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/c3/1dcd3764ae606bbe65ffb6b69b1c5f/.command.sh
  Downloading: s3://natera-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/altera_v3_targets_coding_postQC_hg38.bed
  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/74/ea7a515a2f70db517a2c1354a35f6b/HCC1395_BL.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c3/1dcd3764ae606bbe65ffb6b69b1c5f/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/74/ea7a515a2f70db517a2c1354a35f6b/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_coding_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_coding_postQC_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:167000001, elapsed 0.1s, est remaining 1.2s, peak mem 99MB, user 0.2s, sys 1.3s, output queue size 7
progress 10% @chr2:82000001, elapsed 0.1s, est remaining 1.1s, peak mem 99MB, user 0.5s, sys 2.7s, output queue size 7
progress 15% @chr2:237000001, elapsed 0.2s, est remaining 1.0s, peak mem 99MB, user 1.0s, sys 4.0s, output queue size 4
progress 20% @chr3:151000001, elapsed 0.2s, est remaining 0.9s, peak mem 99MB, user 1.2s, sys 5.5s, output queue size 7
progress 25% @chr4:110000001, elapsed 0.3s, est remaining 0.9s, peak mem 99MB, user 1.5s, sys 6.9s, output queue size 12
progress 30% @chr5:84000001, elapsed 0.3s, est remaining 0.8s, peak mem 99MB, user 1.9s, sys 8.2s, output queue size 18
progress 35% @chr6:71000001, elapsed 0.4s, est remaining 0.7s, peak mem 99MB, user 2.4s, sys 9.5s, output queue size 16
progress 40% @chr7:53000001, elapsed 0.5s, est remaining 0.7s, peak mem 99MB, user 3.0s, sys 10.5s, output queue size 4
progress 45% @chr8:52000001, elapsed 0.5s, est remaining 0.6s, peak mem 99MB, user 3.4s, sys 11.8s, output queue size 5
progress 50% @chr9:65000001, elapsed 0.6s, est remaining 0.6s, peak mem 99MB, user 4.0s, sys 13.0s, output queue size 8
progress 55% @chr10:94000001, elapsed 0.6s, est remaining 0.5s, peak mem 99MB, user 4.1s, sys 14.5s, output queue size 7
progress 60% @chr11:117000001, elapsed 0.7s, est remaining 0.5s, peak mem 99MB, user 4.6s, sys 15.8s, output queue size 14
progress 65% @chr13:12000001, elapsed 0.7s, est remaining 0.4s, peak mem 99MB, user 5.1s, sys 17.1s, output queue size 6
progress 70% @chr14:56000001, elapsed 0.8s, est remaining 0.3s, peak mem 99MB, user 5.7s, sys 18.2s, output queue size 6
progress 75% @chr16:9000001, elapsed 0.8s, est remaining 0.3s, peak mem 99MB, user 6.0s, sys 19.6s, output queue size 13
progress 80% @chr17:81000001, elapsed 0.9s, est remaining 0.2s, peak mem 99MB, user 6.6s, sys 20.8s, output queue size 15
progress 85% @chr20:17000001, elapsed 1.0s, est remaining 0.2s, peak mem 99MB, user 7.0s, sys 22.1s, output queue size 5
progress 90% @chrX:40000001, elapsed 1.0s, est remaining 0.1s, peak mem 111MB, user 7.5s, sys 23.5s, output queue size 114
progress 95% @chrY:41000001, elapsed 1.1s, est remaining 0.1s, peak mem 120MB, user 7.9s, sys 25.3s, output queue size 276
progress 100% @chr21:41000001, elapsed 1.5s, est remaining 0.0s, peak mem 147MB, user 8.9s, sys 28.2s, 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 384
algo: HsMetricAlgo
license: sentieon:Metrics=31
input file size: 51395364
reads: 1001089
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.189 user 15.078 sys 15.881 real
done: 1 calls 0.000 user 0.000 sys 0.001 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.003 user 0.002 sys 1.478 real
idle: 80 calls 0.004 user 0.007 sys 38.588 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 154230784 mem 9.128 user 28.784 sys 2.629 real