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/37/791bde000dd2bfc15b7e92cbec6598/.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/37/791bde000dd2bfc15b7e92cbec6598/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/96/affe90ad272751a557cfb55ea8a87a/HCC1395_tumor.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/96/affe90ad272751a557cfb55ea8a87a/HCC1395_tumor.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_tumor.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_tumor_altera_v3_targets_noncoding_postQC_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:162000001, elapsed 0.0s, est remaining 0.4s, peak mem 102MB, user 0.1s, sys 0.4s, output queue size 5
progress 10% @chr2:72000001, elapsed 0.0s, est remaining 0.4s, peak mem 102MB, user 0.2s, sys 0.9s, output queue size 14
progress 15% @chr2:206000001, elapsed 0.1s, est remaining 0.4s, peak mem 102MB, user 0.2s, sys 1.5s, output queue size 29
progress 20% @chr3:151000001, elapsed 0.1s, est remaining 0.3s, peak mem 102MB, user 0.3s, sys 2.0s, output queue size 2
progress 25% @chr4:116000001, elapsed 0.1s, est remaining 0.3s, peak mem 102MB, user 0.3s, sys 2.6s, output queue size 3
progress 30% @chr5:88000001, elapsed 0.1s, est remaining 0.3s, peak mem 102MB, user 0.3s, sys 3.2s, output queue size 13
progress 35% @chr6:68000001, elapsed 0.1s, est remaining 0.3s, peak mem 102MB, user 0.4s, sys 3.7s, output queue size 21
progress 40% @chr7:56000001, elapsed 0.2s, est remaining 0.2s, peak mem 102MB, user 0.4s, sys 4.3s, output queue size 19
progress 45% @chr8:36000001, elapsed 0.2s, est remaining 0.2s, peak mem 102MB, user 0.4s, sys 4.9s, output queue size 21
progress 50% @chr9:73000001, elapsed 0.2s, est remaining 0.2s, peak mem 102MB, user 0.4s, sys 5.4s, output queue size 15
progress 55% @chr10:95000001, elapsed 0.2s, est remaining 0.2s, peak mem 102MB, user 0.5s, sys 6.0s, output queue size 20
progress 60% @chr11:122000001, elapsed 0.2s, est remaining 0.2s, peak mem 102MB, user 0.6s, sys 6.4s, output queue size 22
progress 65% @chr13:16000001, elapsed 0.3s, est remaining 0.1s, peak mem 102MB, user 0.7s, sys 7.0s, output queue size 14
progress 70% @chr14:63000001, elapsed 0.3s, est remaining 0.1s, peak mem 102MB, user 0.7s, sys 7.5s, output queue size 21
progress 75% @chr16:15000001, elapsed 0.3s, est remaining 0.1s, peak mem 102MB, user 0.7s, sys 8.1s, output queue size 3
progress 80% @chr17:82000001, elapsed 0.3s, est remaining 0.1s, peak mem 102MB, user 0.7s, sys 8.6s, output queue size 9
progress 85% @chr20:22000001, elapsed 0.3s, est remaining 0.1s, peak mem 102MB, user 0.8s, sys 9.1s, output queue size 17
progress 90% @chrX:36000001, elapsed 0.4s, est remaining 0.0s, peak mem 114MB, user 1.1s, sys 9.7s, output queue size 114
progress 95% @chrY:34000001, elapsed 0.4s, est remaining 0.0s, peak mem 132MB, user 1.4s, sys 10.3s, output queue size 276
progress 100% @chr21:41000001, elapsed 0.8s, est remaining 0.0s, peak mem 153MB, user 2.6s, sys 11.1s, 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: 50813903
reads: 1001320
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.151 user 5.922 sys 6.774 real
done: 1 calls 0.000 user 0.000 sys 0.001 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.001 user 0.001 sys 0.830 real
idle: 78 calls 0.015 user 0.011 sys 42.366 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 160587776 mem 2.796 user 11.557 sys 1.987 real