Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b6/3498bfd2fcb7d554d2a6dd07e822e1/659_d0M-T1-TDNA-1_A23MHWWLT4_1.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b6/3498bfd2fcb7d554d2a6dd07e822e1/659_d0M-T1-TDNA-1_A23MHWWLT4_1.md.bam.bai
  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/6e/1fac2bcd573b5b1cd220f14a2d2665/.command.sh
  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/6e/1fac2bcd573b5b1cd220f14a2d2665/.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_d0M-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_d0M-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% @chr1:172000001, elapsed 3.5s, est remaining 67.3s, peak mem 3728MB, user 84.2s, sys 3.8s, output queue size 146
progress 10% @chr2:70000001, elapsed 6.7s, est remaining 60.5s, peak mem 4617MB, user 174.6s, sys 6.3s, output queue size 96
progress 15% @chr2:218000001, elapsed 10.3s, est remaining 58.2s, peak mem 7026MB, user 275.7s, sys 9.2s, output queue size 203
progress 20% @chr3:155000001, elapsed 13.0s, est remaining 52.0s, peak mem 7604MB, user 356.7s, sys 10.3s, output queue size 364
progress 25% @chr4:124000001, elapsed 15.4s, est remaining 46.1s, peak mem 7630MB, user 442.1s, sys 12.8s, output queue size 302
progress 30% @chr5:75000001, elapsed 17.2s, est remaining 40.1s, peak mem 7761MB, user 499.0s, sys 13.5s, output queue size 464
progress 35% @chr6:91000001, elapsed 19.8s, est remaining 36.8s, peak mem 7915MB, user 568.7s, sys 14.4s, output queue size 625
progress 40% @chr7:79000001, elapsed 23.1s, est remaining 34.6s, peak mem 8116MB, user 653.1s, sys 15.4s, output queue size 786
progress 45% @chr7:106000001, elapsed 26.9s, est remaining 32.8s, peak mem 8630MB, user 764.3s, sys 16.5s, output queue size 948
progress 50% @chr9:81000001, elapsed 30.4s, est remaining 30.4s, peak mem 9215MB, user 869.3s, sys 17.7s, output queue size 366
progress 55% @chr10:118000001, elapsed 34.2s, est remaining 28.0s, peak mem 9419MB, user 987.4s, sys 18.9s, output queue size 527
progress 60% @chr11:130000001, elapsed 38.1s, est remaining 25.4s, peak mem 9543MB, user 1116.1s, sys 19.8s, output queue size 510
progress 65% @chr12:113000001, elapsed 42.0s, est remaining 22.6s, peak mem 9634MB, user 1216.8s, sys 20.7s, output queue size 672
progress 70% @chr14:70000001, elapsed 44.2s, est remaining 19.0s, peak mem 9634MB, user 1281.4s, sys 21.4s, output queue size 833
progress 75% @chr16:42000001, elapsed 48.2s, est remaining 16.1s, peak mem 9634MB, user 1400.9s, sys 22.2s, output queue size 995
progress 80% @chr18:9000001, elapsed 53.1s, est remaining 13.3s, peak mem 9634MB, user 1560.9s, sys 23.7s, output queue size 623
progress 85% @chr20:23000001, elapsed 57.5s, est remaining 10.2s, peak mem 9634MB, user 1698.6s, sys 24.8s, output queue size 785
progress 90% @chrX:34000001, elapsed 60.6s, est remaining 6.7s, peak mem 9634MB, user 1798.6s, sys 25.9s, output queue size 947
progress 95% @chrY:53000001, elapsed 62.9s, est remaining 3.3s, peak mem 9634MB, user 1876.9s, sys 26.5s, output queue size 675
progress 100% @chrX:67000001, elapsed 68.5s, est remaining 0.0s, peak mem 9634MB, user 1966.6s, sys 27.2s, output queue size 3540
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: 62651370106
reads: 1242257820
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 972.413 user 23.788 sys 996.701 real
done: 1 calls 0.025 user 0.008 sys 0.035 real
exec_no_coor: 1 calls 0.005 user 0.006 sys 0.017 real
execute: 1 calls 0.003 user 0.001 sys 68.535 real
idle: 190 calls 0.137 user 0.001 sys 160.680 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 10102542336 mem 1967.407 user 27.444 sys 69.883 real