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/0d/da9c6740b914491e2ea0ad1fdabd3b/.command.sh
  Downloading: s3://natera-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/foresight/xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.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/ef/1b780e82228e825cb40abaea84a098/HCC1395_tumor.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0d/da9c6740b914491e2ea0ad1fdabd3b/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ef/1b780e82228e825cb40abaea84a098/HCC1395_tumor.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.bed
==> STAGING COMPLETE (8 inputs)

cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -r Homo_sapiens_assembly38.fasta -i HCC1395_tumor.md.bam --algo HsMetricAlgo --targets_list targets/xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.bed --baits_list baits/xgen-exome-hyb-panel-v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity.bed HCC1395_tumor_xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.sentieon.hs_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
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
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% @chr1:159000001, elapsed 840.2s, est remaining 15963.3s, peak mem 114MB, user 0.0s, sys 0.9s, output queue size 5
progress 10% @chr2:75000001, elapsed 840.2s, est remaining 7561.9s, peak mem 114MB, user 0.2s, sys 2.1s, output queue size 3
progress 15% @chr2:221000001, elapsed 840.3s, est remaining 4761.4s, peak mem 114MB, user 0.2s, sys 3.3s, output queue size 14
progress 20% @chr3:151000001, elapsed 840.3s, est remaining 3361.2s, peak mem 114MB, user 0.3s, sys 4.5s, output queue size 2
progress 25% @chr4:116000001, elapsed 840.3s, est remaining 2521.0s, peak mem 114MB, user 0.3s, sys 5.7s, output queue size 1
progress 30% @chr5:93000001, elapsed 840.4s, est remaining 1960.9s, peak mem 114MB, user 0.3s, sys 6.9s, output queue size 5
progress 35% @chr6:67000001, elapsed 840.4s, est remaining 1560.8s, peak mem 114MB, user 0.4s, sys 8.0s, output queue size 5
progress 40% @chr7:42000001, elapsed 840.5s, est remaining 1260.7s, peak mem 114MB, user 0.5s, sys 9.1s, output queue size 13
progress 45% @chr8:54000001, elapsed 840.5s, est remaining 1027.3s, peak mem 114MB, user 0.6s, sys 10.2s, output queue size 6
progress 50% @chr9:68000001, elapsed 840.5s, est remaining 840.5s, peak mem 114MB, user 0.7s, sys 11.3s, output queue size 8
progress 55% @chr10:89000001, elapsed 840.6s, est remaining 687.7s, peak mem 114MB, user 0.8s, sys 12.4s, output queue size 6
progress 60% @chr11:124000001, elapsed 840.6s, est remaining 560.4s, peak mem 114MB, user 0.9s, sys 13.6s, output queue size 6
progress 65% @chr13:5000001, elapsed 840.7s, est remaining 452.7s, peak mem 114MB, user 1.0s, sys 14.7s, output queue size 10
progress 70% @chr14:62000001, elapsed 840.7s, est remaining 360.3s, peak mem 114MB, user 1.1s, sys 15.8s, output queue size 9
progress 75% @chr16:14000001, elapsed 840.7s, est remaining 280.2s, peak mem 114MB, user 1.2s, sys 16.9s, output queue size 13
progress 80% @chr18:2000001, elapsed 840.8s, est remaining 210.2s, peak mem 114MB, user 1.3s, sys 18.1s, output queue size 7
progress 85% @chr20:17000001, elapsed 840.8s, est remaining 148.4s, peak mem 114MB, user 1.3s, sys 19.2s, output queue size 11
progress 90% @chrX:37000001, elapsed 840.9s, est remaining 93.4s, peak mem 141MB, user 1.9s, sys 19.8s, output queue size 114
progress 95% @chrY:36000001, elapsed 840.9s, est remaining 44.3s, peak mem 157MB, user 2.4s, sys 20.5s, output queue size 276
progress 100% @chr21:41000001, elapsed 841.5s, est remaining 0.0s, peak mem 181MB, user 4.4s, sys 21.6s, output queue size 3664
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: 50813910
reads: 1001320
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.566 user 11.455 sys 13.170 real
done: 1 calls 0.006 user 0.000 sys 0.015 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.002 user 0.001 sys 841.512 real
idle: 61 calls 0.006 user 0.018 sys 46.315 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 190603264 mem 4.957 user 22.470 sys 842.968 real