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/b4/ed76261ae14ffd6a8029156a8b9dba/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/12/b67be7e02742b3f5c7d852dac7c92d/659_bgw-T1-TDNA-1_A23MHWWLT4_1.md.bam.bai
  Downloading: s3://natera-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/altera_v3_targets_coding_postQC_hg38.bed
  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/12/b67be7e02742b3f5c7d852dac7c92d/659_bgw-T1-TDNA-1_A23MHWWLT4_1.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b4/ed76261ae14ffd6a8029156a8b9dba/.command.run
  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 659_bgw-T1-TDNA-1_A23MHWWLT4_1.md.bam --algo HsMetricAlgo --targets_list targets/altera_v3_targets_coding_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 659_bgw-T1-TDNA-1_A23MHWWLT4_1_altera_v3_targets_coding_postQC_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:188000001, elapsed 3.2s, est remaining 61.5s, peak mem 2733MB, user 78.2s, sys 2.5s, output queue size 44
progress 10% @chr2:46000001, elapsed 6.7s, est remaining 60.5s, peak mem 4327MB, user 180.2s, sys 4.8s, output queue size 79
progress 15% @chr2:232000001, elapsed 10.8s, est remaining 61.1s, peak mem 6391MB, user 295.4s, sys 8.0s, output queue size 188
progress 20% @chr2:113000001, elapsed 14.2s, est remaining 56.7s, peak mem 6472MB, user 402.3s, sys 9.2s, output queue size 283
progress 25% @chr4:124000001, elapsed 16.7s, est remaining 50.1s, peak mem 6560MB, user 485.6s, sys 9.8s, output queue size 302
progress 30% @chr5:83000001, elapsed 18.8s, est remaining 43.8s, peak mem 6790MB, user 552.1s, sys 10.5s, output queue size 464
progress 35% @chr6:41000001, elapsed 22.1s, est remaining 41.0s, peak mem 6934MB, user 639.9s, sys 11.3s, output queue size 625
progress 40% @chr7:64000001, elapsed 25.9s, est remaining 38.9s, peak mem 7325MB, user 735.3s, sys 12.4s, output queue size 786
progress 45% @chr7:106000001, elapsed 29.9s, est remaining 36.6s, peak mem 7569MB, user 860.7s, sys 13.5s, output queue size 948
progress 50% @chr9:86000001, elapsed 33.2s, est remaining 33.2s, peak mem 7917MB, user 966.3s, sys 14.5s, output queue size 366
progress 55% @chr10:103000001, elapsed 36.9s, est remaining 30.2s, peak mem 7928MB, user 1080.3s, sys 15.2s, output queue size 527
progress 60% @chr12:1000001, elapsed 40.5s, est remaining 27.0s, peak mem 7928MB, user 1184.4s, sys 15.9s, output queue size 689
progress 65% @chr13:23000001, elapsed 44.7s, est remaining 24.1s, peak mem 7928MB, user 1302.6s, sys 16.9s, output queue size 672
progress 70% @chr14:71000001, elapsed 47.1s, est remaining 20.2s, peak mem 7928MB, user 1400.2s, sys 17.5s, output queue size 635
progress 75% @chr16:42000001, elapsed 51.2s, est remaining 17.1s, peak mem 7993MB, user 1518.2s, sys 18.4s, output queue size 461
progress 80% @chr18:25000001, elapsed 56.0s, est remaining 14.0s, peak mem 7993MB, user 1657.6s, sys 19.3s, output queue size 623
progress 85% @chr20:20000001, elapsed 60.3s, est remaining 10.6s, peak mem 7993MB, user 1799.9s, sys 20.1s, output queue size 785
progress 90% @chrX:32000001, elapsed 63.2s, est remaining 7.0s, peak mem 8163MB, user 1876.6s, sys 20.7s, output queue size 947
progress 95% @chrY:54000001, elapsed 65.1s, est remaining 3.4s, peak mem 8163MB, user 1956.0s, sys 21.3s, output queue size 675
progress 100% @chrX:67000001, elapsed 70.5s, est remaining 0.0s, peak mem 8268MB, user 2037.1s, sys 21.8s, output queue size 3540
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
cpu vendor: GenuineIntel
 signature: 000c06f2
  features: bfebfbff 7ffefbff
  extended: f3bfb7ef fb417ffe
  amd bits: 2c100800 00000121
     brand: INTEL(R) XEON(R) PLATINUM 8559C
threads: 31 max 192
algo: HsMetricAlgo
license: sentieon:Metrics=31
input file size: 62674382657
reads: 1298116536
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1010.037 user 19.554 sys 1032.113 real
done: 1 calls 0.020 user 0.020 sys 0.041 real
exec_no_coor: 1 calls 0.006 user 0.006 sys 0.021 real
execute: 1 calls 0.002 user 0.002 sys 70.547 real
idle: 187 calls 0.166 user 0.001 sys 157.136 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 8670654464 mem 2038.127 user 22.096 sys 71.874 real