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/81/c0f56e828920b2d26922f2a28ee31c/.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/34/7bc72808d1cf298ffbdcdc18ca97d8/HCC1395_BL.md.bam
  Downloading: s3://natera-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/altera_v3_targets_postQC_hg38.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/81/c0f56e828920b2d26922f2a28ee31c/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/34/7bc72808d1cf298ffbdcdc18ca97d8/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
==> 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_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_postQC_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:160000001, elapsed 0.0s, est remaining 0.9s, peak mem 99MB, user 0.1s, sys 1.0s, output queue size 4
progress 10% @chr2:76000001, elapsed 0.1s, est remaining 0.8s, peak mem 99MB, user 0.2s, sys 2.1s, output queue size 11
progress 15% @chr2:238000001, elapsed 0.1s, est remaining 0.7s, peak mem 99MB, user 0.2s, sys 3.4s, output queue size 3
progress 20% @chr3:138000001, elapsed 0.2s, est remaining 0.7s, peak mem 99MB, user 0.4s, sys 4.6s, output queue size 15
progress 25% @chr4:105000001, elapsed 0.2s, est remaining 0.7s, peak mem 99MB, user 0.5s, sys 6.6s, output queue size 10
progress 30% @chr5:74000001, elapsed 0.3s, est remaining 0.7s, peak mem 99MB, user 0.6s, sys 8.7s, output queue size 12
progress 35% @chr6:52000001, elapsed 0.4s, est remaining 0.7s, peak mem 99MB, user 0.7s, sys 10.8s, output queue size 13
progress 40% @chr7:81000001, elapsed 0.5s, est remaining 0.7s, peak mem 99MB, user 0.8s, sys 12.8s, output queue size 12
progress 45% @chr8:44000001, elapsed 0.5s, est remaining 0.6s, peak mem 99MB, user 0.8s, sys 15.0s, output queue size 13
progress 50% @chr9:62000001, elapsed 0.6s, est remaining 0.6s, peak mem 99MB, user 0.9s, sys 17.1s, output queue size 11
progress 55% @chr10:82000001, elapsed 0.7s, est remaining 0.6s, peak mem 99MB, user 1.0s, sys 19.4s, output queue size 14
progress 60% @chr12:13000001, elapsed 0.8s, est remaining 0.5s, peak mem 99MB, user 1.1s, sys 21.8s, output queue size 14
progress 65% @chr12:129000001, elapsed 0.8s, est remaining 0.5s, peak mem 99MB, user 1.1s, sys 24.2s, output queue size 20
progress 70% @chr14:52000001, elapsed 0.9s, est remaining 0.4s, peak mem 99MB, user 1.3s, sys 26.5s, output queue size 12
progress 75% @chr16:37000001, elapsed 1.0s, est remaining 0.3s, peak mem 99MB, user 1.4s, sys 28.9s, output queue size 15
progress 80% @chr18:19000001, elapsed 1.1s, est remaining 0.3s, peak mem 99MB, user 1.5s, sys 31.3s, output queue size 18
progress 85% @chr20:14000001, elapsed 1.2s, est remaining 0.2s, peak mem 99MB, user 1.6s, sys 33.6s, output queue size 15
progress 90% @chrX:46000001, elapsed 1.3s, est remaining 0.1s, peak mem 99MB, user 2.0s, sys 35.1s, output queue size 114
progress 95% @chrY:21000001, elapsed 1.3s, est remaining 0.1s, peak mem 114MB, user 2.6s, sys 37.2s, output queue size 276
progress 100% @chr21:41000001, elapsed 1.9s, est remaining 0.0s, peak mem 141MB, user 3.8s, sys 40.2s, output queue size 3664
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.83
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 384
algo: HsMetricAlgo
license: sentieon:Metrics=31
input file size: 51395364
reads: 1001089
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.284 user 20.998 sys 22.390 real
done: 1 calls 0.001 user 0.000 sys 0.004 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.000 user 0.010 sys 1.930 real
idle: 81 calls 0.003 user 0.016 sys 45.526 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 147947520 mem 4.082 user 40.901 sys 3.120 real