[init] ff = 0.050
[init] alphas = [0.012, 0.05, 0.1]
[init] opening BAM HG02178_x_HG02257_FF_5.mix.bam
[W::hts_idx_load3] The index file is older than the data file: HG02178_x_HG02257_FF_5.mix.bam.bai
[init] opening reference Homo_sapiens_assembly38.fasta
[init] target list: 677 sites
[chrom] starting chr1
[chrom] chr1 done in 12.7s
[chrom] starting chr2
[chrom] chr2 done in 7.5s
[chrom] starting chr3
[progress] 100 variants processed (ok=100 no_reads=0 ref_mismatch=0 other=0) elapsed=21.1s rate=4.7/s
[chrom] chr3 done in 5.9s
[chrom] starting chr4
[chrom] chr4 done in 9.3s
[chrom] starting chr5
[chrom] chr5 done in 5.1s
[chrom] starting chr6
[progress] 200 variants processed (ok=200 no_reads=0 ref_mismatch=0 other=0) elapsed=46.9s rate=4.3/s
[chrom] chr6 done in 8.9s
[chrom] starting chr7
[chrom] chr7 done in 10.5s
[chrom] starting chr8
[chrom] chr8 done in 4.5s
[chrom] starting chr9
[progress] 300 variants processed (ok=300 no_reads=0 ref_mismatch=0 other=0) elapsed=67.6s rate=4.4/s
[chrom] chr9 done in 7.0s
[chrom] starting chr10
[chrom] chr10 done in 4.3s
[chrom] starting chr11
[chrom] chr11 done in 10.1s
[chrom] starting chr12
[progress] 400 variants processed (ok=400 no_reads=0 ref_mismatch=0 other=0) elapsed=89.3s rate=4.5/s
[chrom] chr12 done in 12.3s
[chrom] starting chr13
[chrom] chr13 done in 1.6s
[chrom] starting chr14
[chrom] chr14 done in 6.1s
[chrom] starting chr15
[chrom] chr15 done in 7.6s
[chrom] starting chr16
[progress] 500 variants processed (ok=500 no_reads=0 ref_mismatch=0 other=0) elapsed=114.0s rate=4.4/s
[chrom] chr16 done in 6.5s
[chrom] starting chr17
[chrom] chr17 done in 11.0s
[chrom] starting chr18
[chrom] chr18 done in 1.9s
[chrom] starting chr19
[progress] 600 variants processed (ok=600 no_reads=0 ref_mismatch=0 other=0) elapsed=137.2s rate=4.4/s
[chrom] chr19 done in 12.0s
[chrom] starting chr20
[chrom] chr20 done in 4.0s
[chrom] starting chr21
[chrom] chr21 done in 2.3s
[chrom] starting chr22
[chrom] chr22 done in 3.9s
[done] 679 variants in 155.0s (ok=679 no_reads=0 ref_mismatch=0 other=0)