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/78/a81da2d0fa29b3952870d0498b7890/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/78/a81da2d0fa29b3952870d0498b7890/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/de/5c7110ff47bdb871224ee1d5c4d1eb/Sig_18_Blood.md.bam
  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/de/5c7110ff47bdb871224ee1d5c4d1eb/Sig_18_Blood.md.bam.bai
==> STAGING COMPLETE (6 inputs)

cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -r Homo_sapiens_assembly38.fasta -i Sig_18_Blood.md.bam --algo AlignmentStat Sig_18_Blood.sentieon.alignment_summary_metrics --algo InsertSizeMetricAlgo Sig_18_Blood.sentieon.insert_size_metrics --algo QualDistribution Sig_18_Blood.sentieon.quality_distribution_metrics --algo BaseDistributionByCycle Sig_18_Blood.sentieon.base_distribution_by_cycle_metrics --algo MeanQualityByCycle Sig_18_Blood.sentieon.quality_by_cycle_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:158000001, elapsed 0.0s, est remaining 0.6s, peak mem 81MB, user 0.2s, sys 0.3s, output queue size 3
progress 10% @chr2:73000001, elapsed 0.1s, est remaining 0.5s, peak mem 81MB, user 0.6s, sys 0.7s, output queue size 9
progress 15% @chr2:229000001, elapsed 0.1s, est remaining 0.5s, peak mem 81MB, user 1.1s, sys 1.1s, output queue size 6
progress 20% @chr3:154000001, elapsed 0.1s, est remaining 0.4s, peak mem 81MB, user 1.5s, sys 1.4s, output queue size 2
progress 25% @chr4:105000001, elapsed 0.1s, est remaining 0.4s, peak mem 81MB, user 2.1s, sys 1.7s, output queue size 10
progress 30% @chr5:63000001, elapsed 0.2s, est remaining 0.4s, peak mem 81MB, user 2.7s, sys 1.9s, output queue size 23
progress 35% @chr6:60000001, elapsed 0.2s, est remaining 0.4s, peak mem 81MB, user 3.1s, sys 2.4s, output queue size 5
progress 40% @chr7:55000001, elapsed 0.2s, est remaining 0.3s, peak mem 81MB, user 3.6s, sys 2.7s, output queue size 1
progress 45% @chr8:56000001, elapsed 0.2s, est remaining 0.3s, peak mem 81MB, user 4.1s, sys 3.1s, output queue size 1
progress 50% @chr9:72000001, elapsed 0.3s, est remaining 0.3s, peak mem 81MB, user 4.2s, sys 3.7s, output queue size 4
progress 55% @chr10:95000001, elapsed 0.3s, est remaining 0.2s, peak mem 81MB, user 4.7s, sys 4.0s, output queue size 2
progress 60% @chr11:123000001, elapsed 0.3s, est remaining 0.2s, peak mem 81MB, user 5.3s, sys 4.3s, output queue size 9
progress 65% @chr13:17000001, elapsed 0.4s, est remaining 0.2s, peak mem 81MB, user 5.7s, sys 4.6s, output queue size 2
progress 70% @chr14:59000001, elapsed 0.4s, est remaining 0.2s, peak mem 81MB, user 6.0s, sys 5.1s, output queue size 2
progress 75% @chr16:12000001, elapsed 0.4s, est remaining 0.1s, peak mem 81MB, user 6.4s, sys 5.6s, output queue size 3
progress 80% @chr17:80000001, elapsed 0.4s, est remaining 0.1s, peak mem 81MB, user 6.8s, sys 6.0s, output queue size 15
progress 85% @chr20:18000001, elapsed 0.5s, est remaining 0.1s, peak mem 81MB, user 7.3s, sys 6.2s, output queue size 4
progress 90% @chrX:43000001, elapsed 0.5s, est remaining 0.1s, peak mem 112MB, user 8.1s, sys 6.4s, output queue size 114
progress 95% @chrY:39000001, elapsed 0.6s, est remaining 0.0s, peak mem 133MB, user 8.8s, sys 6.7s, output queue size 276
progress 100% @chr21:41000001, elapsed 1.3s, est remaining 0.0s, peak mem 157MB, user 11.8s, sys 6.9s, output queue size 3664
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.83
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: 52291134
reads: 1001133
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.421 user 3.272 sys 4.666 real
done: 1 calls 0.000 user 0.000 sys 0.001 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.002 user 0.008 sys 1.277 real
idle: 73 calls 0.053 user 0.012 sys 50.399 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 165429248 mem 12.183 user 7.422 sys 2.320 real