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/c4/b95d8eaa0a351bc26c20e6d822d677/.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/c4/b95d8eaa0a351bc26c20e6d822d677/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f4/e8f9452ffe2420eb8808ba1556b1dd/Sig_18_Blood.md.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f4/e8f9452ffe2420eb8808ba1556b1dd/Sig_18_Blood.md.bam
  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.
No more license available for sentieon:Metrics
No more license available for sentieon:Metrics
No more license available for sentieon:Metrics
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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
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
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
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% @chr1:141000001, elapsed 1020.2s, est remaining 19384.0s, peak mem 114MB, user 0.1s, sys 1.4s, output queue size 20
progress 10% @chr2:79000001, elapsed 1020.3s, est remaining 9182.4s, peak mem 114MB, user 0.2s, sys 3.0s, output queue size 17
progress 15% @chr2:235000001, elapsed 1020.3s, est remaining 5781.8s, peak mem 114MB, user 0.3s, sys 4.6s, output queue size 6
progress 20% @chr3:156000001, elapsed 1020.4s, est remaining 4081.5s, peak mem 114MB, user 0.4s, sys 6.2s, output queue size 15
progress 25% @chr4:115000001, elapsed 1020.4s, est remaining 3061.3s, peak mem 114MB, user 0.5s, sys 7.8s, output queue size 13
progress 30% @chr5:94000001, elapsed 1020.5s, est remaining 2381.1s, peak mem 114MB, user 0.5s, sys 9.5s, output queue size 14
progress 35% @chr6:64000001, elapsed 1020.5s, est remaining 1895.3s, peak mem 114MB, user 0.6s, sys 11.2s, output queue size 14
progress 40% @chr7:37000001, elapsed 1020.6s, est remaining 1530.9s, peak mem 114MB, user 0.7s, sys 12.8s, output queue size 18
progress 45% @chr8:44000001, elapsed 1020.7s, est remaining 1247.5s, peak mem 114MB, user 0.8s, sys 14.3s, output queue size 15
progress 50% @chr9:58000001, elapsed 1020.7s, est remaining 1020.7s, peak mem 114MB, user 1.0s, sys 15.9s, output queue size 15
progress 55% @chr10:96000001, elapsed 1020.8s, est remaining 835.2s, peak mem 114MB, user 1.1s, sys 17.5s, output queue size 20
progress 60% @chr11:121000001, elapsed 1020.8s, est remaining 680.5s, peak mem 114MB, user 1.2s, sys 19.2s, output queue size 2
progress 65% @chr13:21000001, elapsed 1020.9s, est remaining 549.7s, peak mem 114MB, user 1.2s, sys 20.8s, output queue size 13
progress 70% @chr14:64000001, elapsed 1020.9s, est remaining 437.5s, peak mem 114MB, user 1.3s, sys 22.4s, output queue size 15
progress 75% @chr16:15000001, elapsed 1021.0s, est remaining 340.3s, peak mem 114MB, user 1.4s, sys 24.1s, output queue size 16
progress 80% @chr18:1000001, elapsed 1021.0s, est remaining 255.3s, peak mem 114MB, user 1.5s, sys 25.7s, output queue size 20
progress 85% @chr20:22000001, elapsed 1021.1s, est remaining 180.2s, peak mem 114MB, user 1.7s, sys 27.4s, output queue size 11
progress 90% @chrX:35000001, elapsed 1021.2s, est remaining 113.5s, peak mem 136MB, user 2.2s, sys 28.3s, output queue size 114
progress 95% @chrY:36000001, elapsed 1021.2s, est remaining 53.7s, peak mem 148MB, user 2.5s, sys 29.4s, output queue size 276
progress 100% @chr21:41000001, elapsed 1021.6s, est remaining 0.0s, peak mem 172MB, user 4.1s, sys 31.2s, 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 1.524 user 15.816 sys 18.148 real
done: 1 calls 0.006 user 0.000 sys 0.010 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.005 user 0.003 sys 1021.585 real
idle: 61 calls 0.007 user 0.008 sys 39.065 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 181174272 mem 4.539 user 31.905 sys 1023.028 real