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% @chr1:162000001, elapsed 0.1s, est remaining 2.1s, peak mem 278MB, user 0.2s, sys 2.7s, output queue size 16
progress 10% @chr2:73000001, elapsed 0.2s, est remaining 1.8s, peak mem 407MB, user 0.5s, sys 5.1s, output queue size 33
progress 15% @chr2:238000001, elapsed 0.3s, est remaining 1.6s, peak mem 599MB, user 0.8s, sys 7.6s, output queue size 7
progress 20% @chr3:154000001, elapsed 0.4s, est remaining 1.5s, peak mem 695MB, user 1.0s, sys 10.1s, output queue size 7
progress 25% @chr4:115000001, elapsed 0.5s, est remaining 1.4s, peak mem 797MB, user 1.3s, sys 12.5s, output queue size 18
progress 30% @chr5:80000001, elapsed 0.6s, est remaining 1.5s, peak mem 848MB, user 1.6s, sys 17.1s, output queue size 18
progress 35% @chr6:58000001, elapsed 0.8s, est remaining 1.5s, peak mem 878MB, user 1.7s, sys 22.0s, output queue size 7
progress 40% @chr7:76000001, elapsed 1.0s, est remaining 1.4s, peak mem 911MB, user 2.1s, sys 26.7s, output queue size 40
progress 45% @chr8:52000001, elapsed 1.1s, est remaining 1.4s, peak mem 1019MB, user 2.5s, sys 31.3s, output queue size 27
progress 50% @chr9:96000001, elapsed 1.3s, est remaining 1.3s, peak mem 1073MB, user 3.1s, sys 36.7s, output queue size 27
progress 55% @chr10:118000001, elapsed 1.5s, est remaining 1.3s, peak mem 1151MB, user 3.4s, sys 43.1s, output queue size 21
progress 60% @chr11:88000001, elapsed 1.8s, est remaining 1.2s, peak mem 1211MB, user 3.7s, sys 49.7s, output queue size 35
progress 65% @chr13:37000001, elapsed 2.0s, est remaining 1.1s, peak mem 1283MB, user 4.1s, sys 56.3s, output queue size 28
progress 70% @chr14:43000001, elapsed 2.2s, est remaining 1.0s, peak mem 1343MB, user 4.6s, sys 63.0s, output queue size 18
progress 75% @chr15:84000001, elapsed 2.4s, est remaining 0.8s, peak mem 1382MB, user 4.8s, sys 69.9s, output queue size 31
progress 80% @chr17:82000001, elapsed 2.7s, est remaining 0.7s, peak mem 1409MB, user 5.1s, sys 76.5s, output queue size 39
progress 85% @chr20:39000001, elapsed 2.9s, est remaining 0.5s, peak mem 1532MB, user 5.6s, sys 83.4s, output queue size 16
progress 90% @chrX:42000001, elapsed 3.3s, est remaining 0.4s, peak mem 2729MB, user 8.6s, sys 86.4s, output queue size 114
progress 95% @chrY:40000001, elapsed 3.5s, est remaining 0.2s, peak mem 2747MB, user 11.4s, sys 87.9s, output queue size 276
progress 100% @chr21:41000001, elapsed 6.1s, est remaining 0.0s, peak mem 2768MB, user 26.6s, sys 91.7s, 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 384
algo: QualCal ReadWriter
license: sentieon:QualCal=31 sentieon:ReadWriter=31
input file size: 50813904
output file size: 81484550
reads: 1001320
contig: 3367 intervals 3217346917 bases
ReadQualCal::clearEPSVecOne: 8 calls 0.000 user 0.000 sys 0.020 real
ReadQualCal::delayed_init: 1 calls 0.004 user 0.001 sys 0.024 real
ReadQualCal::init: 1 calls 0.000 user 0.000 sys 0.006 real
advance: 3219322 calls 1.912 user 11.361 sys 13.169 real
done: 1 calls 0.355 user 0.599 sys 0.961 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.007 user 0.000 sys 6.150 real
fetch: 3219322 calls 0.282 user 10.836 sys 11.444 real
fetch_reads: 3219322 calls 0.411 user 10.518 sys 11.538 real
fetch_ref: 11263 calls 0.047 user 0.016 sys 0.064 real
fetch_vcf: 11263 calls 1.216 user 0.089 sys 1.339 real
idle: 2079 calls 1.419 user 0.377 sys 127.092 real
init: 1 calls 0.005 user 0.001 sys 0.031 real
update: 11451 calls 6.464 user 1.566 sys 9.046 real
write: 3219322 calls 10.980 user 11.693 sys 22.227 real
overall: 2902487040 mem 31.750 user 93.418 sys 8.500 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 384
algo: QualCal
license: sentieon:QualCal=31
ReadQualCal::init: 2 calls 0.029 user 0.001 sys 0.025 real
done: 1 calls 0.039 user 0.020 sys 0.058 real
idle: 59 calls 0.002 user 0.000 sys 31.263 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 78798848 mem 0.063 user 0.052 sys 1.052 real