Settings:
  Output files: "../output/14-CG-illumina/MchilensisGenomeV1.index.*.ht2"
  Line rate: 6 (line is 64 bytes)
  Lines per side: 1 (side is 64 bytes)
  Offset rate: 4 (one in 16)
  FTable chars: 10
  Strings: unpacked
  Local offset rate: 3 (one in 8)
  Local fTable chars: 6
  Local sequence length: 57344
  Local sequence overlap between two consecutive indexes: 1024
  Endianness: little
  Actual local endianness: little
  Sanity checking: disabled
  Assertions: disabled
  Random seed: 0
  Sizeofs: void*:8, int:4, long:8, size_t:8
Input files DNA, FASTA:
  ../data/Mchi/MchilensisGenomeV1.fa
Reading reference sizes
  Time reading reference sizes: 00:00:10
Calculating joined length
Writing header
Reserving space for joined string
Joining reference sequences
  Time to join reference sequences: 00:00:04
  Time to read SNPs and splice sites: 00:00:00
Using parameters --bmax 9084965 --dcv 1024
  Doing ahead-of-time memory usage test
  Passed!  Constructing with these parameters: --bmax 9084965 --dcv 1024
Constructing suffix-array element generator
Converting suffix-array elements to index image
Allocating ftab, absorbFtab
Entering GFM loop
Exited GFM loop
fchr[A]: 0
fchr[C]: 656501421
fchr[G]: 969144202
fchr[T]: 1281721571
fchr[$]: 1938125829
Exiting GFM::buildToDisk()
Returning from initFromVector
Wrote 650385436 bytes to primary GFM file: ../output/14-CG-illumina/MchilensisGenomeV1.index.1.ht2
Wrote 484531464 bytes to secondary GFM file: ../output/14-CG-illumina/MchilensisGenomeV1.index.2.ht2
Re-opening _in1 and _in2 as input streams
Returning from GFM constructor
Returning from initFromVector
Wrote 850290605 bytes to primary GFM file: ../output/14-CG-illumina/MchilensisGenomeV1.index.5.ht2
Wrote 493396332 bytes to secondary GFM file: ../output/14-CG-illumina/MchilensisGenomeV1.index.6.ht2
Re-opening _in5 and _in5 as input streams
Returning from HGFM constructor
Headers:
    len: 1938125829
    gbwtLen: 1938125830
    nodes: 1938125830
    sz: 484531458
    gbwtSz: 484531458
    lineRate: 6
    offRate: 4
    offMask: 0xfffffff0
    ftabChars: 10
    eftabLen: 0
    eftabSz: 0
    ftabLen: 1048577
    ftabSz: 4194308
    offsLen: 121132865
    offsSz: 484531460
    lineSz: 64
    sideSz: 64
    sideGbwtSz: 48
    sideGbwtLen: 192
    numSides: 10094406
    numLines: 10094406
    gbwtTotLen: 646041984
    gbwtTotSz: 646041984
    reverse: 0
    linearFM: Yes
Total time for call to driver() for forward index: 00:05:44