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/74/78f1793f76ffb4714809eb88f389ec/.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/74/78f1793f76ffb4714809eb88f389ec/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b8/09ab92fd6d06dd30552109cbffc247/Sig_18_Blood.md.bam
  Downloading: s3://natera-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/foresight/foresight_clarity_targets_hg38.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b8/09ab92fd6d06dd30552109cbffc247/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/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 Sig_18_Blood_foresight_clarity_targets_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:144000001, elapsed 0.0s, est remaining 0.8s, peak mem 96MB, user 0.4s, sys 0.6s, output queue size 18
progress 10% @chr2:82000001, elapsed 0.1s, est remaining 0.8s, peak mem 96MB, user 1.0s, sys 1.2s, output queue size 12
progress 15% @chr2:220000001, elapsed 0.1s, est remaining 0.7s, peak mem 96MB, user 1.4s, sys 2.0s, output queue size 19
progress 20% @chr3:162000001, elapsed 0.2s, est remaining 0.6s, peak mem 96MB, user 1.9s, sys 2.6s, output queue size 21
progress 25% @chr4:117000001, elapsed 0.2s, est remaining 0.6s, peak mem 96MB, user 2.3s, sys 3.4s, output queue size 26
progress 30% @chr5:62000001, elapsed 0.2s, est remaining 0.5s, peak mem 96MB, user 2.7s, sys 4.1s, output queue size 24
progress 35% @chr6:72000001, elapsed 0.3s, est remaining 0.5s, peak mem 96MB, user 3.3s, sys 4.8s, output queue size 11
progress 40% @chr7:38000001, elapsed 0.3s, est remaining 0.5s, peak mem 96MB, user 3.9s, sys 5.3s, output queue size 18
progress 45% @chr8:61000001, elapsed 0.3s, est remaining 0.4s, peak mem 96MB, user 4.2s, sys 6.1s, output queue size 8
progress 50% @chr9:77000001, elapsed 0.4s, est remaining 0.4s, peak mem 96MB, user 4.5s, sys 7.0s, output queue size 19
progress 55% @chr10:96000001, elapsed 0.4s, est remaining 0.3s, peak mem 96MB, user 4.7s, sys 8.0s, output queue size 6
progress 60% @chr11:130000001, elapsed 0.5s, est remaining 0.3s, peak mem 96MB, user 5.0s, sys 8.9s, output queue size 16
progress 65% @chr13:14000001, elapsed 0.5s, est remaining 0.3s, peak mem 96MB, user 5.5s, sys 9.5s, output queue size 13
progress 70% @chr14:60000001, elapsed 0.5s, est remaining 0.2s, peak mem 96MB, user 6.0s, sys 10.2s, output queue size 5
progress 75% @chr16:11000001, elapsed 0.6s, est remaining 0.2s, peak mem 96MB, user 6.4s, sys 11.0s, output queue size 13
progress 80% @chr18:2000001, elapsed 0.6s, est remaining 0.2s, peak mem 96MB, user 6.8s, sys 11.8s, output queue size 17
progress 85% @chr20:22000001, elapsed 0.7s, est remaining 0.1s, peak mem 96MB, user 7.4s, sys 12.3s, output queue size 12
progress 90% @chrX:28000001, elapsed 0.7s, est remaining 0.1s, peak mem 111MB, user 7.9s, sys 13.2s, output queue size 114
progress 95% @chrY:31000001, elapsed 0.8s, est remaining 0.0s, peak mem 126MB, user 8.3s, sys 14.3s, output queue size 276
progress 100% @chr21:41000001, elapsed 1.1s, est remaining 0.0s, peak mem 147MB, user 9.2s, sys 15.8s, output queue size 3664
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
cpu vendor: GenuineIntel
 signature: 000a06d1
  features: bfebfbff 7ffefbff
  extended: f3bfb7ef fb417ffe
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) 6975P-C
threads: 31 max 384
algo: HsMetricAlgo
license: sentieon:Metrics=31
input file size: 52290604
reads: 1001133
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.371 user 8.279 sys 10.054 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 0.000 user 0.001 sys 1.089 real
idle: 79 calls 0.009 user 0.012 sys 38.523 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 154234880 mem 9.545 user 16.255 sys 2.218 real