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/b2/a8fba1f54300b815527327e59b0f6a/.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/56/13741b9a5c47905c2325e589b6cf85/HCC1395_BL.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b2/a8fba1f54300b815527327e59b0f6a/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/56/13741b9a5c47905c2325e589b6cf85/HCC1395_BL.md.bam.bai
  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 HCC1395_BL.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 HCC1395_BL_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 0.4s, peak mem 101MB, user 0.1s, sys 0.2s, output queue size 11
progress 10% @chr2:75000001, elapsed 0.0s, est remaining 0.4s, peak mem 101MB, user 0.2s, sys 0.6s, output queue size 16
progress 15% @chr2:225000001, elapsed 0.1s, est remaining 0.4s, peak mem 101MB, user 0.4s, sys 1.0s, output queue size 10
progress 20% @chr3:151000001, elapsed 0.1s, est remaining 0.3s, peak mem 101MB, user 0.6s, sys 1.6s, output queue size 12
progress 25% @chr4:116000001, elapsed 0.1s, est remaining 0.3s, peak mem 101MB, user 0.8s, sys 2.0s, output queue size 2
progress 30% @chr5:81000001, elapsed 0.1s, est remaining 0.3s, peak mem 101MB, user 1.0s, sys 2.4s, output queue size 18
progress 35% @chr6:59000001, elapsed 0.1s, est remaining 0.3s, peak mem 101MB, user 1.2s, sys 2.8s, output queue size 8
progress 40% @chr7:39000001, elapsed 0.2s, est remaining 0.2s, peak mem 101MB, user 1.4s, sys 3.3s, output queue size 16
progress 45% @chr8:52000001, elapsed 0.2s, est remaining 0.2s, peak mem 101MB, user 1.6s, sys 3.7s, output queue size 18
progress 50% @chr9:69000001, elapsed 0.2s, est remaining 0.2s, peak mem 101MB, user 1.9s, sys 4.0s, output queue size 17
progress 55% @chr10:96000001, elapsed 0.2s, est remaining 0.2s, peak mem 101MB, user 2.1s, sys 4.5s, output queue size 4
progress 60% @chr11:125000001, elapsed 0.2s, est remaining 0.2s, peak mem 101MB, user 2.3s, sys 4.9s, output queue size 5
progress 65% @chr13:21000001, elapsed 0.3s, est remaining 0.1s, peak mem 101MB, user 2.5s, sys 5.3s, output queue size 2
progress 70% @chr14:62000001, elapsed 0.3s, est remaining 0.1s, peak mem 101MB, user 2.7s, sys 5.7s, output queue size 3
progress 75% @chr16:18000001, elapsed 0.3s, est remaining 0.1s, peak mem 101MB, user 2.8s, sys 6.2s, output queue size 7
progress 80% @chr17:79000001, elapsed 0.3s, est remaining 0.1s, peak mem 101MB, user 3.0s, sys 6.6s, output queue size 5
progress 85% @chr20:20000001, elapsed 0.4s, est remaining 0.1s, peak mem 101MB, user 3.2s, sys 7.1s, output queue size 2
progress 90% @chrX:35000001, elapsed 0.4s, est remaining 0.0s, peak mem 127MB, user 3.6s, sys 7.6s, output queue size 114
progress 95% @chrY:34000001, elapsed 0.4s, est remaining 0.0s, peak mem 145MB, user 3.9s, sys 8.0s, output queue size 276
progress 100% @chr21:41000001, elapsed 0.9s, est remaining 0.0s, peak mem 164MB, user 5.3s, sys 8.6s, output queue size 3664
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
cpu vendor: GenuineIntel
 signature: 000c06f2
  features: bfebfbff 7ffefbff
  extended: f3bfb7ef fb417ffe
  amd bits: 2c100800 00000121
     brand: INTEL(R) XEON(R) PLATINUM 8559C
threads: 31 max 192
algo: HsMetricAlgo
license: sentieon:Metrics=31
input file size: 51395363
reads: 1001089
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.209 user 4.497 sys 6.002 real
done: 1 calls 0.001 user 0.000 sys 0.002 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.003 user 0.003 sys 0.883 real
idle: 72 calls 0.014 user 0.010 sys 43.011 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 172961792 mem 5.707 user 9.246 sys 2.060 real