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/c4/2fb2e68795bac2d84e1b2377732a84/.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-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-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/c4/2fb2e68795bac2d84e1b2377732a84/.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
==> 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_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_7GC-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% @chr1:184000001, elapsed 6.5s, est remaining 122.6s, peak mem 4226MB, user 148.3s, sys 6.7s, output queue size 146
progress 10% @chr2:46000001, elapsed 11.2s, est remaining 101.0s, peak mem 5224MB, user 304.9s, sys 8.7s, output queue size 117
progress 15% @chr2:197000001, elapsed 16.4s, est remaining 93.2s, peak mem 6504MB, user 465.5s, sys 11.1s, output queue size 122
progress 20% @chr3:176000001, elapsed 21.2s, est remaining 84.6s, peak mem 6590MB, user 610.8s, sys 12.3s, output queue size 141
progress 25% @chr4:135000001, elapsed 25.2s, est remaining 75.6s, peak mem 6918MB, user 736.5s, sys 13.4s, output queue size 302
progress 30% @chr5:106000001, elapsed 28.4s, est remaining 66.3s, peak mem 7093MB, user 824.2s, sys 14.0s, output queue size 464
progress 35% @chr6:56000001, elapsed 33.3s, est remaining 61.9s, peak mem 7281MB, user 957.8s, sys 15.1s, output queue size 625
progress 40% @chr7:65000001, elapsed 38.8s, est remaining 58.2s, peak mem 8126MB, user 1138.4s, sys 16.1s, output queue size 195
progress 45% @chr7:100000001, elapsed 44.6s, est remaining 54.5s, peak mem 8221MB, user 1317.5s, sys 17.5s, output queue size 204
progress 50% @chr9:39000001, elapsed 49.2s, est remaining 49.2s, peak mem 8453MB, user 1439.3s, sys 18.3s, output queue size 366
progress 55% @chr10:99000001, elapsed 55.2s, est remaining 45.2s, peak mem 8524MB, user 1624.1s, sys 19.4s, output queue size 348
progress 60% @chr11:117000001, elapsed 61.1s, est remaining 40.7s, peak mem 8524MB, user 1807.1s, sys 20.3s, output queue size 510
progress 65% @chr12:56000001, elapsed 67.1s, est remaining 36.1s, peak mem 8524MB, user 1976.7s, sys 21.2s, output queue size 672
progress 70% @chr14:78000001, elapsed 70.6s, est remaining 30.3s, peak mem 8524MB, user 2121.9s, sys 21.9s, output queue size 299
progress 75% @chr16:42000001, elapsed 77.1s, est remaining 25.7s, peak mem 8524MB, user 2299.7s, sys 22.9s, output queue size 461
progress 80% @chr18:29000001, elapsed 86.5s, est remaining 21.6s, peak mem 8737MB, user 2551.4s, sys 24.2s, output queue size 623
progress 85% @chr20:20000001, elapsed 94.9s, est remaining 16.8s, peak mem 8828MB, user 2854.8s, sys 25.6s, output queue size 351
progress 90% @chrX:15000001, elapsed 100.3s, est remaining 11.1s, peak mem 8854MB, user 3010.9s, sys 26.4s, output queue size 513
progress 95% @chrY:54000001, elapsed 103.2s, est remaining 5.4s, peak mem 8948MB, user 3101.9s, sys 27.1s, output queue size 675
progress 100% @chr22:23000001, elapsed 112.1s, est remaining 0.0s, peak mem 8948MB, user 3222.0s, 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: 74522276073
reads: 1535620780
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1221.676 user 24.303 sys 1244.401 real
done: 1 calls 0.338 user 0.028 sys 0.376 real
exec_no_coor: 1 calls 0.019 user 0.013 sys 0.049 real
execute: 1 calls 0.005 user 0.002 sys 112.138 real
idle: 300 calls 0.142 user 0.000 sys 265.815 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 9383440384 mem 3224.537 user 28.087 sys 114.159 real