771 user 19.502 sys 1052.163 real
calc: 3219322 calls 9664.276 user 29.713 sys 9774.518 real
done: 1 calls 0.045 user 0.009 sys 0.060 real
exec_no_coor: 1 calls 0.000 user 0.019 sys 0.025 real
execute: 1 calls 0.006 user 0.003 sys 488.588 real
fetch: 3219323 calls 530.736 user 1.496 sys 517.697 real
find_pairEnds: 2663606 calls 631.509 user 0.886 sys 652.579 real
idle: 86185 calls 45.316 user 0.826 sys 1467.044 real
init: 1 calls 0.000 user 0.000 sys 0.006 real
markDup: 2663606 calls 2390.615 user 6.185 sys 2475.650 real
vcfadvance: 2663606 calls 6.382 user 0.986 sys 6.908 real
write: 3219323 calls 7224.774 user 22.430 sys 7245.257 real
overall: 14622093312 mem 13572.776 user 83.230 sys 489.361 real