HG01274_x_HG01358_FF_5.log - Workflow Tracker

File Info

Filename: HG01274_x_HG01358_FF_5.log
Full Path: s3://natera-platform-sandbox/users/tdouglas/nipt_caller/adaptive_alpha_features/6a271842/logs/HG01274_x_HG01358_FF_5.log
Size: 37.2 KB
Workflow Run: adaptive-alpha-features-6a271842
Published: Jun 08, 2026 12:31 PM
Content

[init] ff = 0.050
[init] alphas = [0.012, 0.05, 0.1]
[init] opening BAM HG01274_x_HG01358_FF_5.mix.bam
[init] opening reference Homo_sapiens_assembly38.fasta
[init] target list: 33876 sites
[chrom] starting chr1
[progress] 100 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=100) elapsed=0.0s rate=29727.9/s
[progress] 200 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=200) elapsed=0.0s rate=32928.8/s
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[progress] 1300 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=1300) elapsed=0.0s rate=43124.3/s
[progress] 1400 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=1400) elapsed=0.0s rate=43658.5/s
[progress] 1500 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=1500) elapsed=0.0s rate=44234.7/s
[progress] 1600 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=1600) elapsed=0.0s rate=44746.7/s
[progress] 1700 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=1700) elapsed=0.0s rate=43590.8/s
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[progress] 2000 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=2000) elapsed=0.0s rate=45741.4/s
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[progress] 2200 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=2200) elapsed=0.0s rate=46838.0/s
[progress] 2300 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=2300) elapsed=0.1s rate=44385.0/s
[progress] 2400 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=2400) elapsed=0.1s rate=44970.1/s
[progress] 2500 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=2500) elapsed=0.1s rate=45512.9/s
[progress] 2600 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=2600) elapsed=0.1s rate=45895.9/s
[progress] 2700 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=2700) elapsed=0.1s rate=46406.9/s
[progress] 2800 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=2800) elapsed=0.1s rate=46803.8/s
[progress] 2900 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=2900) elapsed=0.1s rate=46105.8/s
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[progress] 3200 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=3200) elapsed=0.1s rate=46482.8/s
[progress] 3300 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=3300) elapsed=0.1s rate=45639.3/s
[progress] 3400 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=3400) elapsed=0.1s rate=45882.0/s
[progress] 3500 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=3500) elapsed=0.1s rate=45927.2/s
[chrom] chr1 done in 0.1s
[chrom] starting chr2
[progress] 3600 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=3600) elapsed=0.1s rate=45953.8/s
[progress] 3700 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=3700) elapsed=0.1s rate=46288.9/s
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[progress] 4100 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=4100) elapsed=0.1s rate=45932.7/s
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[progress] 4500 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=4500) elapsed=0.1s rate=45975.4/s
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[progress] 4900 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=4900) elapsed=0.1s rate=45679.9/s
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[progress] 5500 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=5500) elapsed=0.1s rate=45121.6/s
[chrom] chr2 done in 0.0s
[chrom] starting chr3
[progress] 5600 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=5600) elapsed=0.1s rate=45268.2/s
[progress] 5700 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=5700) elapsed=0.1s rate=44456.1/s
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[progress] 6600 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=6600) elapsed=0.1s rate=44525.4/s
[progress] 6700 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=6700) elapsed=0.2s rate=44605.3/s
[progress] 6800 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=6800) elapsed=0.2s rate=44644.7/s
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[progress] 7000 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=7000) elapsed=0.2s rate=43952.2/s
[progress] 7100 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=7100) elapsed=0.2s rate=44040.2/s
[chrom] chr3 done in 0.0s
[chrom] starting chr4
[progress] 7200 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=7200) elapsed=0.2s rate=44114.5/s
[progress] 7300 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=7300) elapsed=0.2s rate=44211.5/s
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[progress] 7600 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=7600) elapsed=0.2s rate=43761.7/s
[progress] 7700 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=7700) elapsed=0.2s rate=43831.5/s
[progress] 7800 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=7800) elapsed=0.2s rate=43922.3/s
[progress] 7900 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=7900) elapsed=0.2s rate=43490.6/s
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[progress] 8200 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=8200) elapsed=0.2s rate=43539.9/s
[chrom] chr4 done in 0.0s
[chrom] starting chr5
[progress] 8300 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=8300) elapsed=0.2s rate=43665.9/s
[progress] 8400 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=8400) elapsed=0.2s rate=42914.2/s
[progress] 8500 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=8500) elapsed=0.2s rate=42960.2/s
[progress] 8600 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=8600) elapsed=0.2s rate=43041.5/s
