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/84/071ef7ad5829a940b861c99c1d4be4/.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/71/81816b54ab7484624d9fee8b6881d3/HCC1395_BL.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/84/071ef7ad5829a940b861c99c1d4be4/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/71/81816b54ab7484624d9fee8b6881d3/HCC1395_BL.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 HCC1395_BL.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 HCC1395_BL_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% @chr1:143000001, elapsed 0.0s, est remaining 0.7s, peak mem 108MB, user 0.0s, sys 0.8s, output queue size 18
progress 10% @chr2:77000001, elapsed 0.1s, est remaining 0.7s, peak mem 108MB, user 0.1s, sys 1.9s, output queue size 12
progress 15% @chr2:238000001, elapsed 0.1s, est remaining 0.6s, peak mem 108MB, user 0.2s, sys 2.8s, output queue size 17
progress 20% @chr3:158000001, elapsed 0.1s, est remaining 0.6s, peak mem 108MB, user 0.3s, sys 3.8s, output queue size 17
progress 25% @chr4:98000001, elapsed 0.2s, est remaining 0.5s, peak mem 108MB, user 0.3s, sys 4.7s, output queue size 17
progress 30% @chr5:79000001, elapsed 0.2s, est remaining 0.5s, peak mem 108MB, user 0.4s, sys 5.7s, output queue size 18
progress 35% @chr6:69000001, elapsed 0.2s, est remaining 0.4s, peak mem 108MB, user 0.4s, sys 6.6s, output queue size 25
progress 40% @chr7:61000001, elapsed 0.3s, est remaining 0.4s, peak mem 108MB, user 0.5s, sys 7.5s, output queue size 21
progress 45% @chr8:30000001, elapsed 0.3s, est remaining 0.4s, peak mem 108MB, user 0.6s, sys 8.3s, output queue size 27
progress 50% @chr9:79000001, elapsed 0.3s, est remaining 0.3s, peak mem 108MB, user 0.7s, sys 9.1s, output queue size 24
progress 55% @chr10:98000001, elapsed 0.4s, est remaining 0.3s, peak mem 108MB, user 0.8s, sys 10.1s, output queue size 23
progress 60% @chr11:127000001, elapsed 0.4s, est remaining 0.3s, peak mem 108MB, user 0.9s, sys 10.9s, output queue size 25
progress 65% @chr13:19000001, elapsed 0.4s, est remaining 0.2s, peak mem 108MB, user 1.0s, sys 11.8s, output queue size 19
progress 70% @chr14:62000001, elapsed 0.5s, est remaining 0.2s, peak mem 108MB, user 1.1s, sys 12.6s, output queue size 11
progress 75% @chr16:14000001, elapsed 0.5s, est remaining 0.2s, peak mem 108MB, user 1.2s, sys 13.5s, output queue size 3
progress 80% @chr17:57000001, elapsed 0.5s, est remaining 0.1s, peak mem 108MB, user 1.2s, sys 14.4s, output queue size 27
progress 85% @chr19:51000001, elapsed 0.5s, est remaining 0.1s, peak mem 108MB, user 1.3s, sys 15.2s, output queue size 30
progress 90% @chrX:38000001, elapsed 0.6s, est remaining 0.1s, peak mem 132MB, user 1.8s, sys 15.8s, output queue size 114
progress 95% @chr21:42000001, elapsed 0.7s, est remaining 0.0s, peak mem 147MB, user 2.4s, sys 16.6s, output queue size 276
progress 100% @chr21:41000001, elapsed 1.0s, est remaining 0.0s, peak mem 165MB, user 3.5s, sys 18.0s, output queue size 3664
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
cpu vendor: GenuineIntel
 signature: 000a06d1
  features: bfebfbff 7ffefbff
  extended: f3bfb7ef fb417ffe
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) 6975P-C
threads: 31 max 384
algo: HsMetricAlgo
license: sentieon:Metrics=31
input file size: 51395350
reads: 1001089
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.003 user 8.964 sys 10.967 real
done: 1 calls 0.000 user 0.000 sys 0.008 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.003 user 0.002 sys 0.977 real
idle: 84 calls 0.005 user 0.016 sys 38.650 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 173076480 mem 3.834 user 18.812 sys 2.435 real