Settings:
  Output files: "../output/05.33-lncRNA-discovery/GCF_013753865.1_Amil_v2.1.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/GCF_013753865.1_Amil_v2.1_genomic.fna
Reading reference sizes
  Time reading reference sizes: 00:00:02
Calculating joined length
Writing header
Reserving space for joined string
Joining reference sequences
  Time to join reference sequences: 00:00:02
  Time to read SNPs and splice sites: 00:00:00
Using parameters --bmax 3713613 --dcv 1024
  Doing ahead-of-time memory usage test
  Passed!  Constructing with these parameters: --bmax 3713613 --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]: 144834195
fchr[G]: 237637860
fchr[T]: 330514140
fchr[$]: 475342477
Exiting GFM::buildToDisk()
Returning from initFromVector
Wrote 162768226 bytes to primary GFM file: ../output/05.33-lncRNA-discovery/GCF_013753865.1_Amil_v2.1.index.1.ht2
Wrote 118835624 bytes to secondary GFM file: ../output/05.33-lncRNA-discovery/GCF_013753865.1_Amil_v2.1.index.2.ht2
Re-opening _in1 and _in2 as input streams
Returning from GFM constructor
Returning from initFromVector
Wrote 212701387 bytes to primary GFM file: ../output/05.33-lncRNA-discovery/GCF_013753865.1_Amil_v2.1.index.5.ht2
Wrote 120924662 bytes to secondary GFM file: ../output/05.33-lncRNA-discovery/GCF_013753865.1_Amil_v2.1.index.6.ht2
Re-opening _in5 and _in5 as input streams
Returning from HGFM constructor
Headers:
    len: 475342477
    gbwtLen: 475342478
    nodes: 475342478
    sz: 118835620
    gbwtSz: 118835620
    lineRate: 6
    offRate: 4
    offMask: 0xfffffff0
    ftabChars: 10
    eftabLen: 0
    eftabSz: 0
    ftabLen: 1048577
    ftabSz: 4194308
    offsLen: 29708905
    offsSz: 118835620
    lineSz: 64
    sideSz: 64
    sideGbwtSz: 48
    sideGbwtLen: 192
    numSides: 2475743
    numLines: 2475743
    gbwtTotLen: 158447552
    gbwtTotSz: 158447552
    reverse: 0
    linearFM: Yes
Total time for call to driver() for forward index: 00:02:37