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/21/97b5772377cafb38348a85b5b901c6/.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/altera_v3_targets_postQC_hg38.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/21/97b5772377cafb38348a85b5b901c6/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/26/bdb804792874396554f8c9a3111296/HCC1395_tumor.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/26/bdb804792874396554f8c9a3111296/HCC1395_tumor.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 HCC1395_tumor.md.bam --algo HsMetricAlgo --targets_list targets/altera_v3_targets_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_tumor_altera_v3_targets_postQC_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:161000001, elapsed 0.0s, est remaining 0.4s, peak mem 102MB, user 0.1s, sys 0.3s, output queue size 7
progress 10% @chr2:72000001, elapsed 0.0s, est remaining 0.4s, peak mem 102MB, user 0.2s, sys 0.8s, output queue size 20
progress 15% @chr2:214000001, elapsed 0.1s, est remaining 0.4s, peak mem 102MB, user 0.2s, sys 1.4s, output queue size 21
progress 20% @chr3:154000001, elapsed 0.1s, est remaining 0.3s, peak mem 102MB, user 0.3s, sys 1.9s, output queue size 1
progress 25% @chr4:115000001, elapsed 0.1s, est remaining 0.3s, peak mem 102MB, user 0.4s, sys 2.4s, output queue size 7
progress 30% @chr5:88000001, elapsed 0.1s, est remaining 0.3s, peak mem 102MB, user 0.4s, sys 3.0s, output queue size 8
progress 35% @chr6:67000001, elapsed 0.1s, est remaining 0.3s, peak mem 102MB, user 0.5s, sys 3.5s, output queue size 19
progress 40% @chr7:58000001, elapsed 0.2s, est remaining 0.2s, peak mem 102MB, user 0.5s, sys 4.1s, output queue size 8
progress 45% @chr8:60000001, elapsed 0.2s, est remaining 0.2s, peak mem 102MB, user 0.6s, sys 4.6s, output queue size 19
progress 50% @chr9:76000001, elapsed 0.2s, est remaining 0.2s, peak mem 102MB, user 0.7s, sys 5.1s, output queue size 16
progress 55% @chr10:71000001, elapsed 0.2s, est remaining 0.2s, peak mem 102MB, user 0.8s, sys 5.7s, output queue size 24
progress 60% @chr11:123000001, elapsed 0.2s, est remaining 0.2s, peak mem 102MB, user 0.8s, sys 6.3s, output queue size 20
progress 65% @chr13:15000001, elapsed 0.3s, est remaining 0.1s, peak mem 102MB, user 0.9s, sys 6.8s, output queue size 10
progress 70% @chr14:63000001, elapsed 0.3s, est remaining 0.1s, peak mem 102MB, user 1.0s, sys 7.3s, output queue size 14
progress 75% @chr16:13000001, elapsed 0.3s, est remaining 0.1s, peak mem 102MB, user 1.0s, sys 7.9s, output queue size 22
progress 80% @chr18:3000001, elapsed 0.3s, est remaining 0.1s, peak mem 102MB, user 1.1s, sys 8.3s, output queue size 13
progress 85% @chr20:23000001, elapsed 0.3s, est remaining 0.1s, peak mem 102MB, user 1.2s, sys 8.9s, output queue size 21
progress 90% @chrX:36000001, elapsed 0.4s, est remaining 0.0s, peak mem 132MB, user 1.6s, sys 9.2s, output queue size 114
progress 95% @chrY:33000001, elapsed 0.4s, est remaining 0.0s, peak mem 144MB, user 1.9s, sys 9.8s, output queue size 276
progress 100% @chr21:41000001, elapsed 0.8s, est remaining 0.0s, peak mem 169MB, user 3.1s, sys 10.4s, 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 192
algo: HsMetricAlgo
license: sentieon:Metrics=31
input file size: 50813912
reads: 1001320
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.304 user 5.580 sys 6.759 real
done: 1 calls 0.001 user 0.000 sys 0.001 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.002 user 0.002 sys 0.836 real
idle: 76 calls 0.008 user 0.014 sys 42.370 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 177823744 mem 3.325 user 11.180 sys 1.995 real