Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/54/67e80fd959906794093fa1156b5149/HCC1395_BL.md.bam
  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/e7/1aca190905ef9f7b5607e5e463b53e/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e7/1aca190905ef9f7b5607e5e463b53e/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/54/67e80fd959906794093fa1156b5149/HCC1395_BL.md.bam.bai
  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Sequence/WholeGenomeFasta/Homo_sapiens_assembly38.fasta.fai
==> STAGING COMPLETE (6 inputs)

cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -r Homo_sapiens_assembly38.fasta -i HCC1395_BL.md.bam --algo AlignmentStat HCC1395_BL.sentieon.alignment_summary_metrics --algo InsertSizeMetricAlgo HCC1395_BL.sentieon.insert_size_metrics --algo QualDistribution HCC1395_BL.sentieon.quality_distribution_metrics --algo BaseDistributionByCycle HCC1395_BL.sentieon.base_distribution_by_cycle_metrics --algo MeanQualityByCycle HCC1395_BL.sentieon.quality_by_cycle_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
No more license available for sentieon:Metrics
No more license available for sentieon:Metrics
No more license available for sentieon:Metrics
No more license available for sentieon:Metrics
No more license available for sentieon:Metrics
No more license available for sentieon:Metrics
progress 5% @chr1:164000001, elapsed 180.1s, est remaining 3421.5s, peak mem 81MB, user 0.1s, sys 0.9s, output queue size 12
progress 10% @chr2:74000001, elapsed 180.1s, est remaining 1621.0s, peak mem 81MB, user 0.2s, sys 2.0s, output queue size 6
progress 15% @chr2:234000001, elapsed 180.2s, est remaining 1020.9s, peak mem 81MB, user 0.4s, sys 2.9s, output queue size 4
progress 20% @chr3:152000001, elapsed 180.2s, est remaining 720.8s, peak mem 81MB, user 0.5s, sys 4.0s, output queue size 5
progress 25% @chr4:101000001, elapsed 180.2s, est remaining 540.7s, peak mem 81MB, user 0.6s, sys 5.1s, output queue size 14
progress 30% @chr5:89000001, elapsed 180.3s, est remaining 420.6s, peak mem 81MB, user 0.7s, sys 6.1s, output queue size 14
progress 35% @chr6:64000001, elapsed 180.3s, est remaining 334.8s, peak mem 81MB, user 0.8s, sys 7.1s, output queue size 5
progress 40% @chr7:55000001, elapsed 180.3s, est remaining 270.5s, peak mem 81MB, user 0.9s, sys 8.0s, output queue size 2
progress 45% @chr8:56000001, elapsed 180.4s, est remaining 220.4s, peak mem 81MB, user 1.0s, sys 8.9s, output queue size 4
progress 50% @chr9:72000001, elapsed 180.4s, est remaining 180.4s, peak mem 81MB, user 1.0s, sys 9.8s, output queue size 4
progress 55% @chr10:96000001, elapsed 180.4s, est remaining 147.6s, peak mem 81MB, user 1.1s, sys 10.6s, output queue size 4
progress 60% @chr11:123000001, elapsed 180.5s, est remaining 120.3s, peak mem 81MB, user 1.2s, sys 11.4s, output queue size 10
progress 65% @chr13:15000001, elapsed 180.5s, est remaining 97.2s, peak mem 81MB, user 1.3s, sys 12.3s, output queue size 12
progress 70% @chr14:64000001, elapsed 180.5s, est remaining 77.4s, peak mem 81MB, user 1.3s, sys 13.3s, output queue size 7
progress 75% @chr16:16000001, elapsed 180.6s, est remaining 60.2s, peak mem 81MB, user 1.4s, sys 14.2s, output queue size 4
progress 80% @chr18:1000001, elapsed 180.6s, est remaining 45.1s, peak mem 81MB, user 1.5s, sys 15.1s, output queue size 7
progress 85% @chr20:22000001, elapsed 180.6s, est remaining 31.9s, peak mem 81MB, user 1.6s, sys 16.0s, output queue size 5
progress 90% @chrX:44000001, elapsed 180.7s, est remaining 20.1s, peak mem 112MB, user 2.1s, sys 16.5s, output queue size 114
progress 95% @chrY:36000001, elapsed 180.7s, est remaining 9.5s, peak mem 129MB, user 2.8s, sys 17.1s, output queue size 276
progress 100% @chr21:41000001, elapsed 181.5s, est remaining 0.0s, peak mem 160MB, user 5.7s, sys 17.8s, 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: 51395352
reads: 1001089
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.123 user 8.822 sys 10.560 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 0.009 sys 181.513 real
idle: 61 calls 0.019 user 0.026 sys 51.730 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 168501248 mem 5.951 user 18.455 sys 182.556 real