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[progress] 8900 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=8900) elapsed=0.2s rate=42855.3/s
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[progress] 9300 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=9300) elapsed=0.2s rate=43233.2/s
[progress] 9400 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=9400) elapsed=0.2s rate=42704.8/s
[chrom] chr5 done in 0.0s
[chrom] starting chr6
[progress] 9500 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=9500) elapsed=0.2s rate=42832.5/s
[progress] 9600 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=9600) elapsed=0.2s rate=42938.2/s
[progress] 9700 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=9700) elapsed=0.2s rate=43034.5/s
[progress] 9800 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=9800) elapsed=0.2s rate=43112.0/s
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[progress] 10000 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=10000) elapsed=0.2s rate=42717.2/s
[progress] 10100 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=10100) elapsed=0.2s rate=42792.1/s
[progress] 10200 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=10200) elapsed=0.2s rate=42877.0/s
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[progress] 10600 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=10600) elapsed=0.2s rate=42709.0/s
[progress] 10700 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=10700) elapsed=0.3s rate=42798.0/s
[progress] 10800 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=10800) elapsed=0.3s rate=42892.4/s
[progress] 10900 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=10900) elapsed=0.3s rate=42968.7/s
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[progress] 11200 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=11200) elapsed=0.3s rate=42786.1/s
[chrom] chr6 done in 0.0s
[chrom] starting chr7
[progress] 11300 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=11300) elapsed=0.3s rate=42851.1/s
[progress] 11400 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=11400) elapsed=0.3s rate=42947.1/s
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[progress] 11700 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=11700) elapsed=0.3s rate=42753.7/s
[progress] 11800 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=11800) elapsed=0.3s rate=42830.9/s
[progress] 11900 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=11900) elapsed=0.3s rate=42898.3/s
[progress] 12000 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=12000) elapsed=0.3s rate=42946.8/s
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[progress] 12500 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=12500) elapsed=0.3s rate=42486.5/s
[progress] 12600 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=12600) elapsed=0.3s rate=42582.9/s
[progress] 12700 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=12700) elapsed=0.3s rate=42667.8/s
[progress] 12800 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=12800) elapsed=0.3s rate=42740.4/s
[progress] 12900 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=12900) elapsed=0.3s rate=42815.1/s
[progress] 13000 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=13000) elapsed=0.3s rate=42876.8/s
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[progress] 13300 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=13300) elapsed=0.3s rate=42720.4/s
[chrom] chr7 done in 0.0s
[chrom] starting chr8
[progress] 13400 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=13400) elapsed=0.3s rate=42792.9/s
[progress] 13500 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=13500) elapsed=0.3s rate=42865.5/s
[progress] 13600 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=13600) elapsed=0.3s rate=42552.1/s
[progress] 13700 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=13700) elapsed=0.3s rate=42632.4/s
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[progress] 13900 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=13900) elapsed=0.3s rate=42823.7/s
[progress] 14000 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=14000) elapsed=0.3s rate=42873.1/s
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[progress] 14400 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=14400) elapsed=0.3s rate=42831.0/s
[chrom] chr8 done in 0.0s
[chrom] starting chr9
[progress] 14500 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=14500) elapsed=0.3s rate=42905.1/s
[progress] 14600 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=14600) elapsed=0.3s rate=42943.4/s
[progress] 14700 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=14700) elapsed=0.3s rate=42623.3/s
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[progress] 15000 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=15000) elapsed=0.4s rate=42830.3/s
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[progress] 15700 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=15700) elapsed=0.4s rate=43035.2/s
[chrom] chr9 done in 0.0s
[chrom] starting chr10
[progress] 15800 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=15800) elapsed=0.4s rate=42727.3/s
[progress] 15900 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=15900) elapsed=0.4s rate=42799.8/s
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[progress] 16700 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=16700) elapsed=0.4s rate=42993.9/s
[chrom] chr10 done in 0.0s
[chrom] starting chr11
[progress] 16800 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=16800) elapsed=0.4s rate=43052.5/s
[progress] 16900 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=16900) elapsed=0.4s rate=42786.5/s
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[progress] 17600 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=17600) elapsed=0.4s rate=42836.8/s
[progress] 17700 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=17700) elapsed=0.4s rate=42882.5/s
