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/10/9c315bb6e7871cb298609d78a3f103/1136_76X-T1-TDNA-1_A23MHWWLT4_1.md.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c8/e5be7273f802b047dac4567820e75e/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c8/e5be7273f802b047dac4567820e75e/.command.run
  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
==> STAGING COMPLETE (6 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 AlignmentStat 1136_76X-T1-TDNA-1_A23MHWWLT4_1.sentieon.alignment_summary_metrics --algo InsertSizeMetricAlgo 1136_76X-T1-TDNA-1_A23MHWWLT4_1.sentieon.insert_size_metrics --algo QualDistribution 1136_76X-T1-TDNA-1_A23MHWWLT4_1.sentieon.quality_distribution_metrics --algo BaseDistributionByCycle 1136_76X-T1-TDNA-1_A23MHWWLT4_1.sentieon.base_distribution_by_cycle_metrics --algo MeanQualityByCycle 1136_76X-T1-TDNA-1_A23MHWWLT4_1.sentieon.quality_by_cycle_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:11000001, elapsed 10.3s, est remaining 196.6s, peak mem 3017MB, user 234.9s, sys 3.0s, output queue size 150
progress 10% @chr2:94000001, elapsed 18.1s, est remaining 162.8s, peak mem 4690MB, user 474.7s, sys 4.4s, output queue size 306
progress 15% @chr2:96000001, elapsed 26.2s, est remaining 148.6s, peak mem 5054MB, user 756.9s, sys 6.2s, output queue size 161
progress 20% @chr3:165000001, elapsed 33.5s, est remaining 134.1s, peak mem 5054MB, user 969.7s, sys 6.8s, output queue size 283
progress 25% @chr4:129000001, elapsed 39.9s, est remaining 119.6s, peak mem 5062MB, user 1174.0s, sys 7.5s, output queue size 302
progress 30% @chr5:56000001, elapsed 44.7s, est remaining 104.4s, peak mem 5156MB, user 1312.0s, sys 8.2s, output queue size 464
progress 35% @chr6:80000001, elapsed 53.3s, est remaining 98.9s, peak mem 5632MB, user 1516.2s, sys 8.9s, output queue size 625
progress 40% @chr7:65000001, elapsed 62.2s, est remaining 93.3s, peak mem 5663MB, user 1815.2s, sys 10.0s, output queue size 197
progress 45% @chr8:22000001, elapsed 71.5s, est remaining 87.4s, peak mem 5793MB, user 2097.0s, sys 10.9s, output queue size 356
progress 50% @chr9:81000001, elapsed 78.4s, est remaining 78.4s, peak mem 5980MB, user 2312.1s, sys 11.6s, output queue size 366
progress 55% @chr10:99000001, elapsed 88.1s, est remaining 72.1s, peak mem 6218MB, user 2615.5s, sys 12.6s, output queue size 348
progress 60% @chr11:134000001, elapsed 98.5s, est remaining 65.7s, peak mem 6218MB, user 2895.9s, sys 13.5s, output queue size 510
progress 65% @chr13:33000001, elapsed 107.5s, est remaining 57.9s, peak mem 6218MB, user 3240.9s, sys 14.4s, output queue size 167
progress 70% @chr12:122000001, elapsed 113.0s, est remaining 48.4s, peak mem 6218MB, user 3416.8s, sys 15.0s, output queue size 299
progress 75% @chr16:42000001, elapsed 123.7s, est remaining 41.2s, peak mem 6368MB, user 3712.3s, sys 15.7s, output queue size 461
progress 80% @chr17:63000001, elapsed 140.3s, est remaining 35.1s, peak mem 6468MB, user 4129.6s, sys 16.7s, output queue size 623
progress 85% @chr20:25000001, elapsed 156.0s, est remaining 27.5s, peak mem 6546MB, user 4681.9s, sys 18.0s, output queue size 351
progress 90% @chrX:38000001, elapsed 164.8s, est remaining 18.3s, peak mem 6546MB, user 4975.4s, sys 18.7s, output queue size 513
progress 95% @chrY:53000001, elapsed 170.0s, est remaining 8.9s, peak mem 6546MB, user 5099.8s, sys 19.2s, output queue size 675
progress 100% @chr22:23000001, elapsed 195.8s, est remaining 0.0s, peak mem 6624MB, user 5358.7s, 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: AlignmentStat InsertSizeMetricAlgo QualDistribution BaseDistributionByCycle MeanQualityByCycle
license: sentieon:Metrics=31
input file size: 57443072063
reads: 1090378638
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 923.081 user 17.303 sys 940.466 real
done: 1 calls 0.073 user 0.000 sys 0.075 real
exec_no_coor: 1 calls 0.014 user 0.007 sys 0.025 real
execute: 1 calls 0.005 user 0.001 sys 196.002 real
idle: 764 calls 0.178 user 0.000 sys 728.875 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 6946226176 mem 5360.867 user 20.318 sys 197.345 real