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/8c/a971d384190366586298aa17bf4509/.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/9b/f549beb0103827e9d5cda373213fce/HCC1395_BL.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8c/a971d384190366586298aa17bf4509/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9b/f549beb0103827e9d5cda373213fce/HCC1395_BL.md.bam.bai
  Downloading: s3://natera-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/altera_v3_targets_noncoding_postQC_hg38.bed
  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 HCC1395_BL.md.bam --algo HsMetricAlgo --targets_list targets/altera_v3_targets_noncoding_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_altera_v3_targets_noncoding_postQC_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:165000001, elapsed 0.0s, est remaining 0.8s, peak mem 101MB, user 0.8s, sys 0.1s, output queue size 15
progress 10% @chr2:74000001, elapsed 0.1s, est remaining 0.8s, peak mem 101MB, user 2.0s, sys 0.2s, output queue size 4
progress 15% @chr2:234000001, elapsed 0.1s, est remaining 0.7s, peak mem 101MB, user 3.2s, sys 0.2s, output queue size 16
progress 20% @chr3:155000001, elapsed 0.2s, est remaining 0.7s, peak mem 101MB, user 4.3s, sys 0.3s, output queue size 8
progress 25% @chr4:114000001, elapsed 0.2s, est remaining 0.6s, peak mem 101MB, user 5.5s, sys 0.3s, output queue size 1
progress 30% @chr5:88000001, elapsed 0.2s, est remaining 0.6s, peak mem 101MB, user 6.7s, sys 0.4s, output queue size 12
progress 35% @chr6:64000001, elapsed 0.3s, est remaining 0.5s, peak mem 101MB, user 7.8s, sys 0.4s, output queue size 1
progress 40% @chr7:56000001, elapsed 0.3s, est remaining 0.5s, peak mem 101MB, user 9.0s, sys 0.5s, output queue size 5
progress 45% @chr8:55000001, elapsed 0.4s, est remaining 0.4s, peak mem 101MB, user 10.3s, sys 0.5s, output queue size 3
progress 50% @chr9:73000001, elapsed 0.4s, est remaining 0.4s, peak mem 101MB, user 11.5s, sys 0.6s, output queue size 2
progress 55% @chr10:93000001, elapsed 0.4s, est remaining 0.4s, peak mem 101MB, user 12.7s, sys 0.6s, output queue size 4
progress 60% @chr11:121000001, elapsed 0.5s, est remaining 0.3s, peak mem 101MB, user 13.9s, sys 0.7s, output queue size 5
progress 65% @chr13:15000001, elapsed 0.5s, est remaining 0.3s, peak mem 101MB, user 15.0s, sys 0.7s, output queue size 1
progress 70% @chr14:61000001, elapsed 0.6s, est remaining 0.2s, peak mem 101MB, user 16.1s, sys 0.8s, output queue size 6
progress 75% @chr15:99000001, elapsed 0.6s, est remaining 0.2s, peak mem 101MB, user 17.3s, sys 0.8s, output queue size 16
progress 80% @chr18:1, elapsed 0.6s, est remaining 0.2s, peak mem 101MB, user 18.5s, sys 0.9s, output queue size 2
progress 85% @chr20:22000001, elapsed 0.7s, est remaining 0.1s, peak mem 101MB, user 19.8s, sys 0.9s, output queue size 12
progress 90% @chrX:34000001, elapsed 0.7s, est remaining 0.1s, peak mem 142MB, user 20.8s, sys 1.0s, output queue size 114
progress 95% @chrY:31000001, elapsed 0.8s, est remaining 0.0s, peak mem 160MB, user 21.9s, sys 1.1s, output queue size 276
progress 100% @chr21:41000001, elapsed 1.1s, est remaining 0.0s, peak mem 164MB, user 23.5s, sys 1.3s, 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 192
algo: HsMetricAlgo
license: sentieon:Metrics=31
input file size: 51395351
reads: 1001089
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.110 user 0.673 sys 1.834 real
done: 1 calls 0.000 user 0.000 sys 0.002 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.006 user 0.002 sys 1.152 real
idle: 62 calls 0.004 user 0.001 sys 40.853 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 172961792 mem 24.173 user 1.417 sys 2.304 real