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/9d/5d181c119bc695c1e5c8ae14eb9ce4/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/75/17f952c7b083c9b7afbbe37bd564e3/1136_86S-T1-TDNA-1_A23MHWWLT4_1.md.bam
  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_footprint.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/75/17f952c7b083c9b7afbbe37bd564e3/1136_86S-T1-TDNA-1_A23MHWWLT4_1.md.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9d/5d181c119bc695c1e5c8ae14eb9ce4/.command.run
  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_86S-T1-TDNA-1_A23MHWWLT4_1.md.bam --algo HsMetricAlgo --targets_list targets/xgen-exome-hyb-panel-v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity_footprint.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_86S-T1-TDNA-1_A23MHWWLT4_1_xgen-exome-hyb-panel-v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity_footprint.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:154000001, elapsed 5.7s, est remaining 107.6s, peak mem 3908MB, user 139.3s, sys 3.8s, output queue size 52
progress 10% @chr2:17000001, elapsed 10.2s, est remaining 91.7s, peak mem 4737MB, user 281.1s, sys 6.3s, output queue size 117
progress 15% @chr2:237000001, elapsed 15.4s, est remaining 87.1s, peak mem 6421MB, user 433.4s, sys 9.0s, output queue size 122
progress 20% @chr3:176000001, elapsed 19.8s, est remaining 79.2s, peak mem 6673MB, user 574.5s, sys 10.2s, output queue size 141
progress 25% @chr4:83000001, elapsed 23.8s, est remaining 71.3s, peak mem 6724MB, user 696.4s, sys 11.2s, output queue size 302
progress 30% @chr5:107000001, elapsed 26.8s, est remaining 62.5s, peak mem 6956MB, user 786.2s, sys 11.9s, output queue size 464
progress 35% @chr6:80000001, elapsed 31.3s, est remaining 58.2s, peak mem 7153MB, user 902.2s, sys 13.2s, output queue size 625
progress 40% @chr7:47000001, elapsed 36.5s, est remaining 54.8s, peak mem 7599MB, user 1044.4s, sys 14.4s, output queue size 786
progress 45% @chr8:70000001, elapsed 42.2s, est remaining 51.5s, peak mem 7677MB, user 1247.2s, sys 16.0s, output queue size 204
progress 50% @chr9:37000001, elapsed 46.6s, est remaining 46.6s, peak mem 7814MB, user 1357.9s, sys 17.0s, output queue size 366
progress 55% @chr10:118000001, elapsed 52.1s, est remaining 42.6s, peak mem 7978MB, user 1518.8s, sys 18.2s, output queue size 527
progress 60% @chr11:130000001, elapsed 57.4s, est remaining 38.3s, peak mem 7978MB, user 1704.3s, sys 19.6s, output queue size 510
progress 65% @chr13:23000001, elapsed 63.2s, est remaining 34.0s, peak mem 7978MB, user 1854.0s, sys 20.6s, output queue size 672
progress 70% @chr14:78000001, elapsed 67.1s, est remaining 28.7s, peak mem 7980MB, user 1990.1s, sys 21.6s, output queue size 833
progress 75% @chr16:42000001, elapsed 73.2s, est remaining 24.4s, peak mem 8096MB, user 2179.3s, sys 22.7s, output queue size 461
progress 80% @chr18:13000001, elapsed 81.4s, est remaining 20.4s, peak mem 8240MB, user 2396.2s, sys 24.0s, output queue size 623
progress 85% @chr20:20000001, elapsed 88.2s, est remaining 15.6s, peak mem 8240MB, user 2632.3s, sys 25.5s, output queue size 785
progress 90% @chrX:36000001, elapsed 92.6s, est remaining 10.3s, peak mem 8305MB, user 2789.8s, sys 26.5s, output queue size 513
progress 95% @chrY:53000001, elapsed 95.0s, est remaining 5.0s, peak mem 8305MB, user 2853.9s, sys 26.9s, output queue size 675
progress 100% @chr22:23000001, elapsed 101.5s, est remaining 0.0s, peak mem 8431MB, user 2965.2s, sys 27.7s, 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: 69197258666
reads: 1424902378
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1122.771 user 23.100 sys 1147.443 real
done: 1 calls 0.327 user 0.029 sys 0.356 real
exec_no_coor: 1 calls 0.008 user 0.009 sys 0.025 real
execute: 1 calls 0.006 user 0.002 sys 101.577 real
idle: 218 calls 0.124 user 0.011 sys 194.443 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 8840634368 mem 2967.292 user 28.135 sys 103.541 real