Settings:
  Output files: "A6DE_13062_CCGTCC/tmp/segment_juncs.*.bt2"
  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
  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:
  A6DE_13062_CCGTCC/tmp/segment_juncs.fa
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: 00:00:06
bmax according to bmaxDivN setting: 64973232
Using parameters --bmax 48729924 --dcv 1024
  Doing ahead-of-time memory usage test
  Passed!  Constructing with these parameters: --bmax 48729924 --dcv 1024
Constructing suffix-array element generator
Building DifferenceCoverSample
  Building sPrime
  Building sPrimeOrder
  V-Sorting samples
  V-Sorting samples time: 00:00:06
  Allocating rank array
  Ranking v-sort output
  Ranking v-sort output time: 00:00:01
  Invoking Larsson-Sadakane on ranks
  Invoking Larsson-Sadakane on ranks time: 00:00:01
  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: 00:00:10
Splitting and merging
  Splitting and merging time: 00:00:00
Split 1, merged 6; iterating...
  Binary sorting into buckets
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  Binary sorting into buckets time: 00:00:08
Splitting and merging
  Splitting and merging time: 00:00:00
Split 1, merged 0; iterating...
  Binary sorting into buckets
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  Binary sorting into buckets time: 00:00:09
Splitting and merging
  Splitting and merging time: 00:00:00
Split 1, merged 1; iterating...
  Binary sorting into buckets
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  Binary sorting into buckets time: 00:00:08
Splitting and merging
  Splitting and merging time: 00:00:00
Avg bucket size: 3.24866e+07 (target: 48729923)
Converting suffix-array elements to index image
Allocating ftab, absorbFtab
Entering Ebwt loop
Getting block 1 of 8
  Reserving size (48729924) for bucket
  Calculating Z arrays
  Calculating Z arrays time: 00:00:00
  Entering block accumulator loop:
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  Block accumulator loop time: 00:00:02
  Sorting block of length 27211289
  (Using difference cover)
  Sorting block time: 00:00:10
Returning block of 27211290
Getting block 2 of 8
  Reserving size (48729924) for bucket
  Calculating Z arrays
  Calculating Z arrays time: 00:00:00
  Entering block accumulator loop:
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  Block accumulator loop time: 00:00:02
  Sorting block of length 31766034
  (Using difference cover)
  Sorting block time: 00:00:17
Returning block of 31766035
Getting block 3 of 8
  Reserving size (48729924) for bucket
  Calculating Z arrays
  Calculating Z arrays time: 00:00:00
  Entering block accumulator loop:
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  Block accumulator loop time: 00:00:03
  Sorting block of length 26019188
  (Using difference cover)
  Sorting block time: 00:00:12
Returning block of 26019189
Getting block 4 of 8
  Reserving size (48729924) for bucket
  Calculating Z arrays
  Calculating Z arrays time: 00:00:00
  Entering block accumulator loop:
  10%
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  Block accumulator loop time: 00:00:09
  Sorting block of length 45407494
  (Using difference cover)
  Sorting block time: 00:00:24
Returning block of 45407495
Getting block 5 of 8
  Reserving size (48729924) for bucket
  Calculating Z arrays
  Calculating Z arrays time: 00:00:00
  Entering block accumulator loop:
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  Block accumulator loop time: 00:00:04
  Sorting block of length 39746517
  (Using difference cover)
  Sorting block time: 00:00:19
Returning block of 39746518
Getting block 6 of 8
  Reserving size (48729924) for bucket
  Calculating Z arrays
  Calculating Z arrays time: 00:00:00
  Entering block accumulator loop:
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  Block accumulator loop time: 00:00:03
  Sorting block of length 24664179
  (Using difference cover)
  Sorting block time: 00:00:20
Returning block of 24664180
Getting block 7 of 8
  Reserving size (48729924) for bucket
  Calculating Z arrays
  Calculating Z arrays time: 00:00:00
  Entering block accumulator loop:
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  Block accumulator loop time: 00:00:04
  Sorting block of length 46280329
  (Using difference cover)
  Sorting block time: 00:00:31
Returning block of 46280330
Getting block 8 of 8
  Reserving size (48729924) for bucket
  Calculating Z arrays
  Calculating Z arrays time: 00:00:00
  Entering block accumulator loop:
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  Block accumulator loop time: 00:00:03
  Sorting block of length 18797891
  (Using difference cover)
  Sorting block time: 00:00:06
Returning block of 18797892
Exited Ebwt loop
fchr[A]: 0
fchr[C]: 78780180
fchr[G]: 130356392
fchr[T]: 181987818
fchr[$]: 259892928
Exiting Ebwt::buildToDisk()
Returning from initFromVector
Wrote 425959769 bytes to primary EBWT file: A6DE_13062_CCGTCC/tmp/segment_juncs.1.bt2
Wrote 64973240 bytes to secondary EBWT file: A6DE_13062_CCGTCC/tmp/segment_juncs.2.bt2
Re-opening _in1 and _in2 as input streams
Returning from Ebwt constructor
Headers:
    len: 259892928
    bwtLen: 259892929
    sz: 64973232
    bwtSz: 64973233
    lineRate: 6
    offRate: 4
    offMask: 0xfffffff0
    ftabChars: 10
    eftabLen: 20
    eftabSz: 80
    ftabLen: 1048577
    ftabSz: 4194308
    offsLen: 16243309
    offsSz: 64973236
    lineSz: 64
    sideSz: 64
    sideBwtSz: 48
    sideBwtLen: 192
    numSides: 1353610
    numLines: 1353610
    ebwtTotLen: 86631040
    ebwtTotSz: 86631040
    color: 0
    reverse: 0
Total time for call to driver() for forward index: 00:04:16
Reading reference sizes
  Time reading reference sizes: 00:00:03
Calculating joined length
Writing header
Reserving space for joined string
Joining reference sequences
  Time to join reference sequences: 00:00:05
  Time to reverse reference sequence: 00:00:09
bmax according to bmaxDivN setting: 64973232
Using parameters --bmax 48729924 --dcv 1024
  Doing ahead-of-time memory usage test
  Passed!  Constructing with these parameters: --bmax 48729924 --dcv 1024
Constructing suffix-array element generator
Building DifferenceCoverSample
  Building sPrime
  Building sPrimeOrder
  V-Sorting samples
  V-Sorting samples time: 00:00:06
  Allocating rank array
  Ranking v-sort output
  Ranking v-sort output time: 00:00:03
  Invoking Larsson-Sadakane on ranks
  Invoking Larsson-Sadakane on ranks time: 00:00:02
  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
  10%
  20%
  30%
  40%
  50%
  60%
  70%
  80%
  90%
  100%
  Binary sorting into buckets time: 00:00:10
Splitting and merging
  Splitting and merging time: 00:00:00
Split 2, merged 7; iterating...
