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/bb/8826ff7496191c66928a49821f2ae0/.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/ff/87f5f2c5f87d806b00a0a853358d4c/1136_7GC-T1-TDNA-1_A23MHWWLT4_1.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bb/8826ff7496191c66928a49821f2ae0/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ff/87f5f2c5f87d806b00a0a853358d4c/1136_7GC-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
  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 1136_7GC-T1-TDNA-1_A23MHWWLT4_1.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 1136_7GC-T1-TDNA-1_A23MHWWLT4_1_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% @chr1:188000001, elapsed 6.0s, est remaining 114.6s, peak mem 3799MB, user 145.1s, sys 3.9s, output queue size 52
progress 10% @chr2:71000001, elapsed 10.7s, est remaining 96.2s, peak mem 4848MB, user 294.0s, sys 6.2s, output queue size 117
progress 15% @chr2:201000001, elapsed 15.6s, est remaining 88.2s, peak mem 6402MB, user 443.3s, sys 9.4s, output queue size 122
progress 20% @chr3:167000001, elapsed 20.1s, est remaining 80.2s, peak mem 6631MB, user 579.8s, sys 10.8s, output queue size 141
progress 25% @chr4:124000001, elapsed 23.8s, est remaining 71.4s, peak mem 6631MB, user 696.4s, sys 12.0s, output queue size 302
progress 30% @chr5:107000001, elapsed 26.8s, est remaining 62.6s, peak mem 6762MB, user 781.9s, sys 12.6s, output queue size 464
progress 35% @chr6:70000001, elapsed 31.4s, est remaining 58.3s, peak mem 7080MB, user 907.4s, sys 13.6s, output queue size 625
progress 40% @chr7:65000001, elapsed 36.3s, est remaining 54.4s, peak mem 8088MB, user 1064.5s, sys 15.1s, output queue size 195
progress 45% @chr8:72000001, elapsed 41.5s, est remaining 50.7s, peak mem 8126MB, user 1228.8s, sys 16.3s, output queue size 204
progress 50% @chr9:76000001, elapsed 45.9s, est remaining 45.9s, peak mem 8249MB, user 1341.3s, sys 17.1s, output queue size 366
progress 55% @chr10:118000001, elapsed 51.2s, est remaining 41.9s, peak mem 8423MB, user 1513.1s, sys 18.5s, output queue size 348
progress 60% @chr12:1000001, elapsed 56.8s, est remaining 37.8s, peak mem 8423MB, user 1678.2s, sys 19.4s, output queue size 510
progress 65% @chr11:118000001, elapsed 62.2s, est remaining 33.5s, peak mem 8443MB, user 1827.9s, sys 20.2s, output queue size 672
progress 70% @chr14:50000001, elapsed 65.4s, est remaining 28.0s, peak mem 8443MB, user 1962.5s, sys 21.0s, output queue size 299
progress 75% @chr16:42000001, elapsed 71.2s, est remaining 23.7s, peak mem 8483MB, user 2125.8s, sys 22.0s, output queue size 461
progress 80% @chr18:9000001, elapsed 79.8s, est remaining 20.0s, peak mem 8521MB, user 2354.6s, sys 23.1s, output queue size 623
progress 85% @chr20:18000001, elapsed 87.0s, est remaining 15.4s, peak mem 8674MB, user 2619.8s, sys 24.5s, output queue size 351
progress 90% @chrX:34000001, elapsed 91.7s, est remaining 10.2s, peak mem 8679MB, user 2763.4s, sys 25.4s, output queue size 513
progress 95% @chrY:55000001, elapsed 94.5s, est remaining 5.0s, peak mem 8772MB, user 2840.2s, sys 25.9s, output queue size 675
progress 100% @chr22:23000001, elapsed 102.0s, est remaining 0.0s, peak mem 8772MB, user 2945.0s, sys 26.4s, 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: 74522276073
reads: 1535620780
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1211.950 user 23.234 sys 1236.893 real
done: 1 calls 0.259 user 0.030 sys 0.292 real
exec_no_coor: 1 calls 0.018 user 0.018 sys 0.050 real
execute: 1 calls 0.005 user 0.002 sys 102.094 real
idle: 238 calls 0.127 user 0.000 sys 228.002 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 9198882816 mem 2946.918 user 26.906 sys 103.870 real