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/9e/ef048b8a6e92e686ee55e63e44bbb3/.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/9e/ef048b8a6e92e686ee55e63e44bbb3/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/16/6f30f053f806e6768e1fd6ffdb7013/Sig_18_Blood.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/16/6f30f053f806e6768e1fd6ffdb7013/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
  Downloading: s3://natera-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/xgen-exome-hyb-panel-v2-targets-hg38_minus_altera_v3_targets_postQC_hg38.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_minus_altera_v3_targets_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 Sig_18_Blood_xgen-exome-hyb-panel-v2-targets-hg38_minus_altera_v3_targets_postQC_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:178000001, elapsed 0.0s, est remaining 0.5s, peak mem 114MB, user 0.1s, sys 0.4s, output queue size 7
progress 10% @chr2:66000001, elapsed 0.0s, est remaining 0.4s, peak mem 114MB, user 0.2s, sys 0.9s, output queue size 15
progress 15% @chr2:229000001, elapsed 0.1s, est remaining 0.4s, peak mem 114MB, user 0.2s, sys 1.5s, output queue size 39
progress 20% @chr3:145000001, elapsed 0.1s, est remaining 0.4s, peak mem 114MB, user 0.3s, sys 2.1s, output queue size 15
progress 25% @chr4:110000001, elapsed 0.1s, est remaining 0.3s, peak mem 114MB, user 0.4s, sys 2.8s, output queue size 31
progress 30% @chr5:100000001, elapsed 0.1s, est remaining 0.3s, peak mem 114MB, user 0.5s, sys 3.3s, output queue size 25
progress 35% @chr6:55000001, elapsed 0.2s, est remaining 0.3s, peak mem 114MB, user 0.5s, sys 3.9s, output queue size 10
progress 40% @chr7:45000001, elapsed 0.2s, est remaining 0.3s, peak mem 114MB, user 0.6s, sys 4.4s, output queue size 18
progress 45% @chr8:70000001, elapsed 0.2s, est remaining 0.2s, peak mem 114MB, user 0.7s, sys 5.1s, output queue size 37
progress 50% @chr9:83000001, elapsed 0.2s, est remaining 0.2s, peak mem 114MB, user 0.8s, sys 5.7s, output queue size 36
progress 55% @chr10:104000001, elapsed 0.2s, est remaining 0.2s, peak mem 114MB, user 0.8s, sys 6.3s, output queue size 11
progress 60% @chr11:112000001, elapsed 0.3s, est remaining 0.2s, peak mem 114MB, user 0.8s, sys 7.0s, output queue size 13
progress 65% @chr13:27000001, elapsed 0.3s, est remaining 0.2s, peak mem 114MB, user 0.9s, sys 7.6s, output queue size 10
progress 70% @chr14:48000001, elapsed 0.3s, est remaining 0.1s, peak mem 114MB, user 1.0s, sys 8.2s, output queue size 13
progress 75% @chr16:25000001, elapsed 0.3s, est remaining 0.1s, peak mem 114MB, user 1.1s, sys 8.7s, output queue size 11
progress 80% @chr17:74000001, elapsed 0.4s, est remaining 0.1s, peak mem 114MB, user 1.1s, sys 9.4s, output queue size 10
progress 85% @chr20:14000001, elapsed 0.4s, est remaining 0.1s, peak mem 114MB, user 1.2s, sys 10.0s, output queue size 9
progress 90% @chrX:40000001, elapsed 0.4s, est remaining 0.0s, peak mem 147MB, user 1.6s, sys 10.4s, output queue size 114
progress 95% @chrY:36000001, elapsed 0.5s, est remaining 0.0s, peak mem 163MB, user 2.0s, sys 10.8s, output queue size 276
progress 100% @chr21:41000001, elapsed 0.9s, est remaining 0.0s, peak mem 175MB, user 3.8s, sys 11.5s, output queue size 3664
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
cpu vendor: GenuineIntel
 signature: 000c06f2
  features: 1f8bfbff fffab20b
  extended: f1bf07ab 1a407f7e
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) Platinum 8559C
threads: 31 max 192
algo: HsMetricAlgo
license: sentieon:Metrics=31
input file size: 52290609
reads: 1001133
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.390 user 5.682 sys 7.486 real
done: 1 calls 0.004 user 0.000 sys 0.010 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.001 user 0.010 sys 0.866 real
idle: 82 calls 0.010 user 0.018 sys 41.363 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 184311808 mem 4.361 user 12.279 sys 2.403 real