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/22/b82a7b8a364b0630362c12604b1154/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1f/c025f6442a44865e6b81532c7accfe/1136_8DV-T1-TDNA-1_A23MHWWLT4_1.md.bam.bai
  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/1f/c025f6442a44865e6b81532c7accfe/1136_8DV-T1-TDNA-1_A23MHWWLT4_1.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/22/b82a7b8a364b0630362c12604b1154/.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 1136_8DV-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_8DV-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% @chr1:187000001, elapsed 4.1s, est remaining 78.4s, peak mem 2422MB, user 92.1s, sys 2.0s, output queue size 145
progress 10% @chr2:71000001, elapsed 7.9s, est remaining 71.0s, peak mem 3713MB, user 204.0s, sys 3.4s, output queue size 172
progress 15% @chr2:237000001, elapsed 11.2s, est remaining 63.3s, peak mem 4179MB, user 307.7s, sys 5.2s, output queue size 328
progress 20% @chr3:167000001, elapsed 13.8s, est remaining 55.2s, peak mem 4179MB, user 402.6s, sys 6.5s, output queue size 141
progress 25% @chr4:135000001, elapsed 16.1s, est remaining 48.2s, peak mem 4279MB, user 471.2s, sys 7.1s, output queue size 302
progress 30% @chr5:107000001, elapsed 17.7s, est remaining 41.3s, peak mem 4279MB, user 520.9s, sys 7.5s, output queue size 464
progress 35% @chr6:70000001, elapsed 20.2s, est remaining 37.6s, peak mem 4346MB, user 597.8s, sys 8.2s, output queue size 106
progress 40% @chr7:41000001, elapsed 22.9s, est remaining 34.3s, peak mem 4605MB, user 678.1s, sys 8.8s, output queue size 195
progress 45% @chr8:7000001, elapsed 26.0s, est remaining 31.8s, peak mem 4675MB, user 769.2s, sys 9.6s, output queue size 204
progress 50% @chr9:81000001, elapsed 29.0s, est remaining 29.0s, peak mem 4959MB, user 857.4s, sys 10.1s, output queue size 187
progress 55% @chr10:118000001, elapsed 32.4s, est remaining 26.5s, peak mem 5235MB, user 964.2s, sys 10.7s, output queue size 253
progress 60% @chr11:62000001, elapsed 35.8s, est remaining 23.9s, peak mem 5235MB, user 1070.6s, sys 11.5s, output queue size 312
progress 65% @chr13:23000001, elapsed 38.8s, est remaining 20.9s, peak mem 5247MB, user 1170.7s, sys 11.9s, output queue size 138
progress 70% @chr14:35000001, elapsed 40.5s, est remaining 17.4s, peak mem 5247MB, user 1222.4s, sys 12.1s, output queue size 299
progress 75% @chr16:42000001, elapsed 43.7s, est remaining 14.6s, peak mem 5247MB, user 1305.9s, sys 12.7s, output queue size 461
progress 80% @chr18:1, elapsed 49.5s, est remaining 12.4s, peak mem 5290MB, user 1471.4s, sys 13.6s, output queue size 189
progress 85% @chr19:52000001, elapsed 55.0s, est remaining 9.7s, peak mem 5403MB, user 1646.7s, sys 14.7s, output queue size 351
progress 90% @chrX:34000001, elapsed 58.3s, est remaining 6.5s, peak mem 5470MB, user 1769.0s, sys 15.4s, output queue size 78
progress 95% @chrY:55000001, elapsed 60.5s, est remaining 3.2s, peak mem 5552MB, user 1826.2s, sys 15.7s, output queue size 240
progress 100% @chr22:23000001, elapsed 66.6s, est remaining 0.0s, peak mem 5552MB, user 1888.4s, sys 16.2s, 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: 45110700362
reads: 909143983
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 736.195 user 14.190 sys 749.464 real
done: 1 calls 0.316 user 0.049 sys 0.368 real
exec_no_coor: 1 calls 0.000 user 0.011 sys 0.017 real
execute: 1 calls 0.001 user 0.000 sys 66.664 real
idle: 222 calls 0.173 user 0.001 sys 197.966 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 5822488576 mem 1890.695 user 16.609 sys 68.572 real