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/64/faeb814f49a32fccb4be34bbbbe690/659_cuO-T1-TDNA-1_A23MHWWLT4_1.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/de/1269788b4a73b50b7a9a56c27afe6e/.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/64/faeb814f49a32fccb4be34bbbbe690/659_cuO-T1-TDNA-1_A23MHWWLT4_1.md.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/de/1269788b4a73b50b7a9a56c27afe6e/.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
  Downloading: s3://natera-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/xgen-exome-hyb-panel-v2-targets-hg38_minus_altera_v3_targets_postQC_hg38.bed
==> STAGING COMPLETE (8 inputs)

cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -r Homo_sapiens_assembly38.fasta -i 659_cuO-T1-TDNA-1_A23MHWWLT4_1.md.bam --algo HsMetricAlgo --targets_list targets/xgen-exome-hyb-panel-v2-targets-hg38_minus_altera_v3_targets_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_cuO-T1-TDNA-1_A23MHWWLT4_1_xgen-exome-hyb-panel-v2-targets-hg38_minus_altera_v3_targets_postQC_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:109000001, elapsed 0.6s, est remaining 11.1s, peak mem 608MB, user 14.0s, sys 0.5s, output queue size 145
progress 10% @chr2:69000001, elapsed 1.0s, est remaining 9.4s, peak mem 740MB, user 28.7s, sys 0.7s, output queue size 48
progress 15% @chr2:177000001, elapsed 1.6s, est remaining 8.9s, peak mem 1053MB, user 43.8s, sys 0.9s, output queue size 203
progress 20% @chr3:173000001, elapsed 2.0s, est remaining 8.1s, peak mem 1078MB, user 58.5s, sys 1.2s, output queue size 141
progress 25% @chr4:102000001, elapsed 2.4s, est remaining 7.3s, peak mem 1099MB, user 71.7s, sys 1.5s, output queue size 302
progress 30% @chr5:101000001, elapsed 2.8s, est remaining 6.5s, peak mem 1121MB, user 81.6s, sys 1.6s, output queue size 464
progress 35% @chr6:72000001, elapsed 3.2s, est remaining 6.0s, peak mem 1138MB, user 95.6s, sys 1.7s, output queue size 106
progress 40% @chr7:65000001, elapsed 3.7s, est remaining 5.6s, peak mem 1164MB, user 108.6s, sys 1.9s, output queue size 194
progress 45% @chr8:54000001, elapsed 4.2s, est remaining 5.2s, peak mem 1168MB, user 125.1s, sys 2.1s, output queue size 204
progress 50% @chr9:33000001, elapsed 4.7s, est remaining 4.7s, peak mem 1224MB, user 137.5s, sys 2.3s, output queue size 366
progress 55% @chr10:115000001, elapsed 5.2s, est remaining 4.3s, peak mem 1247MB, user 153.3s, sys 2.5s, output queue size 348
progress 60% @chr12:3000001, elapsed 5.7s, est remaining 3.8s, peak mem 1257MB, user 169.3s, sys 2.7s, output queue size 510
progress 65% @chr13:27000001, elapsed 6.2s, est remaining 3.4s, peak mem 1267MB, user 185.1s, sys 2.9s, output queue size 672
progress 70% @chr14:79000001, elapsed 6.5s, est remaining 2.8s, peak mem 1271MB, user 193.8s, sys 3.1s, output queue size 833
progress 75% @chr16:42000001, elapsed 7.1s, est remaining 2.4s, peak mem 1318MB, user 210.4s, sys 3.4s, output queue size 461
progress 80% @chr18:27000001, elapsed 7.8s, est remaining 2.0s, peak mem 1331MB, user 230.3s, sys 3.6s, output queue size 623
progress 85% @chr19:55000001, elapsed 8.5s, est remaining 1.5s, peak mem 1346MB, user 254.2s, sys 3.9s, output queue size 351
progress 90% @chrX:18000001, elapsed 8.9s, est remaining 1.0s, peak mem 1352MB, user 267.3s, sys 4.1s, output queue size 513
progress 95% @chrY:49000001, elapsed 9.3s, est remaining 0.5s, peak mem 1358MB, user 277.1s, sys 4.2s, output queue size 675
progress 100% @chrX:67000001, elapsed 9.9s, est remaining 0.0s, peak mem 1413MB, user 288.0s, sys 4.4s, 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: 8443237896
reads: 177115205
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 137.480 user 2.930 sys 141.170 real
done: 1 calls 0.239 user 0.010 sys 0.251 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.001 real
execute: 1 calls 0.002 user 0.001 sys 9.868 real
idle: 62 calls 0.072 user 0.002 sys 43.004 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 1483354112 mem 289.625 user 4.678 sys 11.353 real