[progress] 17800 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=17800) elapsed=0.4s rate=42921.3/s
[progress] 17900 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=17900) elapsed=0.4s rate=42649.3/s
[progress] 18000 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=18000) elapsed=0.4s rate=42732.9/s
[progress] 18100 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=18100) elapsed=0.4s rate=42803.7/s
[progress] 18200 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=18200) elapsed=0.4s rate=42887.7/s
[progress] 18300 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=18300) elapsed=0.4s rate=42959.2/s
[progress] 18400 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=18400) elapsed=0.4s rate=43006.9/s
[progress] 18500 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=18500) elapsed=0.4s rate=43055.1/s
[progress] 18600 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=18600) elapsed=0.4s rate=42845.9/s
[progress] 18700 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=18700) elapsed=0.4s rate=42902.0/s
[progress] 18800 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=18800) elapsed=0.4s rate=42952.2/s
[progress] 18900 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=18900) elapsed=0.4s rate=42997.4/s
[progress] 19000 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=19000) elapsed=0.4s rate=43058.4/s
[progress] 19100 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=19100) elapsed=0.4s rate=42900.3/s
[chrom] chr11 done in 0.1s
[chrom] starting chr12
[progress] 19200 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=19200) elapsed=0.4s rate=42945.0/s
[progress] 19300 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=19300) elapsed=0.4s rate=43008.6/s
[progress] 19400 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=19400) elapsed=0.5s rate=43044.4/s
[progress] 19500 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=19500) elapsed=0.5s rate=43081.0/s
[progress] 19600 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=19600) elapsed=0.5s rate=42899.1/s
[progress] 19700 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=19700) elapsed=0.5s rate=42951.6/s
[progress] 19800 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=19800) elapsed=0.5s rate=43022.5/s
[progress] 19900 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=19900) elapsed=0.5s rate=43038.6/s
[progress] 20000 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=20000) elapsed=0.5s rate=43087.4/s
[progress] 20100 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=20100) elapsed=0.5s rate=42921.9/s
[progress] 20200 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=20200) elapsed=0.5s rate=42978.7/s
[progress] 20300 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=20300) elapsed=0.5s rate=43030.7/s
[progress] 20400 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=20400) elapsed=0.5s rate=43081.9/s
[progress] 20500 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=20500) elapsed=0.5s rate=43120.9/s
[progress] 20600 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=20600) elapsed=0.5s rate=43172.5/s
[progress] 20700 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=20700) elapsed=0.5s rate=42950.8/s
[chrom] chr12 done in 0.0s
[chrom] starting chr13
[progress] 20800 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=20800) elapsed=0.5s rate=42990.1/s
[progress] 20900 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=20900) elapsed=0.5s rate=43029.0/s
[progress] 21000 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=21000) elapsed=0.5s rate=43070.0/s
[progress] 21100 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=21100) elapsed=0.5s rate=43130.0/s
[chrom] chr13 done in 0.0s
[chrom] starting chr14
[progress] 21200 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=21200) elapsed=0.5s rate=42921.0/s
[progress] 21300 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=21300) elapsed=0.5s rate=42981.8/s
[progress] 21400 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=21400) elapsed=0.5s rate=43036.6/s
[progress] 21500 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=21500) elapsed=0.5s rate=43094.7/s
[progress] 21600 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=21600) elapsed=0.5s rate=43139.7/s
[progress] 21700 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=21700) elapsed=0.5s rate=42942.8/s
[progress] 21800 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=21800) elapsed=0.5s rate=42988.7/s
[progress] 21900 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=21900) elapsed=0.5s rate=43039.8/s
[progress] 22000 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=22000) elapsed=0.5s rate=43107.3/s
[progress] 22100 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=22100) elapsed=0.5s rate=43173.7/s
[progress] 22200 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=22200) elapsed=0.5s rate=43245.9/s
[progress] 22300 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=22300) elapsed=0.5s rate=43297.8/s
[chrom] chr14 done in 0.0s
[chrom] starting chr15
[progress] 22400 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=22400) elapsed=0.5s rate=43128.4/s
[progress] 22500 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=22500) elapsed=0.5s rate=43174.2/s
[progress] 22600 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=22600) elapsed=0.5s rate=43211.4/s
[progress] 22700 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=22700) elapsed=0.5s rate=43264.7/s
[progress] 22800 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=22800) elapsed=0.5s rate=43329.3/s
[progress] 22900 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=22900) elapsed=0.5s rate=43361.9/s
[progress] 23000 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=23000) elapsed=0.5s rate=43181.3/s
[progress] 23100 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=23100) elapsed=0.5s rate=43227.0/s
