cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i 659_cVw-T1-TDNA-1_A23MHWWLT4_1.bam -r Homo_sapiens_assembly38.fasta --algo LocusCollector --fun score_info 659_cVw-T1-TDNA-1_A23MHWWLT4_1.md.score
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:151000001, elapsed 4.4s, est remaining 84.1s, peak mem 6843MB, user 100.9s, sys 5.5s, output queue size 145
progress 10% @chr2:84000001, elapsed 8.8s, est remaining 79.2s, peak mem 9850MB, user 218.4s, sys 13.2s, output queue size 117
progress 15% @chr3:18000001, elapsed 13.4s, est remaining 76.1s, peak mem 14326MB, user 352.4s, sys 19.0s, output queue size 203
progress 20% @chr3:178000001, elapsed 17.1s, est remaining 68.5s, peak mem 14753MB, user 461.0s, sys 21.7s, output queue size 364
progress 25% @chr4:137000001, elapsed 20.4s, est remaining 61.3s, peak mem 15003MB, user 565.1s, sys 25.0s, output queue size 335
progress 30% @chr4:54000001, elapsed 23.1s, est remaining 53.8s, peak mem 15388MB, user 638.1s, sys 25.9s, output queue size 497
progress 35% @chr5:150000001, elapsed 26.4s, est remaining 49.1s, peak mem 15701MB, user 750.7s, sys 27.2s, output queue size 625
progress 40% @chr7:79000001, elapsed 30.7s, est remaining 46.0s, peak mem 16787MB, user 857.6s, sys 28.3s, output queue size 786
progress 45% @chr8:78000001, elapsed 36.0s, est remaining 44.0s, peak mem 17527MB, user 995.8s, sys 29.8s, output queue size 948
progress 50% @chr9:93000001, elapsed 40.3s, est remaining 40.3s, peak mem 18115MB, user 1106.7s, sys 30.9s, output queue size 1110
progress 55% @chr10:118000001, elapsed 45.0s, est remaining 36.8s, peak mem 18115MB, user 1236.8s, sys 32.3s, output queue size 1271
progress 60% @chr11:76000001, elapsed 49.3s, est remaining 32.9s, peak mem 18115MB, user 1388.1s, sys 33.5s, output queue size 1433
progress 65% @chr13:24000001, elapsed 54.4s, est remaining 29.3s, peak mem 18115MB, user 1544.5s, sys 34.7s, output queue size 851
progress 70% @chr14:71000001, elapsed 57.2s, est remaining 24.5s, peak mem 18115MB, user 1659.1s, sys 35.6s, output queue size 833
progress 75% @chr16:42000001, elapsed 62.4s, est remaining 20.8s, peak mem 18115MB, user 1791.9s, sys 37.0s, output queue size 995
progress 80% @chr18:9000001, elapsed 69.5s, est remaining 17.4s, peak mem 18115MB, user 1996.3s, sys 38.6s, output queue size 1157
progress 85% @chr20:43000001, elapsed 76.3s, est remaining 13.5s, peak mem 18206MB, user 2168.4s, sys 40.0s, output queue size 1319
progress 90% @chrX:43000001, elapsed 80.7s, est remaining 9.0s, peak mem 19060MB, user 2290.0s, sys 41.0s, output queue size 1481
progress 95% @chrY:54000001, elapsed 83.1s, est remaining 4.4s, peak mem 19060MB, user 2437.9s, sys 42.4s, output queue size 1109
progress 100% @chr15:88000001, elapsed 98.3s, est remaining 0.0s, peak mem 19060MB, user 2603.2s, sys 43.6s, 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: 77758550451
reads: 1583694629
contig: 3367 intervals 3217346917 bases
LocusCollector::merge: 1 calls 2.221 user 0.483 sys 4.223 real
VcfLineRecordHelper::sort: 93 calls 3.731 user 0.100 sys 3.828 real
advance: 3219322 calls 1331.167 user 35.310 sys 1368.843 real
calc: 3219322 calls 530.774 user 3.250 sys 533.503 real
done: 1 calls 2.221 user 0.483 sys 4.224 real
execute: 1 calls 0.010 user 0.000 sys 98.276 real
fetch: 3219322 calls 631.429 user 2.941 sys 635.155 real
idle: 594 calls 0.197 user 0.002 sys 555.737 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 19986059264 mem 2616.091 user 44.820 sys 103.747 real
cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i 659_cVw-T1-TDNA-1_A23MHWWLT4_1.bam -r Homo_sapiens_assembly38.fasta --algo Dedup --score_info 659_cVw-T1-TDNA-1_A23MHWWLT4_1.md.score --metrics 659_cVw-T1-TDNA-1_A23MHWWLT4_1.md.metrics 659_cVw-T1-TDNA-1_A23MHWWLT4_1.md.bam
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:177000001, elapsed 31.2s, est remaining 593.2s, peak mem 7962MB, user 803.2s, sys 8.1s, output queue size 44
