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/b2/9d9fb073a0b395a76f4ed4ff7f4b94/.command.sh
  Downloading: s3://natera-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/foresight/xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.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/b2/9d9fb073a0b395a76f4ed4ff7f4b94/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f4/e8f9452ffe2420eb8808ba1556b1dd/Sig_18_Blood.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f4/e8f9452ffe2420eb8808ba1556b1dd/Sig_18_Blood.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 Sig_18_Blood.md.bam --algo HsMetricAlgo --targets_list targets/xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.bed --baits_list baits/xgen-exome-hyb-panel-v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity.bed Sig_18_Blood_xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
No more license available for sentieon:Metrics
No more license available for sentieon:Metrics
No more license available for sentieon:Metrics
No more license available for sentieon:Metrics
progress 5% @chr1:164000001, elapsed 60.1s, est remaining 1141.0s, peak mem 114MB, user 0.2s, sys 0.5s, output queue size 13
progress 10% @chr2:76000001, elapsed 60.1s, est remaining 540.8s, peak mem 114MB, user 0.5s, sys 1.1s, output queue size 8
progress 15% @chr2:237000001, elapsed 60.1s, est remaining 340.7s, peak mem 114MB, user 0.7s, sys 1.7s, output queue size 5
progress 20% @chr3:138000001, elapsed 60.1s, est remaining 240.6s, peak mem 114MB, user 0.9s, sys 2.4s, output queue size 18
progress 25% @chr4:113000001, elapsed 60.2s, est remaining 180.5s, peak mem 114MB, user 1.1s, sys 3.1s, output queue size 39
progress 30% @chr5:90000001, elapsed 60.2s, est remaining 140.5s, peak mem 114MB, user 1.4s, sys 3.7s, output queue size 17
progress 35% @chr6:67000001, elapsed 60.2s, est remaining 111.9s, peak mem 114MB, user 1.5s, sys 4.6s, output queue size 7
progress 40% @chr7:61000001, elapsed 60.3s, est remaining 90.4s, peak mem 114MB, user 1.7s, sys 5.3s, output queue size 9
progress 45% @chr8:36000001, elapsed 60.3s, est remaining 73.7s, peak mem 114MB, user 1.9s, sys 5.9s, output queue size 21
progress 50% @chr9:57000001, elapsed 60.3s, est remaining 60.3s, peak mem 114MB, user 2.1s, sys 6.6s, output queue size 16
progress 55% @chr10:100000001, elapsed 60.4s, est remaining 49.4s, peak mem 114MB, user 2.2s, sys 7.4s, output queue size 5
progress 60% @chr11:124000001, elapsed 60.4s, est remaining 40.3s, peak mem 114MB, user 2.5s, sys 8.2s, output queue size 14
progress 65% @chr13:15000001, elapsed 60.4s, est remaining 32.5s, peak mem 114MB, user 2.8s, sys 8.6s, output queue size 20
progress 70% @chr14:67000001, elapsed 60.5s, est remaining 25.9s, peak mem 114MB, user 3.2s, sys 9.0s, output queue size 16
progress 75% @chr16:15000001, elapsed 60.5s, est remaining 20.2s, peak mem 114MB, user 3.5s, sys 9.6s, output queue size 13
progress 80% @chr18:2000001, elapsed 60.5s, est remaining 15.1s, peak mem 114MB, user 3.9s, sys 10.1s, output queue size 11
progress 85% @chr20:6000001, elapsed 60.6s, est remaining 10.7s, peak mem 114MB, user 4.0s, sys 10.9s, output queue size 16
progress 90% @chrX:40000001, elapsed 60.6s, est remaining 6.7s, peak mem 142MB, user 4.6s, sys 11.4s, output queue size 114
progress 95% @chrY:30000001, elapsed 60.7s, est remaining 3.2s, peak mem 154MB, user 5.3s, sys 12.1s, output queue size 276
progress 100% @chr21:41000001, elapsed 61.6s, est remaining 0.0s, peak mem 172MB, user 7.8s, sys 13.4s, output queue size 3664
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: 52290604
reads: 1001133
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.995 user 6.790 sys 9.858 real
done: 1 calls 0.006 user 0.008 sys 0.019 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.001 user 0.001 sys 61.606 real
idle: 61 calls 0.014 user 0.021 sys 56.016 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 181125120 mem 8.744 user 14.975 sys 63.130 real