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 1011.417 CPU sec, 129.124 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 0.008 CPU sec, 0.001 real sec
os version: Linux 6.12.88
cpu vendor: GenuineIntel
 signature: 000c06f2
  features: 1f8bfbff fffab20b
  extended: f1bf07ab 1a407f7e
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) Platinum 8559C
threads: 8
algo: bwa-mem
license: sentieon:klib=8
reads: 100
overall: 20911607808 mem 1000.764 user 11.659 sys 130.114 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: 130.139 sec; CPU: 1012.426 sec
sorting block 0, #reads = 100 mem = 35286 peak = 40714240
uniq header count 1
merging 1 blocks
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
cpu vendor: GenuineIntel
 signature: 000c06f2
  features: 1f8bfbff fffab20b
  extended: f1bf07ab 1a407f7e
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) Platinum 8559C
threads: 8 max 24
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 0.007 user 0.023 sys 130.144 real
merge_files: 1 calls 0.000 user 0.023 sys 0.029 real
parse_chunk: 1 calls 0.000 user 0.000 sys 0.000 real
read_chunk: 4 calls 0.000 user 0.003 sys 1.002 real
sort_block: 1 calls 0.000 user 0.000 sys 1.000 real
write_chunk: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 90218496 mem 0.029 user 0.031 sys 130.162 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% @1:153000001, elapsed 0.0s, est remaining 0.5s, peak mem 46MB, user 0.1s, sys 0.1s, output queue size 4
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progress 50% @9:29000001, elapsed 0.3s, est remaining 0.3s, peak mem 46MB, user 1.0s, sys 0.9s, output queue size 1
progress 55% @10:45000001, elapsed 0.3s, est remaining 0.3s, peak mem 46MB, user 1.2s, sys 1.1s, output queue size 1
progress 60% @11:66000001, elapsed 0.3s, est remaining 0.2s, peak mem 46MB, user 1.3s, sys 1.1s, output queue size 1
progress 65% @12:88000001, elapsed 0.4s, est remaining 0.2s, peak mem 46MB, user 1.4s, sys 1.2s, output queue size 1
progress 70% @13:111000001, elapsed 0.4s, est remaining 0.2s, peak mem 46MB, user 1.6s, sys 1.3s, output queue size 2
progress 75% @15:45000001, elapsed 0.4s, est remaining 0.1s, peak mem 46MB, user 1.8s, sys 1.4s, output queue size 1
progress 80% @17:9000001, elapsed 0.4s, est remaining 0.1s, peak mem 46MB, user 1.8s, sys 1.4s, output queue size 1
progress 85% @19:7000001, elapsed 0.5s, est remaining 0.1s, peak mem 46MB, user 1.9s, sys 1.5s, output queue size 1
progress 90% @21:41000001, elapsed 0.5s, est remaining 0.1s, peak mem 46MB, user 2.0s, sys 1.6s, output queue size 2
progress 95% @X:99000001, elapsed 0.5s, est remaining 0.0s, peak mem 46MB, user 2.1s, sys 1.7s, output queue size 1
progress 100% @hs37d5:34000001, elapsed 0.5s, est remaining 0.0s, peak mem 46MB, user 2.2s, sys 1.8s, output queue size 2
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
cpu vendor: GenuineIntel
 signature: 000c06f2
  features: 1f8bfbff fffab20b
  extended: f1bf07ab 1a407f7e
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) Platinum 8559C
threads: 8 max 24
algo: QualDistribution MeanQualityByCycle
license: sentieon:Metrics=8
input file size: 11427
reads: 100
contig: 87 intervals 3137454505 bases
advance: 3137496 calls 1.165 user 0.822 sys 2.259 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 0.003 user 0.001 sys 0.533 real
idle: 16 calls 0.027 user 0.024 sys 8.006 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 49119232 mem 2.320 user 1.918 sys 1.556 real