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% @chr1:170000001, elapsed 0.1s, est remaining 1.6s, peak mem 81MB, user 0.1s, sys 2.0s, output queue size 14
progress 10% @chr2:55000001, elapsed 0.2s, est remaining 1.5s, peak mem 81MB, user 0.3s, sys 4.2s, output queue size 20
progress 15% @chr2:236000001, elapsed 0.2s, est remaining 1.3s, peak mem 81MB, user 0.5s, sys 6.3s, output queue size 16
progress 20% @chr3:160000001, elapsed 0.3s, est remaining 1.2s, peak mem 81MB, user 0.6s, sys 8.5s, output queue size 17
progress 25% @chr4:114000001, elapsed 0.4s, est remaining 1.2s, peak mem 81MB, user 0.8s, sys 10.7s, output queue size 9
progress 30% @chr5:86000001, elapsed 0.5s, est remaining 1.1s, peak mem 81MB, user 0.9s, sys 13.1s, output queue size 2
progress 35% @chr6:63000001, elapsed 0.5s, est remaining 1.0s, peak mem 81MB, user 1.0s, sys 15.5s, output queue size 2
progress 40% @chr7:54000001, elapsed 0.6s, est remaining 0.9s, peak mem 81MB, user 1.1s, sys 17.8s, output queue size 2
progress 45% @chr8:58000001, elapsed 0.7s, est remaining 0.9s, peak mem 81MB, user 1.3s, sys 20.1s, output queue size 4
progress 50% @chr9:73000001, elapsed 0.8s, est remaining 0.8s, peak mem 81MB, user 1.4s, sys 22.4s, output queue size 4
progress 55% @chr10:96000001, elapsed 0.9s, est remaining 0.7s, peak mem 81MB, user 1.5s, sys 24.6s, output queue size 15
progress 60% @chr11:124000001, elapsed 0.9s, est remaining 0.6s, peak mem 81MB, user 1.7s, sys 26.9s, output queue size 3
progress 65% @chr13:14000001, elapsed 1.0s, est remaining 0.6s, peak mem 81MB, user 1.9s, sys 29.2s, output queue size 11
progress 70% @chr14:60000001, elapsed 1.1s, est remaining 0.5s, peak mem 81MB, user 2.1s, sys 31.5s, output queue size 3
progress 75% @chr16:15000001, elapsed 1.2s, est remaining 0.4s, peak mem 81MB, user 2.4s, sys 33.7s, output queue size 14
progress 80% @chr18:2000001, elapsed 1.3s, est remaining 0.3s, peak mem 81MB, user 2.5s, sys 36.0s, output queue size 3
progress 85% @chr20:22000001, elapsed 1.3s, est remaining 0.2s, peak mem 81MB, user 2.7s, sys 38.1s, output queue size 15
progress 90% @chrX:32000001, elapsed 1.4s, est remaining 0.2s, peak mem 124MB, user 3.3s, sys 40.1s, output queue size 114
progress 95% @chrY:33000001, elapsed 1.5s, est remaining 0.1s, peak mem 151MB, user 3.5s, sys 42.8s, output queue size 271
progress 100% @chr21:41000001, elapsed 1.8s, est remaining 0.0s, peak mem 169MB, user 4.2s, sys 45.8s, output queue size 3664
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.83
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: 49125448
reads: 1001838
contig: 3367 intervals 3217346917 bases
LocusCollector::merge: 1 calls 0.043 user 0.016 sys 0.066 real
VcfLineRecordHelper::sort: 30 calls 0.010 user 0.000 sys 0.000 real
advance: 3219322 calls 1.116 user 8.895 sys 10.389 real
calc: 3219322 calls 0.384 user 7.369 sys 7.870 real
done: 1 calls 0.043 user 0.016 sys 0.066 real
execute: 1 calls 0.001 user 0.001 sys 1.814 real
fetch: 3219322 calls 0.357 user 6.923 sys 7.878 real
idle: 79 calls 0.002 user 0.008 sys 36.540 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 227979264 mem 4.401 user 46.379 sys 2.896 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% @chr1:147000001, elapsed 0.2s, est remaining 3.7s, peak mem 200MB, user 0.4s, sys 4.8s, output queue size 14
