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/2d/ef941c166b390875b74305292b7c07/.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/64/549a0e17c41114d7459188935c7bf0/HCC1395_BL.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2d/ef941c166b390875b74305292b7c07/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/64/549a0e17c41114d7459188935c7bf0/HCC1395_BL.md.bam.bai
  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 HCC1395_BL.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 HCC1395_BL_foresight_clarity_targets_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:155000001, elapsed 0.1s, est remaining 1.3s, peak mem 96MB, user 0.1s, sys 1.5s, output queue size 22
progress 10% @chr2:69000001, elapsed 0.1s, est remaining 1.2s, peak mem 96MB, user 0.3s, sys 3.3s, output queue size 15
progress 15% @chr2:224000001, elapsed 0.2s, est remaining 1.1s, peak mem 96MB, user 0.3s, sys 5.1s, output queue size 11
progress 20% @chr3:145000001, elapsed 0.3s, est remaining 1.0s, peak mem 96MB, user 0.4s, sys 6.9s, output queue size 9
progress 25% @chr4:106000001, elapsed 0.3s, est remaining 0.9s, peak mem 96MB, user 0.5s, sys 8.6s, output queue size 24
progress 30% @chr5:78000001, elapsed 0.4s, est remaining 0.9s, peak mem 96MB, user 0.6s, sys 10.4s, output queue size 14
progress 35% @chr6:56000001, elapsed 0.4s, est remaining 0.8s, peak mem 96MB, user 0.7s, sys 12.2s, output queue size 11
progress 40% @chr7:52000001, elapsed 0.5s, est remaining 0.7s, peak mem 96MB, user 0.8s, sys 13.9s, output queue size 29
progress 45% @chr8:44000001, elapsed 0.6s, est remaining 0.7s, peak mem 96MB, user 0.9s, sys 15.7s, output queue size 13
progress 50% @chr9:62000001, elapsed 0.6s, est remaining 0.6s, peak mem 96MB, user 1.1s, sys 17.4s, output queue size 18
progress 55% @chr10:110000001, elapsed 0.7s, est remaining 0.6s, peak mem 96MB, user 1.2s, sys 19.1s, output queue size 27
progress 60% @chr11:110000001, elapsed 0.7s, est remaining 0.5s, peak mem 96MB, user 1.3s, sys 21.0s, output queue size 23
progress 65% @chr13:33000001, elapsed 0.8s, est remaining 0.4s, peak mem 96MB, user 1.3s, sys 22.9s, output queue size 24
progress 70% @chr14:51000001, elapsed 0.9s, est remaining 0.4s, peak mem 96MB, user 1.4s, sys 24.7s, output queue size 23
progress 75% @chr16:6000001, elapsed 0.9s, est remaining 0.3s, peak mem 96MB, user 1.5s, sys 26.5s, output queue size 12
progress 80% @chr18:19000001, elapsed 1.0s, est remaining 0.2s, peak mem 96MB, user 1.5s, sys 28.3s, output queue size 17
progress 85% @chr20:35000001, elapsed 1.0s, est remaining 0.2s, peak mem 96MB, user 1.6s, sys 30.2s, output queue size 9
progress 90% @chrX:42000001, elapsed 1.1s, est remaining 0.1s, peak mem 99MB, user 2.0s, sys 31.4s, output queue size 114
progress 95% @chrY:20000001, elapsed 1.2s, est remaining 0.1s, peak mem 114MB, user 2.5s, sys 33.2s, output queue size 276
progress 100% @chr21:41000001, elapsed 1.6s, est remaining 0.0s, peak mem 150MB, user 3.5s, sys 36.3s, 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: 51395361
reads: 1001089
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.206 user 19.180 sys 20.028 real
done: 1 calls 0.000 user 0.000 sys 0.002 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.004 user 0.001 sys 1.571 real
idle: 80 calls 0.005 user 0.031 sys 38.681 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 157339648 mem 3.706 user 36.863 sys 2.711 real