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/c2/183b9480a9169b234913487e2cd3ac/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ab/115b64305d060833379ba5675af81f/Sig_18_tissue.md.bam.bai
  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/c2/183b9480a9169b234913487e2cd3ac/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ab/115b64305d060833379ba5675af81f/Sig_18_tissue.md.bam
  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 Sig_18_tissue.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 Sig_18_tissue_altera_v3_targets_noncoding_postQC_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:157000001, elapsed 0.0s, est remaining 0.7s, peak mem 99MB, user 0.4s, sys 0.3s, output queue size 13
progress 10% @chr2:68000001, elapsed 0.1s, est remaining 0.6s, peak mem 99MB, user 1.0s, sys 0.8s, output queue size 18
progress 15% @chr3:1000001, elapsed 0.1s, est remaining 0.6s, peak mem 99MB, user 1.8s, sys 1.1s, output queue size 16
progress 20% @chr3:163000001, elapsed 0.1s, est remaining 0.5s, peak mem 99MB, user 2.4s, sys 1.5s, output queue size 16
progress 25% @chr4:121000001, elapsed 0.2s, est remaining 0.5s, peak mem 99MB, user 3.0s, sys 1.7s, output queue size 9
progress 30% @chr5:98000001, elapsed 0.2s, est remaining 0.5s, peak mem 99MB, user 3.7s, sys 2.0s, output queue size 22
progress 35% @chr6:75000001, elapsed 0.2s, est remaining 0.4s, peak mem 99MB, user 4.4s, sys 2.4s, output queue size 15
progress 40% @chr7:52000001, elapsed 0.3s, est remaining 0.4s, peak mem 99MB, user 5.0s, sys 2.7s, output queue size 3
progress 45% @chr8:61000001, elapsed 0.3s, est remaining 0.4s, peak mem 99MB, user 5.9s, sys 2.9s, output queue size 14
progress 50% @chr9:69000001, elapsed 0.3s, est remaining 0.3s, peak mem 99MB, user 6.7s, sys 2.9s, output queue size 6
progress 55% @chr10:88000001, elapsed 0.4s, est remaining 0.3s, peak mem 99MB, user 7.5s, sys 3.0s, output queue size 9
progress 60% @chr11:118000001, elapsed 0.4s, est remaining 0.3s, peak mem 99MB, user 8.4s, sys 3.1s, output queue size 7
progress 65% @chr13:17000001, elapsed 0.4s, est remaining 0.2s, peak mem 99MB, user 9.3s, sys 3.1s, output queue size 11
progress 70% @chr14:65000001, elapsed 0.5s, est remaining 0.2s, peak mem 99MB, user 10.2s, sys 3.2s, output queue size 12
progress 75% @chr16:5000001, elapsed 0.5s, est remaining 0.2s, peak mem 99MB, user 11.1s, sys 3.3s, output queue size 19
progress 80% @chr18:8000001, elapsed 0.5s, est remaining 0.1s, peak mem 99MB, user 12.0s, sys 3.4s, output queue size 8
progress 85% @chr20:18000001, elapsed 0.6s, est remaining 0.1s, peak mem 99MB, user 12.9s, sys 3.5s, output queue size 4
progress 90% @chrX:35000001, elapsed 0.6s, est remaining 0.1s, peak mem 114MB, user 13.7s, sys 3.8s, output queue size 114
progress 95% @chrY:32000001, elapsed 0.6s, est remaining 0.0s, peak mem 129MB, user 14.3s, sys 4.4s, output queue size 271
progress 100% @chr21:41000001, elapsed 1.1s, est remaining 0.0s, peak mem 141MB, user 15.5s, sys 5.3s, 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: 50047057
reads: 1001838
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.241 user 2.562 sys 4.666 real
done: 1 calls 0.000 user 0.000 sys 0.003 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.003 user 0.001 sys 1.123 real
idle: 84 calls 0.022 user 0.009 sys 43.607 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 147996672 mem 16.168 user 5.633 sys 2.276 real