progress 10% @chr2:71000001, elapsed 58.7s, est remaining 528.0s, peak mem 13961MB, user 1636.3s, sys 13.7s, output queue size 68
progress 15% @chr2:232000001, elapsed 93.4s, est remaining 529.5s, peak mem 16498MB, user 2611.6s, sys 18.5s, output queue size 203
progress 20% @chr3:174000001, elapsed 120.4s, est remaining 481.7s, peak mem 16672MB, user 3479.5s, sys 25.5s, output queue size 174
progress 25% @chr4:98000001, elapsed 143.5s, est remaining 430.4s, peak mem 16905MB, user 4205.4s, sys 29.1s, output queue size 302
progress 30% @chr5:107000001, elapsed 161.5s, est remaining 376.8s, peak mem 17507MB, user 4785.6s, sys 31.8s, output queue size 464
progress 35% @chr6:78000001, elapsed 186.2s, est remaining 345.7s, peak mem 17507MB, user 5475.4s, sys 35.6s, output queue size 625
progress 40% @chr7:66000001, elapsed 218.1s, est remaining 327.1s, peak mem 18317MB, user 6255.6s, sys 39.5s, output queue size 786
progress 45% @chr8:72000001, elapsed 256.5s, est remaining 313.5s, peak mem 18545MB, user 7445.5s, sys 44.4s, output queue size 948
progress 50% @chr9:39000001, elapsed 288.0s, est remaining 288.0s, peak mem 18847MB, user 8154.4s, sys 47.3s, output queue size 1110
progress 55% @chr10:115000001, elapsed 323.1s, est remaining 264.4s, peak mem 19015MB, user 9436.4s, sys 52.6s, output queue size 527
progress 60% @chr12:1000001, elapsed 355.8s, est remaining 237.2s, peak mem 19015MB, user 10427.7s, sys 56.5s, output queue size 689
progress 65% @chr13:18000001, elapsed 393.6s, est remaining 211.9s, peak mem 19015MB, user 11357.9s, sys 60.0s, output queue size 851
progress 70% @chr14:72000001, elapsed 416.1s, est remaining 178.3s, peak mem 19015MB, user 12268.6s, sys 62.8s, output queue size 833
progress 75% @chr16:42000001, elapsed 454.1s, est remaining 151.4s, peak mem 19245MB, user 13343.8s, sys 67.0s, output queue size 995
progress 80% @chr18:10000001, elapsed 504.9s, est remaining 126.2s, peak mem 19253MB, user 14727.2s, sys 71.9s, output queue size 1157
progress 85% @chr17:40000001, elapsed 554.3s, est remaining 97.8s, peak mem 19297MB, user 16363.2s, sys 77.2s, output queue size 785
progress 90% @chrX:42000001, elapsed 582.7s, est remaining 64.7s, peak mem 20084MB, user 17470.8s, sys 81.0s, output queue size 513
progress 95% @chrY:55000001, elapsed 599.8s, est remaining 31.6s, peak mem 20084MB, user 17980.8s, sys 83.3s, output queue size 675
progress 100% @chr15:88000001, elapsed 673.3s, est remaining 0.0s, peak mem 20084MB, user 18790.3s, sys 86.7s, output queue size 4099
library 659_cVw-T1-TDNA-1_A23MHWWLT4_1:
chimeric_paired 15199746
duped 965986358
duped_chimeric_paired 2214406
duped_paired 965979801
duped_unpaired 6557
optical_dup 212120829
paired 1576876172
reads 1583687915
secondary_supplementary 6796821
unmapped 14175
unpaired 7461
optical dup clusters 97457987, maxdup 69, total optical dup pairs 212120829
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: 77758550451
reads: 1583694629
contig: 3367 intervals 3217346917 bases
MateInfoByVcf::buildInfoMap: 2685049 calls 20.683 user 0.478 sys 22.955 real
MateInfoByVcf::load: 2685049 calls 2387.006 user 11.957 sys 2346.109 real
MateInfoByVcf::parse_events: 2685049 calls 2277.412 user 10.018 sys 2263.170 real
advance: 3219322 calls 1285.492 user 26.458 sys 1372.474 real
calc: 3219322 calls 14046.734 user 41.929 sys 14186.248 real
done: 1 calls 0.044 user 0.018 sys 0.070 real
exec_no_coor: 1 calls 0.003 user 0.018 sys 0.030 real
execute: 1 calls 0.004 user 0.001 sys 676.485 real
fetch: 3219323 calls 765.596 user 2.179 sys 760.258 real
find_pairEnds: 2685049 calls 963.980 user 1.136 sys 987.027 real
idle: 90536 calls 35.227 user 1.369 sys 1972.795 real
init: 1 calls 0.010 user 0.000 sys 0.006 real
markDup: 2685049 calls 3593.838 user 7.801 sys 3704.003 real
vcfadvance: 2685049 calls 11.554 user 1.467 sys 12.341 real
write: 3219323 calls 10375.272 user 32.903 sys 10399.026 real
overall: 21059653632 mem 18835.477 user 111.257 sys 677.914 real