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/3b/b0bd12fd0922cc713637593dfbf09d/.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-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/FINAL_hotspot_list_07302025_hg38_sorted.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3b/b0bd12fd0922cc713637593dfbf09d/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c2/1522110040efeb211ec882b01ba433/Sig_18_Blood.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c2/1522110040efeb211ec882b01ba433/Sig_18_Blood.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 Sig_18_Blood.md.bam --algo HsMetricAlgo --targets_list targets/FINAL_hotspot_list_07302025_hg38_sorted.bed --baits_list baits/xgen-exome-hyb-panel-v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity.bed Sig_18_Blood_FINAL_hotspot_list_07302025_hg38_sorted.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:163000001, elapsed 0.0s, est remaining 0.5s, peak mem 99MB, user 0.1s, sys 0.3s, output queue size 16
progress 10% @chr2:74000001, elapsed 0.0s, est remaining 0.4s, peak mem 99MB, user 0.2s, sys 0.7s, output queue size 17
progress 15% @chr2:237000001, elapsed 0.1s, est remaining 0.4s, peak mem 99MB, user 0.2s, sys 1.4s, output queue size 22
progress 20% @chr3:151000001, elapsed 0.1s, est remaining 0.4s, peak mem 99MB, user 0.3s, sys 2.0s, output queue size 33
progress 25% @chr4:117000001, elapsed 0.1s, est remaining 0.3s, peak mem 99MB, user 0.4s, sys 2.6s, output queue size 13
progress 30% @chr5:88000001, elapsed 0.1s, est remaining 0.3s, peak mem 99MB, user 0.4s, sys 3.2s, output queue size 9
progress 35% @chr6:68000001, elapsed 0.2s, est remaining 0.3s, peak mem 99MB, user 0.5s, sys 3.7s, output queue size 23
progress 40% @chr7:53000001, elapsed 0.2s, est remaining 0.3s, peak mem 99MB, user 0.6s, sys 4.2s, output queue size 2
progress 45% @chr8:60000001, elapsed 0.2s, est remaining 0.2s, peak mem 99MB, user 0.7s, sys 4.7s, output queue size 24
progress 50% @chr9:73000001, elapsed 0.2s, est remaining 0.2s, peak mem 99MB, user 0.8s, sys 5.2s, output queue size 18
progress 55% @chr10:97000001, elapsed 0.2s, est remaining 0.2s, peak mem 99MB, user 0.9s, sys 5.7s, output queue size 16
progress 60% @chr11:124000001, elapsed 0.3s, est remaining 0.2s, peak mem 99MB, user 1.0s, sys 6.3s, output queue size 21
progress 65% @chr13:15000001, elapsed 0.3s, est remaining 0.1s, peak mem 99MB, user 1.1s, sys 6.9s, output queue size 23
progress 70% @chr14:61000001, elapsed 0.3s, est remaining 0.1s, peak mem 99MB, user 1.2s, sys 7.5s, output queue size 24
progress 75% @chr16:12000001, elapsed 0.3s, est remaining 0.1s, peak mem 99MB, user 1.3s, sys 8.0s, output queue size 1
progress 80% @chr18:1, elapsed 0.3s, est remaining 0.1s, peak mem 99MB, user 1.4s, sys 8.5s, output queue size 6
progress 85% @chr20:25000001, elapsed 0.4s, est remaining 0.1s, peak mem 99MB, user 1.4s, sys 9.1s, output queue size 19
progress 90% @chrX:37000001, elapsed 0.4s, est remaining 0.0s, peak mem 120MB, user 1.8s, sys 9.4s, output queue size 114
progress 95% @chrY:33000001, elapsed 0.4s, est remaining 0.0s, peak mem 135MB, user 2.2s, sys 10.0s, output queue size 276
progress 100% @chr21:41000001, elapsed 0.7s, est remaining 0.0s, peak mem 153MB, user 3.1s, sys 10.9s, 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: 52290599
reads: 1001133
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.332 user 5.349 sys 7.139 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 0.733 real
idle: 79 calls 0.003 user 0.009 sys 38.685 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 160538624 mem 3.382 user 11.543 sys 1.862 real