[progress] 23200 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=23200) elapsed=0.5s rate=43274.6/s
[chrom] chr15 done in 0.0s
[chrom] starting chr16
[progress] 23300 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=23300) elapsed=0.5s rate=43321.9/s
[progress] 23400 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=23400) elapsed=0.5s rate=43360.3/s
[progress] 23500 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=23500) elapsed=0.5s rate=43242.8/s
[progress] 23600 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=23600) elapsed=0.5s rate=43278.0/s
[progress] 23700 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=23700) elapsed=0.5s rate=43336.4/s
[progress] 23800 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=23800) elapsed=0.5s rate=43387.3/s
[progress] 23900 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=23900) elapsed=0.6s rate=43447.1/s
[progress] 24000 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=24000) elapsed=0.6s rate=43501.6/s
[progress] 24100 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=24100) elapsed=0.6s rate=43548.4/s
[progress] 24200 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=24200) elapsed=0.6s rate=43412.1/s
[progress] 24300 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=24300) elapsed=0.6s rate=43475.5/s
[progress] 24400 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=24400) elapsed=0.6s rate=43511.1/s
[progress] 24500 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=24500) elapsed=0.6s rate=43550.9/s
[progress] 24600 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=24600) elapsed=0.6s rate=43583.7/s
[progress] 24700 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=24700) elapsed=0.6s rate=43407.8/s
[chrom] chr16 done in 0.0s
[chrom] starting chr17
[progress] 24800 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=24800) elapsed=0.6s rate=43454.7/s
[progress] 24900 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=24900) elapsed=0.6s rate=43514.8/s
[progress] 25000 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=25000) elapsed=0.6s rate=43562.0/s
[progress] 25100 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=25100) elapsed=0.6s rate=43607.2/s
[progress] 25200 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=25200) elapsed=0.6s rate=43662.8/s
[progress] 25300 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=25300) elapsed=0.6s rate=43474.0/s
[progress] 25400 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=25400) elapsed=0.6s rate=43519.2/s
[progress] 25500 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=25500) elapsed=0.6s rate=43549.3/s
[progress] 25600 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=25600) elapsed=0.6s rate=43600.3/s
[progress] 25700 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=25700) elapsed=0.6s rate=43637.9/s
[progress] 25800 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=25800) elapsed=0.6s rate=43680.1/s
[progress] 25900 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=25900) elapsed=0.6s rate=43586.3/s
[progress] 26000 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=26000) elapsed=0.6s rate=43635.8/s
[progress] 26100 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=26100) elapsed=0.6s rate=43676.4/s
[progress] 26200 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=26200) elapsed=0.6s rate=43706.2/s
[progress] 26300 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=26300) elapsed=0.6s rate=43756.4/s
[progress] 26400 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=26400) elapsed=0.6s rate=43792.3/s
[progress] 26500 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=26500) elapsed=0.6s rate=43625.7/s
[progress] 26600 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=26600) elapsed=0.6s rate=43661.4/s
[progress] 26700 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=26700) elapsed=0.6s rate=43694.8/s
[progress] 26800 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=26800) elapsed=0.6s rate=43721.8/s
[progress] 26900 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=26900) elapsed=0.6s rate=43761.5/s
[chrom] chr17 done in 0.0s
[chrom] starting chr18
[progress] 27000 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=27000) elapsed=0.6s rate=43618.7/s
[progress] 27100 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=27100) elapsed=0.6s rate=43661.7/s
[progress] 27200 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=27200) elapsed=0.6s rate=43687.6/s
[progress] 27300 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=27300) elapsed=0.6s rate=43715.8/s
[chrom] chr18 done in 0.0s
[chrom] starting chr19
[progress] 27400 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=27400) elapsed=0.6s rate=43758.6/s
[progress] 27500 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=27500) elapsed=0.6s rate=43594.9/s
[progress] 27600 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=27600) elapsed=0.6s rate=43641.6/s
[progress] 27700 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=27700) elapsed=0.6s rate=43694.1/s
[progress] 27800 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=27800) elapsed=0.6s rate=43740.2/s
[progress] 27900 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=27900) elapsed=0.6s rate=43774.0/s
[progress] 28000 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=28000) elapsed=0.6s rate=43790.0/s
[progress] 28100 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=28100) elapsed=0.6s rate=43682.2/s
[progress] 28200 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=28200) elapsed=0.6s rate=43720.7/s
[progress] 28300 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=28300) elapsed=0.6s rate=43751.8/s
[progress] 28400 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=28400) elapsed=0.6s rate=43794.1/s
[progress] 28500 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=28500) elapsed=0.7s rate=43824.1/s