  Binary sorting into buckets
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  20%
  30%
  40%
  50%
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  80%
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  100%
  Binary sorting into buckets time: 00:00:07
Splitting and merging
  Splitting and merging time: 00:00:00
Avg bucket size: 3.71276e+07 (target: 48729923)
Converting suffix-array elements to index image
Allocating ftab, absorbFtab
Entering Ebwt loop
Getting block 1 of 7
  Reserving size (48729924) for bucket
  Calculating Z arrays
  Calculating Z arrays time: 00:00:00
  Entering block accumulator loop:
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  Block accumulator loop time: 00:00:04
  Sorting block of length 48146536
  (Using difference cover)
  Sorting block time: 00:00:22
Returning block of 48146537
Getting block 2 of 7
  Reserving size (48729924) for bucket
  Calculating Z arrays
  Calculating Z arrays time: 00:00:00
  Entering block accumulator loop:
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  Block accumulator loop time: 00:00:03
  Sorting block of length 46838539
  (Using difference cover)
  Sorting block time: 00:00:26
Returning block of 46838540
Getting block 3 of 7
  Reserving size (48729924) for bucket
  Calculating Z arrays
  Calculating Z arrays time: 00:00:00
  Entering block accumulator loop:
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  Block accumulator loop time: 00:00:03
  Sorting block of length 47155398
  (Using difference cover)
  Sorting block time: 00:00:24
Returning block of 47155399
Getting block 4 of 7
  Reserving size (48729924) for bucket
  Calculating Z arrays
  Calculating Z arrays time: 00:00:00
  Entering block accumulator loop:
  10%
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  Block accumulator loop time: 00:00:03
  Sorting block of length 44476090
  (Using difference cover)
  Sorting block time: 00:00:29
Returning block of 44476091
Getting block 5 of 7
  Reserving size (48729924) for bucket
  Calculating Z arrays
  Calculating Z arrays time: 00:00:00
  Entering block accumulator loop:
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  Block accumulator loop time: 00:00:03
  Sorting block of length 19903845
  (Using difference cover)
  Sorting block time: 00:00:10
Returning block of 19903846
Getting block 6 of 7
  Reserving size (48729924) for bucket
  Calculating Z arrays
  Calculating Z arrays time: 00:00:00
  Entering block accumulator loop:
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  Block accumulator loop time: 00:00:03
  Sorting block of length 39232894
  (Using difference cover)
  Sorting block time: 00:00:25
Returning block of 39232895
Getting block 7 of 7
  Reserving size (48729924) for bucket
  Calculating Z arrays
  Calculating Z arrays time: 00:00:00
  Entering block accumulator loop:
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  Block accumulator loop time: 00:00:02
  Sorting block of length 14139620
  (Using difference cover)
  Sorting block time: 00:00:04
Returning block of 14139621
Exited Ebwt loop
fchr[A]: 0
fchr[C]: 78780180
fchr[G]: 130356392
fchr[T]: 181987818
fchr[$]: 259892928
Exiting Ebwt::buildToDisk()
Returning from initFromVector
Wrote 425959769 bytes to primary EBWT file: A6DE_13062_CCGTCC/tmp/segment_juncs.rev.1.bt2
Wrote 64973240 bytes to secondary EBWT file: A6DE_13062_CCGTCC/tmp/segment_juncs.rev.2.bt2
Re-opening _in1 and _in2 as input streams
Returning from Ebwt constructor
Headers:
    len: 259892928
    bwtLen: 259892929
    sz: 64973232
    bwtSz: 64973233
    lineRate: 6
    offRate: 4
    offMask: 0xfffffff0
    ftabChars: 10
    eftabLen: 20
    eftabSz: 80
    ftabLen: 1048577
    ftabSz: 4194308
    offsLen: 16243309
    offsSz: 64973236
    lineSz: 64
    sideSz: 64
    sideBwtSz: 48
    sideBwtLen: 192
    numSides: 1353610
    numLines: 1353610
    ebwtTotLen: 86631040
    ebwtTotSz: 86631040
    color: 0
    reverse: 1
Total time for backward call to driver() for mirror index: 00:03:53