cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i 1136_7GC-T1-TDNA-1_A23MHWWLT4_1.bam -r Homo_sapiens_assembly38.fasta --algo LocusCollector --fun score_info 1136_7GC-T1-TDNA-1_A23MHWWLT4_1.md.score
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:169000001, elapsed 4.9s, est remaining 92.3s, peak mem 6037MB, user 107.9s, sys 5.5s, output queue size 146
progress 10% @chr2:84000001, elapsed 8.9s, est remaining 80.1s, peak mem 7377MB, user 226.0s, sys 9.1s, output queue size 166
progress 15% @chr3:8000001, elapsed 13.1s, est remaining 74.1s, peak mem 9451MB, user 362.6s, sys 17.3s, output queue size 122
progress 20% @chr3:174000001, elapsed 16.6s, est remaining 66.4s, peak mem 9869MB, user 458.7s, sys 19.4s, output queue size 283
progress 25% @chr4:135000001, elapsed 19.7s, est remaining 59.2s, peak mem 9931MB, user 551.6s, sys 20.8s, output queue size 444
progress 30% @chr5:79000001, elapsed 22.2s, est remaining 51.7s, peak mem 10244MB, user 626.2s, sys 22.1s, output queue size 464
progress 35% @chr6:27000001, elapsed 25.6s, est remaining 47.6s, peak mem 10781MB, user 727.4s, sys 23.6s, output queue size 625
progress 40% @chr7:79000001, elapsed 29.9s, est remaining 44.9s, peak mem 11686MB, user 826.3s, sys 24.9s, output queue size 786
progress 45% @chr8:78000001, elapsed 34.5s, est remaining 42.2s, peak mem 11890MB, user 970.9s, sys 27.4s, output queue size 948
progress 50% @chr9:81000001, elapsed 38.4s, est remaining 38.4s, peak mem 12380MB, user 1077.2s, sys 28.7s, output queue size 1110
progress 55% @chr10:101000001, elapsed 42.7s, est remaining 35.0s, peak mem 12535MB, user 1230.2s, sys 30.1s, output queue size 527
progress 60% @chr11:134000001, elapsed 47.0s, est remaining 31.3s, peak mem 12535MB, user 1364.5s, sys 31.2s, output queue size 510
progress 65% @chr13:39000001, elapsed 51.6s, est remaining 27.8s, peak mem 13112MB, user 1487.9s, sys 32.6s, output queue size 672
progress 70% @chr14:69000001, elapsed 54.3s, est remaining 23.3s, peak mem 13112MB, user 1566.5s, sys 33.4s, output queue size 833
progress 75% @chr16:40000001, elapsed 59.5s, est remaining 19.8s, peak mem 13224MB, user 1729.6s, sys 34.7s, output queue size 995
progress 80% @chr18:10000001, elapsed 66.1s, est remaining 16.5s, peak mem 13419MB, user 1936.0s, sys 36.1s, output queue size 623
progress 85% @chr19:42000001, elapsed 72.1s, est remaining 12.7s, peak mem 13419MB, user 2108.4s, sys 37.7s, output queue size 785
progress 90% @chrX:42000001, elapsed 76.2s, est remaining 8.5s, peak mem 13704MB, user 2234.9s, sys 38.6s, output queue size 947
progress 95% @chrY:52000001, elapsed 78.5s, est remaining 4.1s, peak mem 13737MB, user 2309.2s, sys 39.4s, output queue size 1109
progress 100% @chr15:88000001, elapsed 93.0s, est remaining 0.0s, peak mem 13737MB, user 2456.4s, sys 40.5s, 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: 72817114225
reads: 1535620780
contig: 3367 intervals 3217346917 bases
LocusCollector::merge: 1 calls 0.826 user 0.174 sys 1.056 real
VcfLineRecordHelper::sort: 42 calls 1.914 user 0.079 sys 1.958 real
advance: 3219322 calls 1266.087 user 32.449 sys 1300.773 real
calc: 3219322 calls 497.748 user 3.169 sys 502.617 real
done: 1 calls 0.826 user 0.174 sys 1.056 real
execute: 1 calls 0.002 user 0.002 sys 93.021 real
fetch: 3219322 calls 590.505 user 2.705 sys 593.762 real
idle: 475 calls 0.155 user 0.001 sys 445.178 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 14404620288 mem 2463.030 user 41.264 sys 95.363 real
cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i 1136_7GC-T1-TDNA-1_A23MHWWLT4_1.bam -r Homo_sapiens_assembly38.fasta --algo Dedup --score_info 1136_7GC-T1-TDNA-1_A23MHWWLT4_1.md.score --metrics 1136_7GC-T1-TDNA-1_A23MHWWLT4_1.md.metrics 1136_7GC-T1-TDNA-1_A23MHWWLT4_1.md.bam
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:154000001, elapsed 29.6s, est remaining 562.1s, peak mem 6713MB, user 764.2s, sys 8.4s, output queue size 44