[progress] 28600 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=28600) elapsed=0.7s rate=43871.0/s
[progress] 28700 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=28700) elapsed=0.7s rate=43724.7/s
[progress] 28800 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=28800) elapsed=0.7s rate=43764.5/s
[progress] 28900 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=28900) elapsed=0.7s rate=43811.9/s
[progress] 29000 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=29000) elapsed=0.7s rate=43854.0/s
[progress] 29100 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=29100) elapsed=0.7s rate=43903.5/s
[progress] 29200 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=29200) elapsed=0.7s rate=43944.1/s
[progress] 29300 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=29300) elapsed=0.7s rate=43983.9/s
[progress] 29400 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=29400) elapsed=0.7s rate=43854.5/s
[progress] 29500 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=29500) elapsed=0.7s rate=43904.0/s
[progress] 29600 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=29600) elapsed=0.7s rate=43938.6/s
[progress] 29700 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=29700) elapsed=0.7s rate=43979.7/s
[progress] 29800 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=29800) elapsed=0.7s rate=44025.9/s
[progress] 29900 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=29900) elapsed=0.7s rate=44068.6/s
[progress] 30000 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=30000) elapsed=0.7s rate=43947.9/s
[progress] 30100 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=30100) elapsed=0.7s rate=43989.2/s
[progress] 30200 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=30200) elapsed=0.7s rate=44024.3/s
[progress] 30300 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=30300) elapsed=0.7s rate=44056.8/s
[progress] 30400 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=30400) elapsed=0.7s rate=44090.3/s
[progress] 30500 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=30500) elapsed=0.7s rate=44136.8/s
[progress] 30600 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=30600) elapsed=0.7s rate=44182.7/s
[progress] 30700 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=30700) elapsed=0.7s rate=44061.1/s
[progress] 30800 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=30800) elapsed=0.7s rate=44101.3/s
[chrom] chr19 done in 0.1s
[chrom] starting chr20
[progress] 30900 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=30900) elapsed=0.7s rate=44143.4/s
[progress] 31000 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=31000) elapsed=0.7s rate=44176.2/s
[progress] 31100 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=31100) elapsed=0.7s rate=44218.5/s
[progress] 31200 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=31200) elapsed=0.7s rate=44260.3/s
[progress] 31300 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=31300) elapsed=0.7s rate=44142.0/s
[progress] 31400 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=31400) elapsed=0.7s rate=44191.0/s
[progress] 31500 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=31500) elapsed=0.7s rate=44227.8/s
[progress] 31600 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=31600) elapsed=0.7s rate=44261.8/s
[progress] 31700 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=31700) elapsed=0.7s rate=44306.6/s
[chrom] chr20 done in 0.0s
[chrom] starting chr21
[progress] 31800 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=31800) elapsed=0.7s rate=44342.9/s
[progress] 31900 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=31900) elapsed=0.7s rate=44375.5/s
[progress] 32000 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=32000) elapsed=0.7s rate=44319.4/s
[progress] 32100 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=32100) elapsed=0.7s rate=44362.9/s
[progress] 32200 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=32200) elapsed=0.7s rate=44405.9/s
[chrom] chr21 done in 0.0s
[chrom] starting chr22
[progress] 32300 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=32300) elapsed=0.7s rate=44443.1/s
[progress] 32400 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=32400) elapsed=0.7s rate=44481.6/s
[progress] 32500 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=32500) elapsed=0.7s rate=44515.0/s
[progress] 32600 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=32600) elapsed=0.7s rate=44441.7/s
[progress] 32700 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=32700) elapsed=0.7s rate=44472.8/s
[progress] 32800 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=32800) elapsed=0.7s rate=44516.3/s
[progress] 32900 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=32900) elapsed=0.7s rate=44546.2/s
[progress] 33000 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=33000) elapsed=0.7s rate=44580.0/s
[chrom] chr22 done in 0.0s
[chrom] starting chrX
[progress] 33100 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=33100) elapsed=0.7s rate=44597.0/s
[progress] 33200 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=33200) elapsed=0.7s rate=44548.2/s
[progress] 33300 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=33300) elapsed=0.7s rate=44580.5/s
[progress] 33400 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=33400) elapsed=0.7s rate=44604.6/s
[progress] 33500 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=33500) elapsed=0.8s rate=44640.3/s
[progress] 33600 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=33600) elapsed=0.8s rate=44681.1/s
[progress] 33700 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=33700) elapsed=0.8s rate=44710.0/s
[progress] 33800 variants processed (ok=0 no_reads=0 ref_mismatch=0 other=33800) elapsed=0.8s rate=44735.3/s
[chrom] chrX done in 0.0s
[chrom] starting chrY
[chrom] chrY done in 0.0s
[done] 33877 variants in 0.8s (ok=0 no_reads=0 ref_mismatch=0 other=33877)