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/84/d41e369d2ddd37e9027cef30127110/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/33/b78cdcd32102ea2493c938beb2a4da/1136_253-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/33/b78cdcd32102ea2493c938beb2a4da/1136_253-T1-TDNA-1_A23MHWWLT4_1.md.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/84/d41e369d2ddd37e9027cef30127110/.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_253-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_253-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% @chr1:109000001, elapsed 5.6s, est remaining 107.1s, peak mem 4078MB, user 129.8s, sys 3.5s, output queue size 145
progress 10% @chr2:38000001, elapsed 10.4s, est remaining 93.3s, peak mem 5316MB, user 273.2s, sys 6.2s, output queue size 166
progress 15% @chr2:238000001, elapsed 14.8s, est remaining 84.0s, peak mem 7742MB, user 420.5s, sys 8.7s, output queue size 203
progress 20% @chr3:72000001, elapsed 18.7s, est remaining 75.0s, peak mem 7823MB, user 538.3s, sys 10.5s, output queue size 283
progress 25% @chr4:124000001, elapsed 22.1s, est remaining 66.3s, peak mem 8082MB, user 644.1s, sys 11.2s, output queue size 302
progress 30% @chr5:106000001, elapsed 24.8s, est remaining 57.8s, peak mem 8255MB, user 716.3s, sys 11.9s, output queue size 464
progress 35% @chr6:91000001, elapsed 28.9s, est remaining 53.6s, peak mem 8383MB, user 831.8s, sys 12.7s, output queue size 625
progress 40% @chr7:65000001, elapsed 33.0s, est remaining 49.5s, peak mem 8497MB, user 968.6s, sys 13.6s, output queue size 197
progress 45% @chr8:78000001, elapsed 37.4s, est remaining 45.8s, peak mem 8635MB, user 1095.4s, sys 14.5s, output queue size 356
progress 50% @chr9:87000001, elapsed 41.5s, est remaining 41.5s, peak mem 9031MB, user 1202.0s, sys 15.4s, output queue size 366
progress 55% @chr10:99000001, elapsed 46.0s, est remaining 37.6s, peak mem 9110MB, user 1355.7s, sys 16.5s, output queue size 348
progress 60% @chr11:130000001, elapsed 51.0s, est remaining 34.0s, peak mem 9110MB, user 1493.6s, sys 17.4s, output queue size 510
progress 65% @chr12:106000001, elapsed 55.7s, est remaining 30.0s, peak mem 9211MB, user 1656.6s, sys 18.5s, output queue size 474
progress 70% @chr14:50000001, elapsed 58.4s, est remaining 25.0s, peak mem 9235MB, user 1753.2s, sys 18.9s, output queue size 299
progress 75% @chr16:42000001, elapsed 63.5s, est remaining 21.2s, peak mem 9315MB, user 1890.2s, sys 19.6s, output queue size 461
progress 80% @chr18:13000001, elapsed 71.7s, est remaining 17.9s, peak mem 9366MB, user 2113.0s, sys 21.0s, output queue size 623
progress 85% @chr19:55000001, elapsed 78.7s, est remaining 13.9s, peak mem 9366MB, user 2334.9s, sys 22.0s, output queue size 785
progress 90% @chrX:36000001, elapsed 83.1s, est remaining 9.2s, peak mem 9411MB, user 2492.7s, sys 23.0s, output queue size 513
progress 95% @chrY:55000001, elapsed 85.6s, est remaining 4.5s, peak mem 9571MB, user 2565.8s, sys 23.5s, output queue size 675
progress 100% @chr22:23000001, elapsed 95.6s, est remaining 0.0s, peak mem 9571MB, user 2686.9s, sys 24.3s, 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: 71204379079
reads: 1300983781
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1100.719 user 21.707 sys 1121.157 real
done: 1 calls 0.339 user 0.019 sys 0.358 real
exec_no_coor: 1 calls 0.005 user 0.005 sys 0.020 real
execute: 1 calls 0.006 user 0.003 sys 95.675 real
idle: 331 calls 0.160 user 0.001 sys 292.892 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 10036690944 mem 2688.995 user 24.794 sys 97.696 real