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/f8/c54c5d8d35bd2a6d906268745853e6/.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/54/67e80fd959906794093fa1156b5149/HCC1395_BL.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f8/c54c5d8d35bd2a6d906268745853e6/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/54/67e80fd959906794093fa1156b5149/HCC1395_BL.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_BL.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_BL_altera_v3_targets_noncoding_postQC_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
No more license available for sentieon:Metrics
No more license available for sentieon:Metrics
No more license available for sentieon:Metrics
No more license available for sentieon:Metrics
No more license available for sentieon:Metrics
No more license available for sentieon:Metrics
No more license available for sentieon:Metrics
progress 5% @chr1:161000001, elapsed 240.1s, est remaining 4561.6s, peak mem 101MB, user 0.1s, sys 0.9s, output queue size 1
progress 10% @chr2:80000001, elapsed 240.1s, est remaining 2161.1s, peak mem 101MB, user 0.2s, sys 1.9s, output queue size 12
progress 15% @chr2:239000001, elapsed 240.2s, est remaining 1360.9s, peak mem 101MB, user 0.4s, sys 3.0s, output queue size 13
progress 20% @chr3:152000001, elapsed 240.2s, est remaining 960.8s, peak mem 101MB, user 0.5s, sys 4.0s, output queue size 1
progress 25% @chr4:112000001, elapsed 240.2s, est remaining 720.7s, peak mem 101MB, user 0.6s, sys 5.1s, output queue size 10
progress 30% @chr5:89000001, elapsed 240.3s, est remaining 560.6s, peak mem 101MB, user 0.8s, sys 6.0s, output queue size 5
progress 35% @chr6:65000001, elapsed 240.3s, est remaining 446.3s, peak mem 101MB, user 0.9s, sys 7.1s, output queue size 10
progress 40% @chr7:56000001, elapsed 240.4s, est remaining 360.5s, peak mem 101MB, user 1.1s, sys 8.1s, output queue size 2
progress 45% @chr8:58000001, elapsed 240.4s, est remaining 293.8s, peak mem 101MB, user 1.1s, sys 9.3s, output queue size 8
progress 50% @chr9:77000001, elapsed 240.4s, est remaining 240.4s, peak mem 101MB, user 1.2s, sys 10.2s, output queue size 11
progress 55% @chr10:101000001, elapsed 240.5s, est remaining 196.7s, peak mem 101MB, user 1.3s, sys 11.2s, output queue size 8
progress 60% @chr11:128000001, elapsed 240.5s, est remaining 160.3s, peak mem 101MB, user 1.5s, sys 12.2s, output queue size 12
progress 65% @chr13:19000001, elapsed 240.5s, est remaining 129.5s, peak mem 101MB, user 1.6s, sys 13.2s, output queue size 7
progress 70% @chr14:65000001, elapsed 240.6s, est remaining 103.1s, peak mem 101MB, user 1.8s, sys 14.2s, output queue size 9
progress 75% @chr16:13000001, elapsed 240.6s, est remaining 80.2s, peak mem 101MB, user 1.9s, sys 15.3s, output queue size 12
progress 80% @chr17:81000001, elapsed 240.7s, est remaining 60.2s, peak mem 101MB, user 2.0s, sys 16.4s, output queue size 3
progress 85% @chr20:7000001, elapsed 240.7s, est remaining 42.5s, peak mem 101MB, user 2.0s, sys 17.5s, output queue size 15
progress 90% @chrX:34000001, elapsed 240.7s, est remaining 26.7s, peak mem 125MB, user 2.5s, sys 18.2s, output queue size 114
progress 95% @chrY:38000001, elapsed 240.8s, est remaining 12.7s, peak mem 139MB, user 2.9s, sys 18.9s, output queue size 276
progress 100% @chr21:41000001, elapsed 241.2s, est remaining 0.0s, peak mem 164MB, user 4.4s, sys 20.2s, output queue size 3664
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.83
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: 51395352
reads: 1001089
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.505 user 9.981 sys 12.514 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 0.006 user 0.001 sys 241.257 real
idle: 61 calls 0.006 user 0.020 sys 42.818 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 172945408 mem 4.677 user 20.869 sys 242.412 real