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/da/d2d92cb725f03b8b3a189e46bb49ad/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2a/38e78bb6942973beef9161c635e45e/1136_5Q-T1-TDNA-1_A23MHWWLT4_1.md.bam.bai
  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/da/d2d92cb725f03b8b3a189e46bb49ad/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2a/38e78bb6942973beef9161c635e45e/1136_5Q-T1-TDNA-1_A23MHWWLT4_1.md.bam
  Downloading: s3://natera-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/foresight/foresight_clarity_targets_hg38.bed
  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_5Q-T1-TDNA-1_A23MHWWLT4_1.md.bam --algo HsMetricAlgo --targets_list targets/foresight_clarity_targets_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_5Q-T1-TDNA-1_A23MHWWLT4_1_foresight_clarity_targets_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:175000001, elapsed 3.8s, est remaining 73.0s, peak mem 3231MB, user 89.9s, sys 2.5s, output queue size 146
progress 10% @chr2:90000001, elapsed 7.1s, est remaining 63.5s, peak mem 4162MB, user 193.7s, sys 4.1s, output queue size 79
progress 15% @chr2:201000001, elapsed 10.7s, est remaining 60.6s, peak mem 6102MB, user 298.3s, sys 6.8s, output queue size 203
progress 20% @chr2:222000001, elapsed 14.1s, est remaining 56.3s, peak mem 6516MB, user 402.1s, sys 9.7s, output queue size 174
progress 25% @chr4:133000001, elapsed 16.9s, est remaining 50.8s, peak mem 6779MB, user 484.9s, sys 10.7s, output queue size 302
progress 30% @chr5:106000001, elapsed 18.8s, est remaining 43.9s, peak mem 7071MB, user 546.1s, sys 11.3s, output queue size 464
progress 35% @chr6:91000001, elapsed 21.6s, est remaining 40.1s, peak mem 7071MB, user 631.3s, sys 12.2s, output queue size 115
progress 40% @chr7:65000001, elapsed 24.6s, est remaining 36.8s, peak mem 7454MB, user 712.0s, sys 13.0s, output queue size 197
progress 45% @chr8:74000001, elapsed 28.1s, est remaining 34.3s, peak mem 8060MB, user 815.3s, sys 14.2s, output queue size 356
progress 50% @chr9:102000001, elapsed 32.2s, est remaining 32.2s, peak mem 8719MB, user 930.8s, sys 15.5s, output queue size 324
progress 55% @chr10:101000001, elapsed 35.6s, est remaining 29.1s, peak mem 9007MB, user 1036.8s, sys 16.5s, output queue size 348
progress 60% @chr12:5000001, elapsed 38.8s, est remaining 25.8s, peak mem 9007MB, user 1144.8s, sys 17.4s, output queue size 504
progress 65% @chr12:123000001, elapsed 42.0s, est remaining 22.6s, peak mem 9007MB, user 1232.7s, sys 18.1s, output queue size 666
progress 70% @chr14:76000001, elapsed 43.9s, est remaining 18.8s, peak mem 9038MB, user 1284.5s, sys 18.4s, output queue size 827
progress 75% @chr16:42000001, elapsed 47.7s, est remaining 15.9s, peak mem 9112MB, user 1378.3s, sys 19.1s, output queue size 989
progress 80% @chr18:13000001, elapsed 52.7s, est remaining 13.2s, peak mem 9185MB, user 1555.0s, sys 20.4s, output queue size 623
progress 85% @chr20:43000001, elapsed 57.8s, est remaining 10.2s, peak mem 9185MB, user 1700.7s, sys 21.0s, output queue size 785
progress 90% @chrX:42000001, elapsed 60.6s, est remaining 6.7s, peak mem 9185MB, user 1797.7s, sys 21.8s, output queue size 947
progress 95% @chrY:54000001, elapsed 62.3s, est remaining 3.3s, peak mem 9185MB, user 1862.9s, sys 22.3s, output queue size 675
progress 100% @chr15:88000001, elapsed 69.1s, est remaining 0.0s, peak mem 9185MB, user 1955.0s, sys 22.8s, output queue size 4099
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: 62212255172
reads: 1210780814
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 960.539 user 19.299 sys 980.047 real
done: 1 calls 0.000 user 0.000 sys 0.007 real
exec_no_coor: 1 calls 0.456 user 0.079 sys 0.550 real
execute: 1 calls 0.005 user 0.003 sys 69.092 real
idle: 212 calls 0.152 user 0.001 sys 193.169 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 9631830016 mem 1956.004 user 22.935 sys 70.371 real