cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i Sig_18_tissue.bam -r Homo_sapiens_assembly38.fasta --algo LocusCollector --fun score_info Sig_18_tissue.md.score
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:155000001, elapsed 0.1s, est remaining 1.3s, peak mem 81MB, user 0.4s, sys 1.3s, output queue size 6
progress 10% @chr2:71000001, elapsed 0.1s, est remaining 1.2s, peak mem 81MB, user 0.8s, sys 2.8s, output queue size 2
progress 15% @chr2:233000001, elapsed 0.2s, est remaining 1.1s, peak mem 81MB, user 1.2s, sys 4.3s, output queue size 2
progress 20% @chr3:152000001, elapsed 0.3s, est remaining 1.0s, peak mem 81MB, user 1.8s, sys 5.7s, output queue size 1
progress 25% @chr4:115000001, elapsed 0.3s, est remaining 1.0s, peak mem 81MB, user 2.2s, sys 7.2s, output queue size 2
progress 30% @chr5:86000001, elapsed 0.4s, est remaining 0.9s, peak mem 81MB, user 2.4s, sys 8.8s, output queue size 6
progress 35% @chr6:65000001, elapsed 0.4s, est remaining 0.8s, peak mem 81MB, user 2.9s, sys 10.3s, output queue size 9
progress 40% @chr7:54000001, elapsed 0.5s, est remaining 0.8s, peak mem 81MB, user 3.2s, sys 11.8s, output queue size 11
progress 45% @chr8:58000001, elapsed 0.6s, est remaining 0.7s, peak mem 81MB, user 4.1s, sys 12.9s, output queue size 17
progress 50% @chr9:74000001, elapsed 0.6s, est remaining 0.6s, peak mem 81MB, user 4.6s, sys 14.2s, output queue size 13
progress 55% @chr10:96000001, elapsed 0.7s, est remaining 0.6s, peak mem 81MB, user 5.2s, sys 15.6s, output queue size 18
progress 60% @chr11:122000001, elapsed 0.8s, est remaining 0.5s, peak mem 81MB, user 5.6s, sys 17.1s, output queue size 8
progress 65% @chr13:14000001, elapsed 0.8s, est remaining 0.4s, peak mem 81MB, user 6.0s, sys 18.6s, output queue size 11
progress 70% @chr14:60000001, elapsed 0.9s, est remaining 0.4s, peak mem 81MB, user 6.5s, sys 20.0s, output queue size 13
progress 75% @chr16:13000001, elapsed 0.9s, est remaining 0.3s, peak mem 81MB, user 6.8s, sys 21.6s, output queue size 15
progress 80% @chr18:1, elapsed 1.0s, est remaining 0.2s, peak mem 81MB, user 7.2s, sys 23.1s, output queue size 19
progress 85% @chr20:22000001, elapsed 1.1s, est remaining 0.2s, peak mem 81MB, user 7.5s, sys 24.7s, output queue size 21
progress 90% @chrX:50000001, elapsed 1.2s, est remaining 0.1s, peak mem 108MB, user 8.0s, sys 27.6s, output queue size 114
progress 95% @chrY:21000001, elapsed 1.4s, est remaining 0.1s, peak mem 132MB, user 8.3s, sys 32.7s, output queue size 271
progress 100% @chr21:41000001, elapsed 1.8s, est remaining 0.0s, peak mem 159MB, user 9.0s, sys 39.8s, output queue size 3664
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
cpu vendor: GenuineIntel
 signature: 000a06d1
  features: bfebfbff 7ffefbff
  extended: f3bfb7ef fb417ffe
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) 6975P-C
threads: 31 max 384
algo: LocusCollector
license: sentieon:Dedup=31
input file size: 49121344
reads: 1001838
contig: 3367 intervals 3217346917 bases
LocusCollector::merge: 1 calls 0.014 user 0.021 sys 0.048 real
VcfLineRecordHelper::sort: 29 calls 0.000 user 0.000 sys 0.000 real
advance: 3219322 calls 1.147 user 9.046 sys 11.074 real
calc: 3219322 calls 0.370 user 6.130 sys 6.494 real
done: 1 calls 0.014 user 0.021 sys 0.048 real
execute: 1 calls 0.001 user 0.002 sys 1.847 real
fetch: 3219322 calls 0.379 user 6.561 sys 6.582 real
idle: 76 calls 0.003 user 0.013 sys 37.884 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 217153536 mem 9.173 user 40.454 sys 2.912 real
cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i Sig_18_tissue.bam -r Homo_sapiens_assembly38.fasta --algo Dedup --score_info Sig_18_tissue.md.score --metrics Sig_18_tissue.md.metrics Sig_18_tissue.md.bam
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:161000001, elapsed 0.1s, est remaining 2.1s, peak mem 189MB, user 0.2s, sys 2.4s, output queue size 8
