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/e2/278259887967c1322881e99815ca81/.command.sh
  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_footprint.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/e2/278259887967c1322881e99815ca81/.command.run
  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/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_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity_footprint.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_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity_footprint.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
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% @chr1:156000001, elapsed 1140.2s, est remaining 21663.9s, peak mem 118MB, user 0.1s, sys 0.5s, output queue size 5
progress 10% @chr2:81000001, elapsed 1140.2s, est remaining 10262.1s, peak mem 118MB, user 0.3s, sys 1.2s, output queue size 3
progress 15% @chr2:239000001, elapsed 1140.3s, est remaining 6461.5s, peak mem 118MB, user 0.3s, sys 1.8s, output queue size 28
progress 20% @chr3:160000001, elapsed 1140.3s, est remaining 4561.1s, peak mem 118MB, user 0.4s, sys 2.5s, output queue size 22
progress 25% @chr4:122000001, elapsed 1140.3s, est remaining 3420.9s, peak mem 118MB, user 0.5s, sys 3.2s, output queue size 15
progress 30% @chr5:91000001, elapsed 1140.3s, est remaining 2660.8s, peak mem 118MB, user 0.6s, sys 3.8s, output queue size 12
progress 35% @chr6:71000001, elapsed 1140.4s, est remaining 2117.8s, peak mem 118MB, user 0.8s, sys 4.4s, output queue size 9
progress 40% @chr7:60000001, elapsed 1140.4s, est remaining 1710.6s, peak mem 118MB, user 0.9s, sys 5.1s, output queue size 9
progress 45% @chr8:61000001, elapsed 1140.4s, est remaining 1393.8s, peak mem 118MB, user 1.0s, sys 5.9s, output queue size 7
progress 50% @chr9:64000001, elapsed 1140.4s, est remaining 1140.4s, peak mem 118MB, user 1.0s, sys 6.5s, output queue size 9
progress 55% @chr10:84000001, elapsed 1140.5s, est remaining 933.1s, peak mem 118MB, user 1.1s, sys 7.2s, output queue size 11
progress 60% @chr11:113000001, elapsed 1140.5s, est remaining 760.3s, peak mem 118MB, user 1.3s, sys 7.6s, output queue size 23
progress 65% @chr13:20000001, elapsed 1140.5s, est remaining 614.1s, peak mem 118MB, user 1.4s, sys 8.4s, output queue size 22
progress 70% @chr14:66000001, elapsed 1140.5s, est remaining 488.8s, peak mem 118MB, user 1.5s, sys 9.0s, output queue size 12
progress 75% @chr16:17000001, elapsed 1140.6s, est remaining 380.2s, peak mem 118MB, user 1.6s, sys 9.8s, output queue size 8
progress 80% @chr18:1000001, elapsed 1140.6s, est remaining 285.1s, peak mem 118MB, user 1.7s, sys 10.5s, output queue size 10
progress 85% @chr20:24000001, elapsed 1140.6s, est remaining 201.3s, peak mem 118MB, user 1.8s, sys 11.1s, output queue size 15
progress 90% @chrX:40000001, elapsed 1140.7s, est remaining 126.7s, peak mem 144MB, user 2.1s, sys 11.5s, output queue size 114
progress 95% @chrY:37000001, elapsed 1140.7s, est remaining 60.0s, peak mem 160MB, user 2.6s, sys 12.0s, output queue size 276
progress 100% @chr21:41000001, elapsed 1141.2s, est remaining 0.0s, peak mem 186MB, user 4.6s, sys 12.7s, 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 1.340 user 6.233 sys 8.276 real
done: 1 calls 0.008 user 0.000 sys 0.011 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.003 user 0.001 sys 1141.210 real
idle: 61 calls 0.014 user 0.028 sys 44.658 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 196894720 mem 5.207 user 13.352 sys 1142.741 real