progress 10% @chr2:56000001, elapsed 0.4s, est remaining 3.2s, peak mem 229MB, user 0.7s, sys 9.3s, output queue size 17
progress 15% @chr2:241000001, elapsed 0.5s, est remaining 2.9s, peak mem 244MB, user 1.2s, sys 13.7s, output queue size 18
progress 20% @chr3:158000001, elapsed 0.7s, est remaining 2.7s, peak mem 253MB, user 1.5s, sys 18.4s, output queue size 7
progress 25% @chr4:123000001, elapsed 0.8s, est remaining 2.5s, peak mem 263MB, user 1.8s, sys 23.0s, output queue size 20
progress 30% @chr5:92000001, elapsed 1.0s, est remaining 2.3s, peak mem 263MB, user 2.2s, sys 27.5s, output queue size 19
progress 35% @chr6:69000001, elapsed 1.2s, est remaining 2.1s, peak mem 272MB, user 2.6s, sys 32.2s, output queue size 22
progress 40% @chr7:60000001, elapsed 1.3s, est remaining 2.0s, peak mem 277MB, user 2.9s, sys 37.0s, output queue size 25
progress 45% @chr8:62000001, elapsed 1.5s, est remaining 1.8s, peak mem 283MB, user 3.2s, sys 42.0s, output queue size 18
progress 50% @chr9:72000001, elapsed 1.7s, est remaining 1.7s, peak mem 286MB, user 3.6s, sys 47.0s, output queue size 11
progress 55% @chr10:96000001, elapsed 1.8s, est remaining 1.5s, peak mem 287MB, user 3.9s, sys 51.6s, output queue size 25
progress 60% @chr11:123000001, elapsed 2.0s, est remaining 1.3s, peak mem 287MB, user 4.2s, sys 56.2s, output queue size 22
progress 65% @chr13:20000001, elapsed 2.2s, est remaining 1.2s, peak mem 289MB, user 4.5s, sys 61.2s, output queue size 27
progress 70% @chr14:60000001, elapsed 2.3s, est remaining 1.0s, peak mem 293MB, user 4.7s, sys 66.3s, output queue size 3
progress 75% @chr16:14000001, elapsed 2.5s, est remaining 0.8s, peak mem 296MB, user 4.9s, sys 71.2s, output queue size 24
progress 80% @chr18:1000001, elapsed 2.7s, est remaining 0.7s, peak mem 299MB, user 5.1s, sys 76.1s, output queue size 5
progress 85% @chr20:21000001, elapsed 2.8s, est remaining 0.5s, peak mem 302MB, user 5.3s, sys 81.0s, output queue size 2
progress 90% @chrX:40000001, elapsed 3.1s, est remaining 0.3s, peak mem 514MB, user 7.9s, sys 83.7s, output queue size 114
progress 95% @chrY:33000001, elapsed 3.2s, est remaining 0.2s, peak mem 527MB, user 11.4s, sys 86.5s, output queue size 243
progress 100% @chr21:41000001, elapsed 4.3s, est remaining 0.0s, peak mem 542MB, user 14.4s, sys 90.7s, 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 6.12.83
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: 49125448
reads: 1001838
contig: 3367 intervals 3217346917 bases
MateInfoByVcf::buildInfoMap: 28282 calls 0.000 user 0.021 sys 0.052 real
MateInfoByVcf::load: 28282 calls 4.168 user 0.954 sys 3.953 real
MateInfoByVcf::parse_events: 28282 calls 4.161 user 0.890 sys 3.732 real
advance: 3219322 calls 1.234 user 10.264 sys 13.540 real
calc: 3219322 calls 4.628 user 32.946 sys 38.841 real
done: 1 calls 0.000 user 0.000 sys 0.003 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.006 user 0.002 sys 4.373 real
fetch: 3219323 calls 0.357 user 10.898 sys 12.092 real
find_pairEnds: 28282 calls 0.173 user 0.011 sys 0.375 real
idle: 1248 calls 0.045 user 0.177 sys 57.836 real
init: 1 calls 0.000 user 0.000 sys 0.006 real
markDup: 28282 calls 0.787 user 0.122 sys 1.442 real
vcfadvance: 28282 calls 0.007 user 0.115 sys 0.120 real
write: 3219323 calls 2.539 user 11.644 sys 13.636 real
overall: 568868864 mem 15.028 user 91.836 sys 5.380 real