progress 10% @chr2:74000001, elapsed 0.2s, est remaining 1.7s, peak mem 213MB, user 0.4s, sys 4.7s, output queue size 18
progress 15% @chr2:234000001, elapsed 0.3s, est remaining 1.6s, peak mem 240MB, user 0.7s, sys 7.0s, output queue size 7
progress 20% @chr3:149000001, elapsed 0.4s, est remaining 1.4s, peak mem 255MB, user 0.9s, sys 9.4s, output queue size 4
progress 25% @chr4:113000001, elapsed 0.4s, est remaining 1.3s, peak mem 258MB, user 1.2s, sys 11.6s, output queue size 2
progress 30% @chr5:86000001, elapsed 0.5s, est remaining 1.2s, peak mem 261MB, user 1.4s, sys 13.9s, output queue size 9
progress 35% @chr6:66000001, elapsed 0.6s, est remaining 1.1s, peak mem 264MB, user 1.5s, sys 16.3s, output queue size 1
progress 40% @chr7:54000001, elapsed 0.7s, est remaining 1.0s, peak mem 270MB, user 1.8s, sys 18.5s, output queue size 1
progress 45% @chr8:57000001, elapsed 0.8s, est remaining 0.9s, peak mem 273MB, user 2.0s, sys 20.9s, output queue size 1
progress 50% @chr9:72000001, elapsed 0.8s, est remaining 0.8s, peak mem 279MB, user 2.2s, sys 23.2s, output queue size 1
progress 55% @chr10:92000001, elapsed 0.9s, est remaining 0.8s, peak mem 282MB, user 2.4s, sys 25.7s, output queue size 5
progress 60% @chr11:108000001, elapsed 1.1s, est remaining 0.7s, peak mem 282MB, user 2.7s, sys 30.5s, output queue size 31
progress 65% @chr13:33000001, elapsed 1.3s, est remaining 0.7s, peak mem 285MB, user 2.9s, sys 36.0s, output queue size 10
progress 70% @chr14:54000001, elapsed 1.5s, est remaining 0.6s, peak mem 288MB, user 3.2s, sys 42.2s, output queue size 27
progress 75% @chr16:34000001, elapsed 1.7s, est remaining 0.6s, peak mem 291MB, user 3.4s, sys 48.4s, output queue size 22
progress 80% @chr17:77000001, elapsed 1.9s, est remaining 0.5s, peak mem 294MB, user 3.6s, sys 54.8s, output queue size 25
progress 85% @chr20:19000001, elapsed 2.1s, est remaining 0.4s, peak mem 297MB, user 3.9s, sys 61.3s, output queue size 12
progress 90% @chrX:28000001, elapsed 2.5s, est remaining 0.3s, peak mem 489MB, user 7.3s, sys 65.7s, output queue size 109
progress 95% @chrY:33000001, elapsed 2.7s, est remaining 0.1s, peak mem 495MB, user 10.4s, sys 71.5s, output queue size 240
progress 100% @chr21:41000001, elapsed 3.7s, est remaining 0.0s, peak mem 507MB, user 12.7s, sys 78.4s, output queue size 3664
library Sig_18_tissue:
chimeric_paired 1886
duped 84376
duped_chimeric_paired 8
duped_paired 84374
duped_unpaired 2
optical_dup 3799
paired 999968
reads 1001834
secondary_supplementary 1858
unmapped 8
unpaired 4
optical dup clusters 3695, maxdup 3, total optical dup pairs 3799
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
cpu vendor: GenuineIntel
 signature: 000a06d1
  features: bfebfbff 7ffefbff
  extended: f3bfb7ef fb417ffe
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) 6975P-C
threads: 31 max 384
algo: Dedup
license: sentieon:Dedup=31
input file size: 49121344
reads: 1001838
contig: 3367 intervals 3217346917 bases
MateInfoByVcf::buildInfoMap: 28282 calls 0.002 user 0.028 sys 0.060 real
MateInfoByVcf::load: 28282 calls 4.203 user 1.165 sys 4.263 real
MateInfoByVcf::parse_events: 28282 calls 4.166 user 0.970 sys 3.998 real
advance: 3219322 calls 1.223 user 10.173 sys 11.528 real
calc: 3219322 calls 4.128 user 28.162 sys 33.268 real
done: 1 calls 0.000 user 0.000 sys 0.004 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.005 real
execute: 1 calls 0.002 user 0.002 sys 3.749 real
fetch: 3219323 calls 0.294 user 9.305 sys 9.539 real
find_pairEnds: 28282 calls 0.225 user 0.058 sys 0.375 real
idle: 987 calls 0.033 user 0.056 sys 52.903 real
init: 1 calls 0.010 user 0.000 sys 0.006 real
markDup: 28282 calls 0.814 user 0.246 sys 1.471 real
vcfadvance: 28282 calls 0.024 user 0.128 sys 0.175 real
write: 3219323 calls 2.170 user 8.916 sys 11.845 real
overall: 531701760 mem 13.146 user 79.508 sys 4.777 real