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/89/a81db754cf0b002b753b29e841b8f1/1136_3LU-T1-TDNA-1_A23MHWWLT4_1.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/05/28535534bbe5dad8d9f100f118109c/.command.sh
  Downloading: s3://natera-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/foresight/xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.bed
  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/05/28535534bbe5dad8d9f100f118109c/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/89/a81db754cf0b002b753b29e841b8f1/1136_3LU-T1-TDNA-1_A23MHWWLT4_1.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
==> STAGING COMPLETE (8 inputs)

cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -r Homo_sapiens_assembly38.fasta -i 1136_3LU-T1-TDNA-1_A23MHWWLT4_1.md.bam --algo HsMetricAlgo --targets_list targets/xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.bed --baits_list baits/xgen-exome-hyb-panel-v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity.bed 1136_3LU-T1-TDNA-1_A23MHWWLT4_1_xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:109000001, elapsed 5.2s, est remaining 99.3s, peak mem 4220MB, user 116.1s, sys 4.0s, output queue size 146
progress 10% @chr2:58000001, elapsed 10.2s, est remaining 91.9s, peak mem 5932MB, user 263.1s, sys 6.7s, output queue size 166
progress 15% @chr3:18000001, elapsed 15.0s, est remaining 85.1s, peak mem 8962MB, user 400.2s, sys 9.7s, output queue size 210
progress 20% @chr3:72000001, elapsed 18.8s, est remaining 75.2s, peak mem 10430MB, user 524.0s, sys 11.5s, output queue size 364
progress 25% @chr4:124000001, elapsed 22.4s, est remaining 67.3s, peak mem 10585MB, user 650.4s, sys 14.7s, output queue size 302
progress 30% @chr5:98000001, elapsed 25.1s, est remaining 58.5s, peak mem 10775MB, user 719.7s, sys 15.1s, output queue size 464
progress 35% @chr6:92000001, elapsed 28.7s, est remaining 53.3s, peak mem 10810MB, user 827.5s, sys 15.7s, output queue size 625
progress 40% @chr7:79000001, elapsed 33.5s, est remaining 50.2s, peak mem 10885MB, user 955.8s, sys 16.5s, output queue size 786
progress 45% @chr8:82000001, elapsed 38.4s, est remaining 46.9s, peak mem 11135MB, user 1113.7s, sys 17.5s, output queue size 204
progress 50% @chr8:143000001, elapsed 42.5s, est remaining 42.5s, peak mem 11721MB, user 1232.6s, sys 18.3s, output queue size 366
progress 55% @chr10:101000001, elapsed 47.6s, est remaining 38.9s, peak mem 11982MB, user 1367.9s, sys 19.1s, output queue size 527
progress 60% @chr11:134000001, elapsed 52.7s, est remaining 35.1s, peak mem 11982MB, user 1524.5s, sys 19.9s, output queue size 689
progress 65% @chr13:39000001, elapsed 57.7s, est remaining 31.1s, peak mem 12222MB, user 1671.2s, sys 20.7s, output queue size 672
progress 70% @chr14:71000001, elapsed 60.8s, est remaining 26.0s, peak mem 12252MB, user 1752.8s, sys 21.3s, output queue size 833
progress 75% @chr16:42000001, elapsed 67.0s, est remaining 22.3s, peak mem 12565MB, user 1952.1s, sys 22.4s, output queue size 989
progress 80% @chr18:29000001, elapsed 75.9s, est remaining 19.0s, peak mem 12743MB, user 2187.2s, sys 24.0s, output queue size 1151
progress 85% @chr19:55000001, elapsed 83.5s, est remaining 14.7s, peak mem 12752MB, user 2436.2s, sys 25.1s, output queue size 1313
progress 90% @chr22:28000001, elapsed 88.3s, est remaining 9.8s, peak mem 13015MB, user 2605.4s, sys 26.3s, output queue size 1475
progress 95% @chrY:55000001, elapsed 90.9s, est remaining 4.8s, peak mem 13349MB, user 2655.7s, sys 26.6s, output queue size 1637
progress 100% @chr22:23000001, elapsed 105.4s, est remaining 0.0s, peak mem 13513MB, user 2881.1s, sys 28.1s, output queue size 3635
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: 77410294291
reads: 1436635500
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1194.967 user 24.869 sys 1218.753 real
done: 1 calls 0.269 user 0.028 sys 0.301 real
exec_no_coor: 1 calls 0.005 user 0.005 sys 0.014 real
execute: 1 calls 0.004 user 0.003 sys 105.456 real
idle: 428 calls 0.175 user 0.001 sys 394.373 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 14170144768 mem 2882.710 user 28.769 sys 107.373 real