Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Sequence/WholeGenomeFasta/Homo_sapiens_assembly38.fasta
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7d/08f457530416c4a33adba6c883fa95/.command.sh
  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Sequence/WholeGenomeFasta/Homo_sapiens_assembly38.fasta.fai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7d/08f457530416c4a33adba6c883fa95/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6e/08e6b3f65b7a9c67907262130bdda1/Sig_18_Blood.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6e/08e6b3f65b7a9c67907262130bdda1/Sig_18_Blood.md.bam.bai
  Downloading: s3://natera-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/foresight/xgen-exome-hyb-panel-v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity.bed
  Downloading: s3://natera-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/xgen-exome-hyb-panel-v2-targets-hg38_minus_altera_v3_targets_postQC_hg38.bed
==> STAGING COMPLETE (8 inputs)

cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -r Homo_sapiens_assembly38.fasta -i Sig_18_Blood.md.bam --algo HsMetricAlgo --targets_list targets/xgen-exome-hyb-panel-v2-targets-hg38_minus_altera_v3_targets_postQC_hg38.bed --baits_list baits/xgen-exome-hyb-panel-v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity.bed Sig_18_Blood_xgen-exome-hyb-panel-v2-targets-hg38_minus_altera_v3_targets_postQC_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:165000001, elapsed 0.0s, est remaining 0.9s, peak mem 114MB, user 0.1s, sys 0.8s, output queue size 23
progress 10% @chr2:73000001, elapsed 0.1s, est remaining 0.8s, peak mem 114MB, user 0.1s, sys 2.0s, output queue size 45
progress 15% @chr2:200000001, elapsed 0.1s, est remaining 0.7s, peak mem 114MB, user 0.1s, sys 3.3s, output queue size 35
progress 20% @chr3:158000001, elapsed 0.2s, est remaining 0.7s, peak mem 114MB, user 0.2s, sys 4.4s, output queue size 8
progress 25% @chr4:116000001, elapsed 0.2s, est remaining 0.6s, peak mem 114MB, user 0.3s, sys 5.6s, output queue size 33
progress 30% @chr5:84000001, elapsed 0.2s, est remaining 0.6s, peak mem 114MB, user 0.3s, sys 6.8s, output queue size 35
progress 35% @chr6:33000001, elapsed 0.3s, est remaining 0.5s, peak mem 114MB, user 0.4s, sys 8.0s, output queue size 32
progress 40% @chr7:54000001, elapsed 0.3s, est remaining 0.5s, peak mem 114MB, user 0.4s, sys 9.2s, output queue size 29
progress 45% @chr8:55000001, elapsed 0.4s, est remaining 0.5s, peak mem 114MB, user 0.5s, sys 10.4s, output queue size 3
progress 50% @chr9:71000001, elapsed 0.4s, est remaining 0.4s, peak mem 114MB, user 0.5s, sys 11.6s, output queue size 26
progress 55% @chr10:97000001, elapsed 0.5s, est remaining 0.4s, peak mem 114MB, user 0.6s, sys 12.8s, output queue size 32
progress 60% @chr11:124000001, elapsed 0.5s, est remaining 0.3s, peak mem 114MB, user 0.6s, sys 14.0s, output queue size 16
progress 65% @chr13:20000001, elapsed 0.5s, est remaining 0.3s, peak mem 114MB, user 0.7s, sys 15.2s, output queue size 22
progress 70% @chr14:62000001, elapsed 0.6s, est remaining 0.2s, peak mem 114MB, user 0.7s, sys 16.4s, output queue size 12
progress 75% @chr16:12000001, elapsed 0.6s, est remaining 0.2s, peak mem 114MB, user 0.8s, sys 17.5s, output queue size 14
progress 80% @chr17:81000001, elapsed 0.7s, est remaining 0.2s, peak mem 114MB, user 0.8s, sys 18.8s, output queue size 5
progress 85% @chr19:45000001, elapsed 0.7s, est remaining 0.1s, peak mem 114MB, user 0.8s, sys 20.0s, output queue size 36
progress 90% @chrX:34000001, elapsed 0.8s, est remaining 0.1s, peak mem 139MB, user 1.4s, sys 20.9s, output queue size 114
progress 95% @chrY:33000001, elapsed 0.8s, est remaining 0.0s, peak mem 150MB, user 1.8s, sys 22.0s, output queue size 276
progress 100% @chr21:41000001, elapsed 1.2s, est remaining 0.0s, peak mem 172MB, user 3.0s, sys 23.8s, output queue size 3664
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: HsMetricAlgo
license: sentieon:Metrics=31
input file size: 52290597
reads: 1001133
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.219 user 12.273 sys 13.945 real
done: 1 calls 0.004 user 0.000 sys 0.010 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.005 user 0.002 sys 1.170 real
idle: 62 calls 0.002 user 0.007 sys 39.380 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 181182464 mem 3.391 user 24.540 sys 2.615 real