This software is licensed to bgold@natera.com by Sentieon Inc.
cmdline: /opt/sentieon/sentieon-genomics-202308.03/libexec/util sort -r human_g1k_v37_decoy.fasta -o test_sample_1_sorted.bam -t 8 --sam2bam -i -
This software is licensed to bgold@natera.com by Sentieon Inc.
version: sentieon-genomics-202308.03
[M::bwa_idx_load_from_disk] read 0 ALT contigs
[M::main_mem] bwa index loaded in 1247.542 CPU sec, 164.056 real sec
[M::process] read 100 sequences (12600 bp) in 0.000 CPU sec, 0.000 real sec...
[M::mem_process_seqs] Processed 100 reads in 0.015 CPU sec, 0.002 real sec
os version: Linux 6.12.83
cpu vendor: GenuineIntel
 signature: 00050657
  features: 1f8bfbff fffa3203
  extended: d19f47ab 00000018
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) Platinum 8259CL CPU @ 2.50GHz
threads: 8
algo: bwa-mem
license: sentieon:klib=8
reads: 100
overall: 20896317440 mem 1166.654 user 83.219 sys 166.362 real
[main] Version: 0.7.17-r1188
[main] CMD: /opt/sentieon/sentieon-genomics-202308.03/libexec/bwa mem -R @RG\tID:test_sample_1\tSM:test_sample_1\tPL:ILLUMINA -t 8 human_g1k_v37_decoy.fasta -
[main] Real time: 166.396 sec; CPU: 1249.876 sec
sorting block 0, #reads = 100 mem = 35286 peak = 38748160
uniq header count 1
merging 1 blocks
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.83
cpu vendor: GenuineIntel
 signature: 00050657
  features: 1f8bfbff fffa3203
  extended: d19f47ab 00000018
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) Platinum 8259CL CPU @ 2.50GHz
threads: 8 max 64
algo: util-sort
license: sentieon:util=1
output file size: 11427
output reads: 100
bam_mem_sort: 1 calls 0.000 user 0.000 sys 0.000 real
bam_write: 1 calls 0.000 user 0.000 sys 0.001 real
execute: 1 calls 0.016 user 0.033 sys 166.410 real
merge_files: 1 calls 0.016 user 0.021 sys 0.045 real
parse_chunk: 1 calls 0.000 user 0.000 sys 0.000 real
read_chunk: 4 calls 0.000 user 0.000 sys 2.324 real
sort_block: 1 calls 0.001 user 0.000 sys 2.320 real
write_chunk: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 86962176 mem 0.060 user 0.036 sys 166.432 real
cmdline: /opt/sentieon/sentieon-genomics-202308.03/libexec/driver -r human_g1k_v37_decoy.fasta -t 8 -i test_sample_1_sorted.bam --algo QualDistribution test_sample_1_qd_metrics.txt --algo MeanQualityByCycle test_sample_1_mq_metrics.txt
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @1:156000001, elapsed 0.0s, est remaining 0.9s, peak mem 44MB, user 0.1s, sys 0.1s, output queue size 1
progress 10% @2:64000001, elapsed 0.1s, est remaining 0.8s, peak mem 44MB, user 0.3s, sys 0.3s, output queue size 1
progress 15% @2:221000001, elapsed 0.1s, est remaining 0.7s, peak mem 44MB, user 0.4s, sys 0.5s, output queue size 1
progress 20% @3:128000001, elapsed 0.2s, est remaining 0.8s, peak mem 44MB, user 0.9s, sys 0.6s, output queue size 8
progress 25% @4:93000001, elapsed 0.2s, est remaining 0.7s, peak mem 44MB, user 1.0s, sys 0.8s, output queue size 1
progress 30% @5:59000001, elapsed 0.3s, est remaining 0.7s, peak mem 44MB, user 1.2s, sys 0.9s, output queue size 1
progress 35% @6:35000001, elapsed 0.3s, est remaining 0.6s, peak mem 44MB, user 1.4s, sys 1.0s, output queue size 1
progress 40% @7:20000001, elapsed 0.4s, est remaining 0.6s, peak mem 44MB, user 1.5s, sys 1.2s, output queue size 2
progress 45% @8:19000001, elapsed 0.4s, est remaining 0.5s, peak mem 44MB, user 1.7s, sys 1.3s, output queue size 1
progress 50% @9:29000001, elapsed 0.5s, est remaining 0.5s, peak mem 44MB, user 1.9s, sys 1.5s, output queue size 1
progress 55% @10:45000001, elapsed 0.5s, est remaining 0.4s, peak mem 44MB, user 2.3s, sys 1.6s, output queue size 1
progress 60% @11:67000001, elapsed 0.6s, est remaining 0.4s, peak mem 44MB, user 2.5s, sys 1.7s, output queue size 1
progress 65% @12:87000001, elapsed 0.6s, est remaining 0.3s, peak mem 44MB, user 2.7s, sys 1.8s, output queue size 2
progress 70% @13:111000001, elapsed 0.7s, est remaining 0.3s, peak mem 44MB, user 3.1s, sys 1.9s, output queue size 2
progress 75% @15:44000001, elapsed 0.7s, est remaining 0.2s, peak mem 44MB, user 3.2s, sys 2.1s, output queue size 2
progress 80% @17:9000001, elapsed 0.7s, est remaining 0.2s, peak mem 44MB, user 3.4s, sys 2.2s, output queue size 1
progress 85% @19:4000001, elapsed 0.8s, est remaining 0.1s, peak mem 44MB, user 3.7s, sys 2.3s, output queue size 4
progress 90% @21:48000001, elapsed 0.8s, est remaining 0.1s, peak mem 44MB, user 3.9s, sys 2.4s, output queue size 1
progress 95% @X:99000001, elapsed 0.9s, est remaining 0.0s, peak mem 44MB, user 4.2s, sys 2.5s, output queue size 1
progress 100% @hs37d5:33000001, elapsed 0.9s, est remaining 0.0s, peak mem 44MB, user 4.4s, sys 2.7s, output queue size 3
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.83
cpu vendor: GenuineIntel
 signature: 00050657
  features: 1f8bfbff fffa3203
  extended: d19f47ab 00000018
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) Platinum 8259CL CPU @ 2.50GHz
threads: 8 max 64
algo: QualDistribution MeanQualityByCycle
license: sentieon:Metrics=8
input file size: 11427
reads: 100
contig: 87 intervals 3137454505 bases
advance: 3137496 calls 2.164 user 1.175 sys 3.784 real
done: 1 calls 0.000 user 0.000 sys 0.000 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.000 user 0.007 sys 0.924 real
idle: 16 calls 0.009 user 0.005 sys 8.012 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 46235648 mem 4.558 user 2.825 sys 1.960 real