progress 10% @chr2:46000001, elapsed 53.7s, est remaining 483.3s, peak mem 9443MB, user 1497.8s, sys 13.4s, output queue size 117
progress 15% @chr2:237000001, elapsed 80.3s, est remaining 455.2s, peak mem 11265MB, user 2310.6s, sys 19.4s, output queue size 122
progress 20% @chr3:155000001, elapsed 104.5s, est remaining 418.2s, peak mem 11575MB, user 3062.4s, sys 23.7s, output queue size 141
progress 25% @chr4:124000001, elapsed 125.2s, est remaining 375.6s, peak mem 11769MB, user 3681.2s, sys 26.8s, output queue size 302
progress 30% @chr5:88000001, elapsed 141.7s, est remaining 330.6s, peak mem 11942MB, user 4242.5s, sys 29.7s, output queue size 464
progress 35% @chr6:78000001, elapsed 166.0s, est remaining 308.3s, peak mem 12739MB, user 4848.1s, sys 32.9s, output queue size 625
progress 40% @chr7:6000001, elapsed 194.4s, est remaining 291.6s, peak mem 13712MB, user 5591.1s, sys 36.6s, output queue size 786
progress 45% @chr8:77000001, elapsed 223.7s, est remaining 273.4s, peak mem 13712MB, user 6627.9s, sys 41.7s, output queue size 204
progress 50% @chr9:37000001, elapsed 248.1s, est remaining 248.1s, peak mem 14259MB, user 7261.0s, sys 44.5s, output queue size 366
progress 55% @chr10:118000001, elapsed 276.9s, est remaining 226.6s, peak mem 14352MB, user 8196.2s, sys 48.8s, output queue size 348
progress 60% @chr12:5000001, elapsed 305.3s, est remaining 203.5s, peak mem 14352MB, user 9071.7s, sys 52.4s, output queue size 510
progress 65% @chr12:123000001, elapsed 334.3s, est remaining 180.0s, peak mem 14817MB, user 9869.2s, sys 55.7s, output queue size 672
progress 70% @chr14:78000001, elapsed 353.0s, est remaining 151.3s, peak mem 14817MB, user 10476.5s, sys 58.2s, output queue size 833
progress 75% @chr16:42000001, elapsed 384.0s, est remaining 128.0s, peak mem 14839MB, user 11468.9s, sys 62.0s, output queue size 461
progress 80% @chr18:10000001, elapsed 427.5s, est remaining 106.9s, peak mem 15046MB, user 12643.4s, sys 66.4s, output queue size 623
progress 85% @chr20:20000001, elapsed 466.1s, est remaining 82.3s, peak mem 15071MB, user 13871.0s, sys 71.0s, output queue size 785
progress 90% @chr22:24000001, elapsed 492.9s, est remaining 54.8s, peak mem 15488MB, user 14671.7s, sys 74.3s, output queue size 947
progress 95% @chrY:55000001, elapsed 508.7s, est remaining 26.8s, peak mem 15500MB, user 15308.6s, sys 76.8s, output queue size 675
progress 100% @chr15:88000001, elapsed 563.5s, est remaining 0.0s, peak mem 15500MB, user 15902.3s, sys 78.9s, output queue size 4099
library 1136_7GC-T1-TDNA-1_A23MHWWLT4_1:
chimeric_paired 18479731
duped 941728716
duped_chimeric_paired 4398162
duped_paired 941722612
duped_unpaired 6104
optical_dup 111225184
paired 1525501580
reads 1535611152
secondary_supplementary 10095968
unmapped 16430
unpaired 6802
optical dup clusters 58652085, maxdup 81, total optical dup pairs 111225184
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: 72817114225
reads: 1535620780
contig: 3367 intervals 3217346917 bases
MateInfoByVcf::buildInfoMap: 2752605 calls 9.591 user 0.242 sys 10.603 real
MateInfoByVcf::load: 2752605 calls 2219.148 user 11.732 sys 2143.290 real
MateInfoByVcf::parse_events: 2752605 calls 2122.916 user 10.199 sys 2081.341 real
advance: 3219322 calls 1198.717 user 23.916 sys 1301.521 real
calc: 3219322 calls 11574.304 user 38.577 sys 11704.175 real
done: 1 calls 0.063 user 0.008 sys 0.075 real
exec_no_coor: 1 calls 0.040 user 0.011 sys 0.061 real
execute: 1 calls 0.001 user 0.001 sys 566.498 real
fetch: 3219323 calls 671.377 user 1.452 sys 662.876 real
find_pairEnds: 2752605 calls 788.869 user 0.897 sys 815.814 real
idle: 69706 calls 29.321 user 0.640 sys 1493.137 real
init: 1 calls 0.010 user 0.000 sys 0.006 real
markDup: 2752605 calls 3055.968 user 6.738 sys 3167.364 real
vcfadvance: 2752605 calls 4.911 user 0.835 sys 5.389 real
write: 3219323 calls 8449.297 user 30.859 sys 8461.526 real
overall: 16253083648 mem 15940.692 user 101.766 sys 567.940 real