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/63/e6854e5d48196523132cc532779344/.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/63/e6854e5d48196523132cc532779344/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/de/5c7110ff47bdb871224ee1d5c4d1eb/Sig_18_Blood.md.bam
  Downloading: s3://natera-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/foresight/foresight_clarity_targets_hg38.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/de/5c7110ff47bdb871224ee1d5c4d1eb/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/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 Sig_18_Blood_foresight_clarity_targets_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:161000001, elapsed 0.0s, est remaining 0.7s, peak mem 101MB, user 0.1s, sys 0.8s, output queue size 16
progress 10% @chr2:73000001, elapsed 0.1s, est remaining 0.6s, peak mem 101MB, user 0.2s, sys 1.6s, output queue size 15
progress 15% @chr2:233000001, elapsed 0.1s, est remaining 0.6s, peak mem 101MB, user 0.2s, sys 2.5s, output queue size 2
progress 20% @chr3:154000001, elapsed 0.1s, est remaining 0.6s, peak mem 101MB, user 0.2s, sys 3.6s, output queue size 8
progress 25% @chr4:107000001, elapsed 0.2s, est remaining 0.5s, peak mem 101MB, user 0.3s, sys 4.6s, output queue size 9
progress 30% @chr5:89000001, elapsed 0.2s, est remaining 0.5s, peak mem 101MB, user 0.4s, sys 5.5s, output queue size 3
progress 35% @chr6:53000001, elapsed 0.2s, est remaining 0.4s, peak mem 101MB, user 0.5s, sys 6.5s, output queue size 12
progress 40% @chr7:59000001, elapsed 0.3s, est remaining 0.4s, peak mem 101MB, user 0.6s, sys 7.4s, output queue size 8
progress 45% @chr8:60000001, elapsed 0.3s, est remaining 0.4s, peak mem 101MB, user 0.6s, sys 8.4s, output queue size 5
progress 50% @chr9:73000001, elapsed 0.3s, est remaining 0.3s, peak mem 101MB, user 0.7s, sys 9.4s, output queue size 1
progress 55% @chr10:99000001, elapsed 0.4s, est remaining 0.3s, peak mem 101MB, user 0.8s, sys 10.4s, output queue size 12
progress 60% @chr11:124000001, elapsed 0.4s, est remaining 0.3s, peak mem 101MB, user 0.9s, sys 11.3s, output queue size 9
progress 65% @chr13:3000001, elapsed 0.4s, est remaining 0.2s, peak mem 101MB, user 0.9s, sys 12.3s, output queue size 12
progress 70% @chr14:69000001, elapsed 0.5s, est remaining 0.2s, peak mem 101MB, user 1.0s, sys 13.3s, output queue size 5
progress 75% @chr16:14000001, elapsed 0.5s, est remaining 0.2s, peak mem 101MB, user 1.1s, sys 14.2s, output queue size 1
progress 80% @chr18:1000001, elapsed 0.5s, est remaining 0.1s, peak mem 101MB, user 1.2s, sys 15.2s, output queue size 2
progress 85% @chr20:23000001, elapsed 0.6s, est remaining 0.1s, peak mem 101MB, user 1.3s, sys 16.1s, output queue size 1
progress 90% @chrX:37000001, elapsed 0.6s, est remaining 0.1s, peak mem 143MB, user 1.9s, sys 16.8s, output queue size 114
progress 95% @chrY:39000001, elapsed 0.7s, est remaining 0.0s, peak mem 154MB, user 2.2s, sys 17.5s, output queue size 276
progress 100% @chr21:41000001, elapsed 1.0s, est remaining 0.0s, peak mem 179MB, user 3.4s, sys 18.5s, output queue size 3664
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.83
cpu vendor: GenuineIntel
 signature: 000606a6
  features: 1f8bfbff fffa320b
  extended: f1bf07ab 00407f5a
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) Platinum 8375C CPU @ 2.90GHz
threads: 31 max 128
algo: HsMetricAlgo
license: sentieon:Metrics=31
input file size: 52291134
reads: 1001133
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.595 user 9.510 sys 11.301 real
done: 1 calls 0.000 user 0.000 sys 0.003 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.006 user 0.002 sys 1.049 real
idle: 72 calls 0.009 user 0.027 sys 40.422 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 187797504 mem 3.576 user 19.348 sys 2.227 real