Settings:
  Output files: "Wil_2//tmp/segment_juncs.*.ebwt"
  Line rate: 6 (line is 64 bytes)
  Lines per side: 1 (side is 64 bytes)
  Offset rate: 5 (one in 32)
  FTable chars: 10
  Strings: unpacked
  Max bucket size: default
  Max bucket size, sqrt multiplier: default
  Max bucket size, len divisor: 4
  Difference-cover sample period: 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:
  Wil_2//tmp/segment_juncs.fa
Reading reference sizes
  Time reading reference sizes: 00:00:09
Calculating joined length
Writing header
Reserving space for joined string
Joining reference sequences
  Time to join reference sequences: 00:00:18
bmax according to bmaxDivN setting: 33410626
Using parameters --bmax 25057970 --dcv 1024
  Doing ahead-of-time memory usage test
  Passed!  Constructing with these parameters: --bmax 25057970 --dcv 1024
Constructing suffix-array element generator
Building DifferenceCoverSample
  Building sPrime
  Building sPrimeOrder
  V-Sorting samples
  V-Sorting samples time: 00:00:18
  Allocating rank array
  Ranking v-sort output
  Ranking v-sort output time: 00:00:05
  Invoking Larsson-Sadakane on ranks
  Invoking Larsson-Sadakane on ranks time: 00:00:09
  Sanity-checking and returning
Building samples
Reserving space for 12 sample suffixes
Generating random suffixes
QSorting 12 sample offsets, eliminating duplicates
QSorting sample offsets, eliminating duplicates time: 00:00:00
Multikey QSorting 12 samples
  (Using difference cover)
  Multikey QSorting samples time: 00:00:00
Calculating bucket sizes
  Binary sorting into buckets
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  Binary sorting into buckets time: 00:00:28
Splitting and merging
  Splitting and merging time: 00:00:00
Avg bucket size: 1.90918e+07 (target: 25057969)
Converting suffix-array elements to index image
Allocating ftab, absorbFtab
Entering Ebwt loop
Getting block 1 of 7
  Reserving size (25057970) for bucket
  Calculating Z arrays
  Calculating Z arrays time: 00:00:00
  Entering block accumulator loop:
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  Block accumulator loop time: 00:00:06
  Sorting block of length 19156060
  (Using difference cover)
  Sorting block time: 00:00:30
Returning block of 19156061
Getting block 2 of 7
  Reserving size (25057970) for bucket
  Calculating Z arrays
  Calculating Z arrays time: 00:00:00
  Entering block accumulator loop:
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  Block accumulator loop time: 00:00:06
  Sorting block of length 12532032
  (Using difference cover)
  Sorting block time: 00:00:22
Returning block of 12532033
Getting block 3 of 7
  Reserving size (25057970) for bucket
  Calculating Z arrays
  Calculating Z arrays time: 00:00:00
  Entering block accumulator loop:
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  Block accumulator loop time: 00:00:07
  Sorting block of length 18544806
  (Using difference cover)
  Sorting block time: 00:00:33
Returning block of 18544807
Getting block 4 of 7
  Reserving size (25057970) for bucket
  Calculating Z arrays
  Calculating Z arrays time: 00:00:00
  Entering block accumulator loop:
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  Block accumulator loop time: 00:00:07
  Sorting block of length 23353049
  (Using difference cover)
  Sorting block time: 00:00:49
Returning block of 23353050
Getting block 5 of 7
  Reserving size (25057970) for bucket
