cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -r Homo_sapiens_assembly38.fasta -i HCC1395_tumor.md.bam --read_filter QualCalFilter,table=HCC1395_tumor.table,indel=false --algo QualCal -k dbsnp_146.hg38.vcf.gz -k Mills_and_1000G_gold_standard.indels.hg38.vcf.gz -k Homo_sapiens_assembly38.known_indels.vcf.gz HCC1395_tumor.table.post --algo ReadWriter HCC1395_tumor.recalibrated.bam
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:165000001, elapsed 0.1s, est remaining 2.1s, peak mem 293MB, user 0.4s, sys 2.6s, output queue size 20
progress 10% @chr2:75000001, elapsed 0.2s, est remaining 1.8s, peak mem 454MB, user 0.6s, sys 5.2s, output queue size 41
progress 15% @chr2:238000001, elapsed 0.3s, est remaining 1.7s, peak mem 614MB, user 0.9s, sys 7.7s, output queue size 15
progress 20% @chr3:131000001, elapsed 0.4s, est remaining 1.5s, peak mem 680MB, user 1.1s, sys 10.2s, output queue size 22
progress 25% @chr4:117000001, elapsed 0.5s, est remaining 1.4s, peak mem 782MB, user 1.4s, sys 12.6s, output queue size 10
progress 30% @chr5:89000001, elapsed 0.6s, est remaining 1.3s, peak mem 821MB, user 1.6s, sys 15.1s, output queue size 15
progress 35% @chr6:68000001, elapsed 0.6s, est remaining 1.2s, peak mem 878MB, user 1.7s, sys 17.5s, output queue size 19
progress 40% @chr7:55000001, elapsed 0.7s, est remaining 1.1s, peak mem 914MB, user 1.9s, sys 20.0s, output queue size 25
progress 45% @chr8:58000001, elapsed 0.8s, est remaining 1.0s, peak mem 1039MB, user 2.2s, sys 22.5s, output queue size 65
progress 50% @chr9:76000001, elapsed 1.0s, est remaining 1.0s, peak mem 1169MB, user 2.4s, sys 24.6s, output queue size 12
progress 55% @chr10:94000001, elapsed 1.0s, est remaining 0.9s, peak mem 1228MB, user 2.7s, sys 27.2s, output queue size 20
progress 60% @chr11:123000001, elapsed 1.1s, est remaining 0.8s, peak mem 1288MB, user 2.8s, sys 29.7s, output queue size 15
progress 65% @chr13:16000001, elapsed 1.2s, est remaining 0.7s, peak mem 1366MB, user 2.9s, sys 32.2s, output queue size 17
progress 70% @chr14:61000001, elapsed 1.3s, est remaining 0.6s, peak mem 1433MB, user 3.1s, sys 34.8s, output queue size 1
progress 75% @chr16:13000001, elapsed 1.4s, est remaining 0.5s, peak mem 1462MB, user 3.2s, sys 37.3s, output queue size 6
progress 80% @chr18:2000001, elapsed 1.5s, est remaining 0.4s, peak mem 1484MB, user 3.4s, sys 39.7s, output queue size 11
progress 85% @chr20:21000001, elapsed 1.6s, est remaining 0.3s, peak mem 1558MB, user 3.6s, sys 42.3s, output queue size 1
progress 90% @chrX:45000001, elapsed 1.9s, est remaining 0.2s, peak mem 2791MB, user 6.5s, sys 43.6s, output queue size 114
progress 95% @chr21:29000001, elapsed 2.0s, est remaining 0.1s, peak mem 2812MB, user 8.9s, sys 44.3s, output queue size 276
progress 100% @chr21:41000001, elapsed 4.5s, est remaining 0.0s, peak mem 2839MB, user 23.0s, sys 45.5s, 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: QualCal ReadWriter
license: sentieon:QualCal=31 sentieon:ReadWriter=31
input file size: 50815332
output file size: 81562025
reads: 1001320
contig: 3367 intervals 3217346917 bases
ReadQualCal::clearEPSVecOne: 8 calls 0.000 user 0.001 sys 0.022 real
ReadQualCal::delayed_init: 1 calls 0.008 user 0.001 sys 0.025 real
ReadQualCal::init: 1 calls 0.010 user 0.000 sys 0.006 real
advance: 3219322 calls 1.424 user 5.562 sys 7.243 real
done: 1 calls 0.287 user 0.324 sys 0.614 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.000 user 0.008 sys 4.583 real
fetch: 3219322 calls 0.326 user 5.086 sys 5.803 real
fetch_reads: 3219322 calls 0.307 user 5.309 sys 5.898 real
fetch_ref: 11263 calls 0.020 user 0.000 sys 0.046 real
fetch_vcf: 11263 calls 1.118 user 0.049 sys 1.282 real
idle: 2564 calls 2.096 user 0.333 sys 111.932 real
init: 1 calls 0.008 user 0.001 sys 0.031 real
update: 11451 calls 6.014 user 1.084 sys 7.804 real
write: 3219322 calls 9.917 user 5.280 sys 15.218 real
overall: 2977083392 mem 29.269 user 46.448 sys 6.462 real
cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 --algo QualCal --plot --before HCC1395_tumor.table --after HCC1395_tumor.table.post HCC1395_tumor.csv
This software is licensed to bgold@natera.com by Sentieon Inc.
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: QualCal
license: sentieon:QualCal=31
ReadQualCal::init: 2 calls 0.018 user 0.002 sys 0.024 real
done: 1 calls 0.037 user 0.013 sys 0.054 real
idle: 61 calls 0.002 user 0.000 sys 31.366 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 82075648 mem 0.052 user 0.052 sys 1.057 real