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/2a/15af2f8513f9d8bb4444ca5d8f3bc3/.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/10/80d1b6be657723bff7162ae1f1c74e/659_eKx-T1-TDNA-1_A23MHWWLT4_1.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/10/80d1b6be657723bff7162ae1f1c74e/659_eKx-T1-TDNA-1_A23MHWWLT4_1.md.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2a/15af2f8513f9d8bb4444ca5d8f3bc3/.command.run
  Downloading: s3://natera-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/foresight/foresight_clarity_targets_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 659_eKx-T1-TDNA-1_A23MHWWLT4_1.md.bam --algo HsMetricAlgo --targets_list targets/foresight_clarity_targets_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 659_eKx-T1-TDNA-1_A23MHWWLT4_1_foresight_clarity_targets_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 103MB, user 0.1s, sys 0.4s, output queue size 14
progress 10% @chr2:76000001, elapsed 0.1s, est remaining 0.5s, peak mem 104MB, user 0.2s, sys 1.1s, output queue size 41
progress 15% @chr2:233000001, elapsed 0.1s, est remaining 0.5s, peak mem 109MB, user 0.3s, sys 1.9s, output queue size 203
progress 20% @chr3:151000001, elapsed 0.1s, est remaining 0.5s, peak mem 113MB, user 0.4s, sys 2.7s, output queue size 364
progress 25% @chr4:93000001, elapsed 0.1s, est remaining 0.4s, peak mem 115MB, user 0.4s, sys 3.4s, output queue size 22
progress 30% @chr5:88000001, elapsed 0.2s, est remaining 0.4s, peak mem 115MB, user 0.5s, sys 4.1s, output queue size 14
progress 35% @chr6:53000001, elapsed 0.2s, est remaining 0.3s, peak mem 115MB, user 0.6s, sys 4.7s, output queue size 19
progress 40% @chr7:58000001, elapsed 0.2s, est remaining 0.3s, peak mem 115MB, user 0.6s, sys 5.3s, output queue size 16
progress 45% @chr8:38000001, elapsed 0.2s, est remaining 0.3s, peak mem 115MB, user 0.9s, sys 6.0s, output queue size 19
progress 50% @chr9:77000001, elapsed 0.3s, est remaining 0.3s, peak mem 115MB, user 0.9s, sys 6.5s, output queue size 16
progress 55% @chr10:83000001, elapsed 0.3s, est remaining 0.2s, peak mem 115MB, user 1.0s, sys 7.1s, output queue size 15
progress 60% @chr11:123000001, elapsed 0.3s, est remaining 0.2s, peak mem 115MB, user 1.0s, sys 7.9s, output queue size 6
progress 65% @chr13:20000001, elapsed 0.3s, est remaining 0.2s, peak mem 115MB, user 1.2s, sys 8.4s, output queue size 13
progress 70% @chr14:55000001, elapsed 0.3s, est remaining 0.1s, peak mem 115MB, user 1.3s, sys 8.9s, output queue size 18
progress 75% @chr16:17000001, elapsed 0.4s, est remaining 0.1s, peak mem 115MB, user 1.4s, sys 9.6s, output queue size 22
progress 80% @chr17:66000001, elapsed 0.4s, est remaining 0.1s, peak mem 115MB, user 1.4s, sys 10.2s, output queue size 18
progress 85% @chr20:23000001, elapsed 0.4s, est remaining 0.1s, peak mem 115MB, user 1.5s, sys 10.7s, output queue size 14
progress 90% @chrX:18000001, elapsed 0.4s, est remaining 0.0s, peak mem 115MB, user 1.7s, sys 11.4s, output queue size 23
progress 95% @chrY:28000001, elapsed 0.5s, est remaining 0.0s, peak mem 115MB, user 1.8s, sys 12.0s, output queue size 5
progress 100% @HLA-C*07:04:01:1, elapsed 0.5s, est remaining 0.0s, peak mem 115MB, user 1.8s, sys 12.4s, output queue size 2158
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: 13775988
reads: 229053
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 0.794 user 5.964 sys 7.108 real
done: 1 calls 0.000 user 0.000 sys 0.001 real
exec_no_coor: 1 calls 0.001 user 0.000 sys 0.001 real
execute: 1 calls 0.002 user 0.001 sys 0.498 real
idle: 74 calls 0.001 user 0.002 sys 31.078 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 121073664 mem 2.006 user 13.179 sys 1.632 real