Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/66/ec00edd57efcf7ac616dbd34df9973/.command.sh
  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Sequence/WholeGenomeFasta/Homo_sapiens_assembly38.fasta
  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_footprint.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/10/9c315bb6e7871cb298609d78a3f103/1136_76X-T1-TDNA-1_A23MHWWLT4_1.md.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/66/ec00edd57efcf7ac616dbd34df9973/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/10/9c315bb6e7871cb298609d78a3f103/1136_76X-T1-TDNA-1_A23MHWWLT4_1.md.bam
  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 1136_76X-T1-TDNA-1_A23MHWWLT4_1.md.bam --algo HsMetricAlgo --targets_list targets/xgen-exome-hyb-panel-v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity_footprint.bed --baits_list baits/xgen-exome-hyb-panel-v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity.bed 1136_76X-T1-TDNA-1_A23MHWWLT4_1_xgen-exome-hyb-panel-v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity_footprint.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:188000001, elapsed 5.3s, est remaining 100.3s, peak mem 3245MB, user 114.7s, sys 2.6s, output queue size 150
progress 10% @chr2:94000001, elapsed 9.0s, est remaining 81.2s, peak mem 4030MB, user 245.6s, sys 4.3s, output queue size 166
progress 15% @chr2:96000001, elapsed 12.8s, est remaining 72.8s, peak mem 5010MB, user 368.6s, sys 6.5s, output queue size 161
progress 20% @chr3:174000001, elapsed 16.3s, est remaining 65.4s, peak mem 5010MB, user 477.6s, sys 7.6s, output queue size 141
progress 25% @chr4:129000001, elapsed 19.3s, est remaining 58.0s, peak mem 5010MB, user 558.9s, sys 8.2s, output queue size 302
progress 30% @chr5:94000001, elapsed 21.5s, est remaining 50.2s, peak mem 5010MB, user 627.7s, sys 8.7s, output queue size 464
progress 35% @chr6:80000001, elapsed 25.3s, est remaining 47.0s, peak mem 5276MB, user 726.3s, sys 9.7s, output queue size 625
progress 40% @chr7:65000001, elapsed 29.1s, est remaining 43.6s, peak mem 5801MB, user 848.2s, sys 10.7s, output queue size 197
progress 45% @chr8:70000001, elapsed 33.1s, est remaining 40.5s, peak mem 5912MB, user 968.7s, sys 12.0s, output queue size 356
progress 50% @chr9:34000001, elapsed 36.1s, est remaining 36.1s, peak mem 5957MB, user 1068.6s, sys 12.6s, output queue size 324
progress 55% @chr9:132000001, elapsed 40.5s, est remaining 33.2s, peak mem 6069MB, user 1197.5s, sys 13.4s, output queue size 348
progress 60% @chr12:1000001, elapsed 45.3s, est remaining 30.2s, peak mem 6069MB, user 1338.5s, sys 14.2s, output queue size 510
progress 65% @chr13:26000001, elapsed 49.2s, est remaining 26.5s, peak mem 6118MB, user 1468.7s, sys 14.7s, output queue size 167
progress 70% @chr14:79000001, elapsed 51.7s, est remaining 22.2s, peak mem 6157MB, user 1555.5s, sys 15.3s, output queue size 299
progress 75% @chr16:42000001, elapsed 56.5s, est remaining 18.8s, peak mem 6200MB, user 1685.3s, sys 16.0s, output queue size 461
progress 80% @chr18:10000001, elapsed 64.1s, est remaining 16.0s, peak mem 6327MB, user 1890.0s, sys 16.9s, output queue size 623
progress 85% @chr19:40000001, elapsed 71.3s, est remaining 12.6s, peak mem 6402MB, user 2129.5s, sys 18.0s, output queue size 351
progress 90% @chrX:36000001, elapsed 75.2s, est remaining 8.4s, peak mem 6403MB, user 2280.2s, sys 18.8s, output queue size 78
progress 95% @chrY:53000001, elapsed 77.5s, est remaining 4.1s, peak mem 6533MB, user 2341.4s, sys 19.3s, output queue size 240
progress 100% @chr22:23000001, elapsed 87.8s, est remaining 0.0s, peak mem 6610MB, user 2425.6s, sys 19.9s, output queue size 3635
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: 57443072063
reads: 1090378638
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 910.669 user 16.942 sys 928.394 real
done: 1 calls 0.352 user 0.009 sys 0.367 real
exec_no_coor: 1 calls 0.000 user 0.011 sys 0.017 real
execute: 1 calls 0.003 user 0.001 sys 87.836 real
idle: 341 calls 0.181 user 0.001 sys 309.355 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 6932123648 mem 2427.561 user 20.586 sys 89.605 real