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/4b/8a67a4930c75ff0573fec03e4ea2c8/1136_4Z5-T1-TDNA-1_A23MHWWLT4_1.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4b/8a67a4930c75ff0573fec03e4ea2c8/1136_4Z5-T1-TDNA-1_A23MHWWLT4_1.md.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2a/9d2dcf668714e77566f448b905590b/.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/2a/9d2dcf668714e77566f448b905590b/.command.run
  Downloading: s3://natera-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/altera_v3_targets_noncoding_postQC_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_4Z5-T1-TDNA-1_A23MHWWLT4_1.md.bam --algo HsMetricAlgo --targets_list targets/altera_v3_targets_noncoding_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_4Z5-T1-TDNA-1_A23MHWWLT4_1_altera_v3_targets_noncoding_postQC_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:178000001, elapsed 3.8s, est remaining 71.8s, peak mem 2525MB, user 86.8s, sys 2.2s, output queue size 150
progress 10% @chr1:205000001, elapsed 7.2s, est remaining 64.7s, peak mem 3687MB, user 196.9s, sys 4.4s, output queue size 117
progress 15% @chr2:237000001, elapsed 11.9s, est remaining 67.3s, peak mem 5233MB, user 332.0s, sys 7.7s, output queue size 122
progress 20% @chr3:174000001, elapsed 14.8s, est remaining 59.1s, peak mem 5233MB, user 418.8s, sys 8.6s, output queue size 283
progress 25% @chr4:124000001, elapsed 17.2s, est remaining 51.7s, peak mem 5241MB, user 495.9s, sys 9.2s, output queue size 444
progress 30% @chr5:107000001, elapsed 19.2s, est remaining 44.8s, peak mem 5301MB, user 557.1s, sys 9.8s, output queue size 606
progress 35% @chr6:91000001, elapsed 22.8s, est remaining 42.3s, peak mem 6070MB, user 637.1s, sys 10.4s, output queue size 767
progress 40% @chr7:64000001, elapsed 27.0s, est remaining 40.5s, peak mem 7006MB, user 754.5s, sys 11.9s, output queue size 928
progress 45% @chr8:70000001, elapsed 32.7s, est remaining 40.0s, peak mem 7461MB, user 909.9s, sys 13.5s, output queue size 1090
progress 50% @chr9:89000001, elapsed 36.5s, est remaining 36.5s, peak mem 7605MB, user 1047.2s, sys 15.9s, output queue size 507
progress 55% @chr10:101000001, elapsed 40.2s, est remaining 32.9s, peak mem 8412MB, user 1159.1s, sys 16.9s, output queue size 668
progress 60% @chr11:130000001, elapsed 44.4s, est remaining 29.6s, peak mem 10880MB, user 1275.8s, sys 17.7s, output queue size 830
progress 65% @chr13:31000001, elapsed 48.5s, est remaining 26.1s, peak mem 11569MB, user 1392.8s, sys 18.3s, output queue size 992
progress 70% @chr14:84000001, elapsed 51.9s, est remaining 22.2s, peak mem 12084MB, user 1500.7s, sys 19.0s, output queue size 1153
progress 75% @chr16:42000001, elapsed 56.1s, est remaining 18.7s, peak mem 13429MB, user 1647.7s, sys 20.6s, output queue size 1132
progress 80% @chr15:87000001, elapsed 61.8s, est remaining 15.5s, peak mem 13486MB, user 1817.6s, sys 21.6s, output queue size 1294
progress 85% @chr19:57000001, elapsed 67.3s, est remaining 11.9s, peak mem 13606MB, user 1980.3s, sys 22.8s, output queue size 1456
progress 90% @chrX:30000001, elapsed 70.7s, est remaining 7.9s, peak mem 13650MB, user 2101.3s, sys 23.5s, output queue size 1618
progress 95% @chrY:53000001, elapsed 72.8s, est remaining 3.8s, peak mem 13650MB, user 2163.6s, sys 24.0s, output queue size 1780
progress 100% @chr7:55000001, elapsed 591.8s, est remaining 0.0s, peak mem 19318MB, user 2758.6s, sys 45.5s, output queue size 5204
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: 71921241447
reads: 1527741288
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1179.698 user 30.682 sys 1213.742 real
done: 1 calls 0.014 user 0.017 sys 0.033 real
exec_no_coor: 1 calls 0.015 user 0.015 sys 0.038 real
execute: 1 calls 0.002 user 0.001 sys 591.886 real
idle: 15595 calls 0.632 user 0.100 sys 15572.225 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 20257095680 mem 2760.446 user 46.076 sys 593.371 real