Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0a/17fccdf819f8ec4c552cea4ecfb06f/1136_7OW-T1-TDNA-1_A23MHWWLT4_1.md.bam.bai
  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/ec/b5e8dbd55d52784b5136b6b6422f5e/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ec/b5e8dbd55d52784b5136b6b6422f5e/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0a/17fccdf819f8ec4c552cea4ecfb06f/1136_7OW-T1-TDNA-1_A23MHWWLT4_1.md.bam
  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 1136_7OW-T1-TDNA-1_A23MHWWLT4_1.md.bam --algo AlignmentStat 1136_7OW-T1-TDNA-1_A23MHWWLT4_1.sentieon.alignment_summary_metrics --algo InsertSizeMetricAlgo 1136_7OW-T1-TDNA-1_A23MHWWLT4_1.sentieon.insert_size_metrics --algo QualDistribution 1136_7OW-T1-TDNA-1_A23MHWWLT4_1.sentieon.quality_distribution_metrics --algo BaseDistributionByCycle 1136_7OW-T1-TDNA-1_A23MHWWLT4_1.sentieon.base_distribution_by_cycle_metrics --algo MeanQualityByCycle 1136_7OW-T1-TDNA-1_A23MHWWLT4_1.sentieon.quality_by_cycle_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:187000001, elapsed 11.2s, est remaining 212.1s, peak mem 3852MB, user 255.7s, sys 3.1s, output queue size 146
progress 10% @chr2:94000001, elapsed 20.7s, est remaining 185.9s, peak mem 5349MB, user 565.2s, sys 5.6s, output queue size 117
progress 15% @chr2:224000001, elapsed 30.7s, est remaining 174.1s, peak mem 6936MB, user 868.0s, sys 7.1s, output queue size 203
progress 20% @chr3:158000001, elapsed 39.3s, est remaining 157.1s, peak mem 6944MB, user 1115.2s, sys 8.9s, output queue size 283
progress 25% @chr4:133000001, elapsed 47.0s, est remaining 140.9s, peak mem 7126MB, user 1378.9s, sys 10.0s, output queue size 302
progress 30% @chr5:38000001, elapsed 53.2s, est remaining 124.0s, peak mem 7406MB, user 1544.5s, sys 10.6s, output queue size 464
progress 35% @chr6:91000001, elapsed 63.4s, est remaining 117.7s, peak mem 7737MB, user 1844.5s, sys 13.0s, output queue size 625
progress 40% @chr7:66000001, elapsed 74.1s, est remaining 111.2s, peak mem 8340MB, user 2106.1s, sys 13.9s, output queue size 786
progress 45% @chr8:79000001, elapsed 87.0s, est remaining 106.3s, peak mem 8769MB, user 2566.7s, sys 15.5s, output queue size 204
progress 50% @chr9:81000001, elapsed 96.5s, est remaining 96.5s, peak mem 8769MB, user 2805.1s, sys 16.3s, output queue size 366
progress 55% @chr10:103000001, elapsed 108.6s, est remaining 88.9s, peak mem 8769MB, user 3155.0s, sys 17.3s, output queue size 527
progress 60% @chr11:134000001, elapsed 120.0s, est remaining 80.0s, peak mem 8769MB, user 3575.4s, sys 18.3s, output queue size 510
progress 65% @chr13:35000001, elapsed 131.6s, est remaining 70.9s, peak mem 8769MB, user 3857.3s, sys 19.3s, output queue size 672
progress 70% @chr14:71000001, elapsed 138.3s, est remaining 59.3s, peak mem 8769MB, user 4071.6s, sys 20.0s, output queue size 833
progress 75% @chr16:42000001, elapsed 151.6s, est remaining 50.5s, peak mem 8808MB, user 4459.5s, sys 21.1s, output queue size 995
progress 80% @chr18:25000001, elapsed 170.6s, est remaining 42.7s, peak mem 8895MB, user 5035.9s, sys 22.6s, output queue size 623
progress 85% @chr19:47000001, elapsed 187.5s, est remaining 33.1s, peak mem 8895MB, user 5597.1s, sys 24.0s, output queue size 785
progress 90% @chr22:46000001, elapsed 197.4s, est remaining 21.9s, peak mem 8895MB, user 5894.6s, sys 24.7s, output queue size 947
progress 95% @chrY:55000001, elapsed 203.6s, est remaining 10.7s, peak mem 9028MB, user 6034.6s, sys 25.1s, output queue size 1109
progress 100% @chr15:88000001, elapsed 227.1s, est remaining 0.0s, peak mem 9028MB, user 6431.6s, sys 26.1s, output queue size 4099
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: 66871250911
reads: 1299975145
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1084.509 user 21.233 sys 1103.954 real
done: 1 calls 0.061 user 0.000 sys 0.065 real
exec_no_coor: 1 calls 0.006 user 0.013 sys 0.032 real
execute: 1 calls 0.001 user 0.000 sys 227.537 real
idle: 649 calls 0.182 user 0.001 sys 626.712 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 9467301888 mem 6434.069 user 26.578 sys 228.983 real