Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1e/1804dd3d879d62f8f7ec0f415fcf73/NTC_0002_0015_A23MHWWLT4_1.md.bam
  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/04/4e34c84267e6750bc540738c2ac6f3/.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/1e/1804dd3d879d62f8f7ec0f415fcf73/NTC_0002_0015_A23MHWWLT4_1.md.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/04/4e34c84267e6750bc540738c2ac6f3/.command.run
  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 NTC_0002_0015_A23MHWWLT4_1.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 NTC_0002_0015_A23MHWWLT4_1_altera_v3_targets_noncoding_postQC_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:164000001, elapsed 0.0s, est remaining 0.6s, peak mem 102MB, user 0.6s, sys 0.0s, output queue size 20
progress 10% @chr2:78000001, elapsed 0.1s, est remaining 0.6s, peak mem 103MB, user 1.3s, sys 0.1s, output queue size 41
progress 15% @chr2:237000001, elapsed 0.1s, est remaining 0.5s, peak mem 112MB, user 2.1s, sys 0.2s, output queue size 203
progress 20% @chr3:159000001, elapsed 0.1s, est remaining 0.5s, peak mem 120MB, user 2.4s, sys 0.9s, output queue size 364
progress 25% @chr4:115000001, elapsed 0.2s, est remaining 0.5s, peak mem 129MB, user 2.8s, sys 1.4s, output queue size 525
progress 30% @chr5:88000001, elapsed 0.2s, est remaining 0.4s, peak mem 133MB, user 3.5s, sys 1.5s, output queue size 687
progress 35% @chr6:64000001, elapsed 0.2s, est remaining 0.4s, peak mem 136MB, user 4.3s, sys 1.5s, output queue size 848
progress 40% @chr7:55000001, elapsed 0.2s, est remaining 0.4s, peak mem 136MB, user 5.1s, sys 1.6s, output queue size 1009
progress 45% @chr8:58000001, elapsed 0.3s, est remaining 0.3s, peak mem 136MB, user 6.1s, sys 1.7s, output queue size 5
progress 50% @chr9:74000001, elapsed 0.3s, est remaining 0.3s, peak mem 136MB, user 7.0s, sys 1.7s, output queue size 1
progress 55% @chr10:95000001, elapsed 0.3s, est remaining 0.3s, peak mem 136MB, user 7.8s, sys 1.8s, output queue size 5
progress 60% @chr11:121000001, elapsed 0.4s, est remaining 0.2s, peak mem 136MB, user 8.7s, sys 1.8s, output queue size 2
progress 65% @chr13:15000001, elapsed 0.4s, est remaining 0.2s, peak mem 136MB, user 9.5s, sys 2.0s, output queue size 12
progress 70% @chr14:62000001, elapsed 0.4s, est remaining 0.2s, peak mem 136MB, user 10.3s, sys 2.0s, output queue size 4
progress 75% @chr16:12000001, elapsed 0.5s, est remaining 0.2s, peak mem 136MB, user 11.2s, sys 2.1s, output queue size 6
progress 80% @chr17:82000001, elapsed 0.5s, est remaining 0.1s, peak mem 136MB, user 12.1s, sys 2.1s, output queue size 2
progress 85% @chr20:21000001, elapsed 0.5s, est remaining 0.1s, peak mem 136MB, user 13.0s, sys 2.1s, output queue size 1
progress 90% @chrX:20000001, elapsed 0.5s, est remaining 0.1s, peak mem 136MB, user 13.8s, sys 2.2s, output queue size 1
progress 95% @chrY:25000001, elapsed 0.6s, est remaining 0.0s, peak mem 136MB, user 14.7s, sys 2.2s, output queue size 4
progress 100% @HLA-DRB1*15:03:01:02:1, elapsed 0.6s, est remaining 0.0s, peak mem 136MB, user 15.5s, sys 2.3s, output queue size 2317
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: 2828557
reads: 42902
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 0.513 user 1.157 sys 1.758 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 0.005 user 0.002 sys 0.612 real
idle: 75 calls 0.002 user 0.001 sys 31.074 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 143417344 mem 16.242 user 2.461 sys 1.763 real