  Calculating Z arrays
  Calculating Z arrays time: 00:00:00
  Entering block accumulator loop:
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  Block accumulator loop time: 00:00:08
  Sorting block of length 15423048
  (Using difference cover)
  Sorting block time: 00:00:28
Returning block of 15423049
Getting block 6 of 7
  Reserving size (25057970) for bucket
  Calculating Z arrays
  Calculating Z arrays time: 00:00:00
  Entering block accumulator loop:
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  Block accumulator loop time: 00:00:09
  Sorting block of length 20762168
  (Using difference cover)
  Sorting block time: 00:00:42
Returning block of 20762169
Getting block 7 of 7
  Reserving size (25057970) for bucket
  Calculating Z arrays
  Calculating Z arrays time: 00:00:00
  Entering block accumulator loop:
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  Block accumulator loop time: 00:00:06
  Sorting block of length 23871335
  (Using difference cover)
  Sorting block time: 00:00:44
Returning block of 23871336
Exited Ebwt loop
fchr[A]: 0
fchr[C]: 40791526
fchr[G]: 66800763
fchr[T]: 92942998
fchr[$]: 133642504
Exiting Ebwt::buildToDisk()
Returning from initFromVector
Wrote 236695012 bytes to primary EBWT file: Wil_2//tmp/segment_juncs.1.ebwt
Wrote 16705320 bytes to secondary EBWT file: Wil_2//tmp/segment_juncs.2.ebwt
Re-opening _in1 and _in2 as input streams
Returning from Ebwt constructor
Headers:
    len: 133642504
    bwtLen: 133642505
    sz: 33410626
    bwtSz: 33410627
    lineRate: 6
    linesPerSide: 1
    offRate: 5
    offMask: 0xffffffe0
    isaRate: -1
    isaMask: 0xffffffff
    ftabChars: 10
    eftabLen: 20
    eftabSz: 80
    ftabLen: 1048577
    ftabSz: 4194308
    offsLen: 4176329
    offsSz: 16705316
    isaLen: 0
    isaSz: 0
    lineSz: 64
    sideSz: 64
    sideBwtSz: 56
    sideBwtLen: 224
    numSidePairs: 298310
    numSides: 596620
    numLines: 596620
    ebwtTotLen: 38183680
    ebwtTotSz: 38183680
    reverse: 0
Total time for call to driver() for forward index: 00:07:29
Reading reference sizes
  Time reading reference sizes: 00:00:05
Calculating joined length
Writing header
Reserving space for joined string
Joining reference sequences
  Time to join reference sequences: 00:00:16
bmax according to bmaxDivN setting: 33410626
Using parameters --bmax 25057970 --dcv 1024
  Doing ahead-of-time memory usage test
  Passed!  Constructing with these parameters: --bmax 25057970 --dcv 1024
Constructing suffix-array element generator
Building DifferenceCoverSample
  Building sPrime
  Building sPrimeOrder
  V-Sorting samples
  V-Sorting samples time: 00:00:15
  Allocating rank array
  Ranking v-sort output
  Ranking v-sort output time: 00:00:04
  Invoking Larsson-Sadakane on ranks
  Invoking Larsson-Sadakane on ranks time: 00:00:07
  Sanity-checking and returning
Building samples
Reserving space for 12 sample suffixes
Generating random suffixes
QSorting 12 sample offsets, eliminating duplicates
QSorting sample offsets, eliminating duplicates time: 00:00:00
Multikey QSorting 12 samples
  (Using difference cover)
  Multikey QSorting samples time: 00:00:00
Calculating bucket sizes
  Binary sorting into buckets
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  Binary sorting into buckets time: 00:00:22
Splitting and merging
  Splitting and merging time: 00:00:00
Split 1, merged 6; iterating...
