Settings:
  Output files: "A3DE_13060_TGACCA/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:
  A3DE_13060_TGACCA/tmp/segment_juncs.fa
Reading reference sizes
  Time reading reference sizes: 00:00:04
Calculating joined length
Writing header
Reserving space for joined string
Joining reference sequences
  Time to join reference sequences: 00:00:04
bmax according to bmaxDivN setting: 50189823
Using parameters --bmax 37642368 --dcv 1024
  Doing ahead-of-time memory usage test
  Passed!  Constructing with these parameters: --bmax 37642368 --dcv 1024
Constructing suffix-array element generator
Building DifferenceCoverSample
  Building sPrime
  Building sPrimeOrder
  V-Sorting samples
  V-Sorting samples time: 00:00:05
  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: 00:00:08
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: 00:00:07
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: 00:00:06
Splitting and merging
  Splitting and merging time: 00:00:00
Avg bucket size: 2.50949e+07 (target: 37642367)
Converting suffix-array elements to index image
Allocating ftab, absorbFtab
Entering Ebwt loop
Getting block 1 of 8
  Reserving size (37642368) 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 19497846
  (Using difference cover)
  Sorting block time: 00:00:06
Returning block of 19497847
Getting block 2 of 8
  Reserving size (37642368) 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 35140432
  (Using difference cover)
  Sorting block time: 00:00:19
Returning block of 35140433
Getting block 3 of 8
  Reserving size (37642368) 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 14587449
  (Using difference cover)
  Sorting block time: 00:00:08
Returning block of 14587450
Getting block 4 of 8
  Reserving size (37642368) 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 25925371
  (Using difference cover)
  Sorting block time: 00:00:14
Returning block of 25925372
Getting block 5 of 8
  Reserving size (37642368) 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 30262769
  (Using difference cover)
  Sorting block time: 00:00:16
Returning block of 30262770
Getting block 6 of 8
  Reserving size (37642368) 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 27969641
  (Using difference cover)
  Sorting block time: 00:00:20
Returning block of 27969642
Getting block 7 of 8
  Reserving size (37642368) 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 23191337
  (Using difference cover)
  Sorting block time: 00:00:17
Returning block of 23191338
Getting block 8 of 8
  Reserving size (37642368) 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 24184443
  (Using difference cover)
  Sorting block time: 00:00:10
Returning block of 24184444
Exited Ebwt loop
fchr[A]: 0
fchr[C]: 63718195
fchr[G]: 101226400
fchr[T]: 138605229
fchr[$]: 200759295
Exiting Ebwt::buildToDisk()
Returning from initFromVector
Wrote 329976033 bytes to primary EBWT file: A3DE_13060_TGACCA/tmp/segment_juncs.1.bt2
Wrote 50189828 bytes to secondary EBWT file: A3DE_13060_TGACCA/tmp/segment_juncs.2.bt2
Re-opening _in1 and _in2 as input streams
Returning from Ebwt constructor
Headers:
    len: 200759295
    bwtLen: 200759296
    sz: 50189824
    bwtSz: 50189824
    lineRate: 6
    offRate: 4
    offMask: 0xfffffff0
    ftabChars: 10
    eftabLen: 20
    eftabSz: 80
    ftabLen: 1048577
    ftabSz: 4194308
    offsLen: 12547456
    offsSz: 50189824
    lineSz: 64
    sideSz: 64
    sideBwtSz: 48
    sideBwtLen: 192
    numSides: 1045622
    numLines: 1045622
    ebwtTotLen: 66919808
    ebwtTotSz: 66919808
    color: 0
    reverse: 0
Total time for call to driver() for forward index: 00:03:09
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: 00:00:04
  Time to reverse reference sequence: 00:00:01
bmax according to bmaxDivN setting: 50189823
Using parameters --bmax 37642368 --dcv 1024
  Doing ahead-of-time memory usage test
  Passed!  Constructing with these parameters: --bmax 37642368 --dcv 1024
Constructing suffix-array element generator
Building DifferenceCoverSample
  Building sPrime
  Building sPrimeOrder
  V-Sorting samples
  V-Sorting samples time: 00:00:05
  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: 00:00:02
  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
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  60%
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  90%
  100%
  Binary sorting into buckets time: 00:00:07
Splitting and merging
  Splitting and merging time: 00:00:00
Split 1, merged 7; iterating...
  Binary sorting into buckets
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  30%
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  80%
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  100%
  Binary sorting into buckets time: 00:00:06
Splitting and merging
  Splitting and merging time: 00:00:00
Split 1, merged 1; iterating...
  Binary sorting into buckets
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  30%
  40%
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  100%
  Binary sorting into buckets time: 00:00:06
Splitting and merging
  Splitting and merging time: 00:00:00
Avg bucket size: 2.86799e+07 (target: 37642367)
Converting suffix-array elements to index image
Allocating ftab, absorbFtab
Entering Ebwt loop
Getting block 1 of 7
  Reserving size (37642368) 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 28280511
  (Using difference cover)
  Sorting block time: 00:00:12
Returning block of 28280512
Getting block 2 of 7
  Reserving size (37642368) 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 34944307
  (Using difference cover)
  Sorting block time: 00:00:20
Returning block of 34944308
Getting block 3 of 7
  Reserving size (37642368) 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 29315001
  (Using difference cover)
  Sorting block time: 00:00:16
Returning block of 29315002
Getting block 4 of 7
  Reserving size (37642368) 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 14887307
  (Using difference cover)
  Sorting block time: 00:00:07
Returning block of 14887308
Getting block 5 of 7
  Reserving size (37642368) 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 32788126
  (Using difference cover)
  Sorting block time: 00:00:23
Returning block of 32788127
Getting block 6 of 7
  Reserving size (37642368) 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 31223252
  (Using difference cover)
  Sorting block time: 00:00:22
Returning block of 31223253
Getting block 7 of 7
  Reserving size (37642368) 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 29320785
  (Using difference cover)
  Sorting block time: 00:00:12
Returning block of 29320786
Exited Ebwt loop
fchr[A]: 0
fchr[C]: 63718195
fchr[G]: 101226400
fchr[T]: 138605229
fchr[$]: 200759295
Exiting Ebwt::buildToDisk()
Returning from initFromVector
Wrote 329976033 bytes to primary EBWT file: A3DE_13060_TGACCA/tmp/segment_juncs.rev.1.bt2
Wrote 50189828 bytes to secondary EBWT file: A3DE_13060_TGACCA/tmp/segment_juncs.rev.2.bt2
Re-opening _in1 and _in2 as input streams
Returning from Ebwt constructor
Headers:
    len: 200759295
    bwtLen: 200759296
    sz: 50189824
    bwtSz: 50189824
    lineRate: 6
    offRate: 4
    offMask: 0xfffffff0
    ftabChars: 10
    eftabLen: 20
    eftabSz: 80
    ftabLen: 1048577
    ftabSz: 4194308
    offsLen: 12547456
    offsSz: 50189824
    lineSz: 64
    sideSz: 64
    sideBwtSz: 48
    sideBwtLen: 192
    numSides: 1045622
    numLines: 1045622
    ebwtTotLen: 66919808
    ebwtTotSz: 66919808
    color: 0
    reverse: 1
Total time for backward call to driver() for mirror index: 00:03:07