  Binary sorting into buckets
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  100%
  Binary sorting into buckets time: 00:00:18
Splitting and merging
  Splitting and merging time: 00:00:00
Avg bucket size: 1.67053e+07 (target: 25057969)
Converting suffix-array elements to index image
Allocating ftab, absorbFtab
Entering Ebwt loop
Getting block 1 of 8
  Reserving size (25057970) for bucket
  Calculating Z arrays
  Calculating Z arrays time: 00:00:00
  Entering block accumulator loop:
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  Block accumulator loop time: 00:00:06
  Sorting block of length 11728907
  (Using difference cover)
  Sorting block time: 00:00:19
Returning block of 11728908
Getting block 2 of 8
  Reserving size (25057970) for bucket
  Calculating Z arrays
  Calculating Z arrays time: 00:00:00
  Entering block accumulator loop:
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  Block accumulator loop time: 00:00:07
  Sorting block of length 17923989
  (Using difference cover)
  Sorting block time: 00:00:32
Returning block of 17923990
Getting block 3 of 8
  Reserving size (25057970) for bucket
  Calculating Z arrays
  Calculating Z arrays time: 00:00:00
  Entering block accumulator loop:
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  Block accumulator loop time: 00:00:07
  Sorting block of length 21892146
  (Using difference cover)
  Sorting block time: 00:00:41
Returning block of 21892147
Getting block 4 of 8
  Reserving size (25057970) for bucket
  Calculating Z arrays
  Calculating Z arrays time: 00:00:00
  Entering block accumulator loop:
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  Block accumulator loop time: 00:00:07
  Sorting block of length 15255717
  (Using difference cover)
  Sorting block time: 00:00:34
Returning block of 15255718
Getting block 5 of 8
  Reserving size (25057970) for bucket
  Calculating Z arrays
  Calculating Z arrays time: 00:00:00
  Entering block accumulator loop:
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  Block accumulator loop time: 00:00:08
  Sorting block of length 20965378
  (Using difference cover)
  Sorting block time: 00:00:39
Returning block of 20965379
Getting block 6 of 8
  Reserving size (25057970) for bucket
  Calculating Z arrays
  Calculating Z arrays time: 00:00:00
  Entering block accumulator loop:
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  Block accumulator loop time: 00:00:07
  Sorting block of length 13971604
  (Using difference cover)
  Sorting block time: 00:00:25
Returning block of 13971605
Getting block 7 of 8
  Reserving size (25057970) for bucket
  Calculating Z arrays
  Calculating Z arrays time: 00:00:00
  Entering block accumulator loop:
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  Block accumulator loop time: 00:00:09
  Sorting block of length 16328178
  (Using difference cover)
  Sorting block time: 00:00:35
Returning block of 16328179
Getting block 8 of 8
  Reserving size (25057970) for bucket
  Calculating Z arrays
  Calculating Z arrays time: 00:00:00
  Entering block accumulator loop:
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  Block accumulator loop time: 00:00:06
  Sorting block of length 15576578
  (Using difference cover)
  Sorting block time: 00:00:29
Returning block of 15576579
Exited Ebwt loop
fchr[A]: 0
fchr[C]: 40791526
fchr[G]: 66800763
fchr[T]: 92942998
fchr[$]: 133642504
Exiting Ebwt::buildToDisk()
Returning from initFromVector
Wrote 236695012 bytes to primary EBWT file: Wil_2//tmp/segment_juncs.rev.1.ebwt
Wrote 16705320 bytes to secondary EBWT file: Wil_2//tmp/segment_juncs.rev.2.ebwt
Re-opening _in1 and _in2 as input streams
Returning from Ebwt constructor
Headers:
    len: 133642504
    bwtLen: 133642505
    sz: 33410626
    bwtSz: 33410627
    lineRate: 6
    linesPerSide: 1
    offRate: 5
    offMask: 0xffffffe0
    isaRate: -1
    isaMask: 0xffffffff
    ftabChars: 10
    eftabLen: 20
    eftabSz: 80
    ftabLen: 1048577
    ftabSz: 4194308
    offsLen: 4176329
    offsSz: 16705316
    isaLen: 0
    isaSz: 0
    lineSz: 64
    sideSz: 64
    sideBwtSz: 56
    sideBwtLen: 224
    numSidePairs: 298310
    numSides: 596620
    numLines: 596620
    ebwtTotLen: 38183680
    ebwtTotSz: 38183680
    reverse: 0
Total time for backward call to driver() for mirror index: 00:07:41