Settings:
  Output files: "Col_0_R1//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:
  Col_0_R1//tmp/segment_juncs.fa
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: 00:00:06
bmax according to bmaxDivN setting: 32249873
Using parameters --bmax 24187405 --dcv 1024
  Doing ahead-of-time memory usage test
  Passed!  Constructing with these parameters: --bmax 24187405 --dcv 1024
Constructing suffix-array element generator
Building DifferenceCoverSample
  Building sPrime
  Building sPrimeOrder
  V-Sorting samples
  V-Sorting samples time: 00:00:03
  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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  Binary sorting into buckets time: 00:00:08
Splitting and merging
  Splitting and merging time: 00:00:00
Split 1, merged 5; 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: 1.43333e+07 (target: 24187404)
Converting suffix-array elements to index image
Allocating ftab, absorbFtab
Entering Ebwt loop
Getting block 1 of 9
  Reserving size (24187405) 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 5517475
  (Using difference cover)
  Sorting block time: 00:00:03
Returning block of 5517476
Getting block 2 of 9
  Reserving size (24187405) 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 21582889
  (Using difference cover)
  Sorting block time: 00:00:10
Returning block of 21582890
Getting block 3 of 9
  Reserving size (24187405) 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 22378616
  (Using difference cover)
  Sorting block time: 00:00:11
Returning block of 22378617
Getting block 4 of 9
  Reserving size (24187405) for bucket
  Calculating Z arrays
  Calculating Z arrays time: 00:00:00
  Entering block accumulator loop:
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  Block accumulator loop time: 00:00:01
  Sorting block of length 7719869
  (Using difference cover)
  Sorting block time: 00:00:04
Returning block of 7719870
Getting block 5 of 9
  Reserving size (24187405) 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 18555414
  (Using difference cover)
  Sorting block time: 00:00:09
Returning block of 18555415
Getting block 6 of 9
  Reserving size (24187405) 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 6158473
  (Using difference cover)
  Sorting block time: 00:00:03
Returning block of 6158474
Getting block 7 of 9
  Reserving size (24187405) 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 20482371
  (Using difference cover)
  Sorting block time: 00:00:10
Returning block of 20482372
Getting block 8 of 9
  Reserving size (24187405) 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 17407383
  (Using difference cover)
  Sorting block time: 00:00:07
Returning block of 17407384
Getting block 9 of 9
  Reserving size (24187405) 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 9196996
  (Using difference cover)
  Sorting block time: 00:00:04
Returning block of 9196997
Exited Ebwt loop
fchr[A]: 0
fchr[C]: 37527515
fchr[G]: 64315815
fchr[T]: 91368454
fchr[$]: 128999494
Exiting Ebwt::buildToDisk()
Returning from initFromVector
Wrote 228617539 bytes to primary EBWT file: Col_0_R1//tmp/segment_juncs.1.ebwt
Wrote 16124944 bytes to secondary EBWT file: Col_0_R1//tmp/segment_juncs.2.ebwt
Re-opening _in1 and _in2 as input streams
Returning from Ebwt constructor
Headers:
    len: 128999494
    bwtLen: 128999495
    sz: 32249874
    bwtSz: 32249874
    lineRate: 6
    linesPerSide: 1
    offRate: 5
    offMask: 0xffffffe0
    isaRate: -1
    isaMask: 0xffffffff
    ftabChars: 10
    eftabLen: 20
    eftabSz: 80
    ftabLen: 1048577
    ftabSz: 4194308
    offsLen: 4031235
    offsSz: 16124940
    isaLen: 0
    isaSz: 0
    lineSz: 64
    sideSz: 64
    sideBwtSz: 56
    sideBwtLen: 224
    numSidePairs: 287946
    numSides: 575892
    numLines: 575892
    ebwtTotLen: 36857088
    ebwtTotSz: 36857088
    reverse: 0
Total time for call to driver() for forward index: 00:02:06
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: 00:00:05
bmax according to bmaxDivN setting: 32249873
Using parameters --bmax 24187405 --dcv 1024
  Doing ahead-of-time memory usage test
  Passed!  Constructing with these parameters: --bmax 24187405 --dcv 1024
Constructing suffix-array element generator
Building DifferenceCoverSample
  Building sPrime
  Building sPrimeOrder
  V-Sorting samples
  V-Sorting samples time: 00:00:03
  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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  100%
  Binary sorting into buckets time: 00:00:08
Splitting and merging
  Splitting and merging time: 00:00:00
Split 2, merged 6; iterating...
  Binary sorting into buckets
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  100%
  Binary sorting into buckets time: 00:00:06
Splitting and merging
  Splitting and merging time: 00:00:00
Split 2, merged 2; iterating...
  Binary sorting into buckets
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  30%
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  50%
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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: 1.61249e+07 (target: 24187404)
Converting suffix-array elements to index image
Allocating ftab, absorbFtab
Entering Ebwt loop
Getting block 1 of 8
  Reserving size (24187405) for bucket
  Calculating Z arrays
  Calculating Z arrays time: 00:00:00
  Entering block accumulator loop:
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  Block accumulator loop time: 00:00:01
  Sorting block of length 23391503
  (Using difference cover)
  Sorting block time: 00:00:10
Returning block of 23391504
Getting block 2 of 8
  Reserving size (24187405) 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 18451594
  (Using difference cover)
  Sorting block time: 00:00:07
Returning block of 18451595
Getting block 3 of 8
  Reserving size (24187405) 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 16437939
  (Using difference cover)
  Sorting block time: 00:00:06
Returning block of 16437940
Getting block 4 of 8
  Reserving size (24187405) 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 21411145
  (Using difference cover)
  Sorting block time: 00:00:09
Returning block of 21411146
Getting block 5 of 8
  Reserving size (24187405) 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 16529370
  (Using difference cover)
  Sorting block time: 00:00:06
Returning block of 16529371
Getting block 6 of 8
  Reserving size (24187405) 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 7742640
  (Using difference cover)
  Sorting block time: 00:00:04
Returning block of 7742641
Getting block 7 of 8
  Reserving size (24187405) 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 16918366
  (Using difference cover)
  Sorting block time: 00:00:07
Returning block of 16918367
Getting block 8 of 8
  Reserving size (24187405) 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 8116930
  (Using difference cover)
  Sorting block time: 00:00:03
Returning block of 8116931
Exited Ebwt loop
fchr[A]: 0
fchr[C]: 37527515
fchr[G]: 64315815
fchr[T]: 91368454
fchr[$]: 128999494
Exiting Ebwt::buildToDisk()
Returning from initFromVector
Wrote 228617539 bytes to primary EBWT file: Col_0_R1//tmp/segment_juncs.rev.1.ebwt
Wrote 16124944 bytes to secondary EBWT file: Col_0_R1//tmp/segment_juncs.rev.2.ebwt
Re-opening _in1 and _in2 as input streams
Returning from Ebwt constructor
Headers:
    len: 128999494
    bwtLen: 128999495
    sz: 32249874
    bwtSz: 32249874
    lineRate: 6
    linesPerSide: 1
    offRate: 5
    offMask: 0xffffffe0
    isaRate: -1
    isaMask: 0xffffffff
    ftabChars: 10
    eftabLen: 20
    eftabSz: 80
    ftabLen: 1048577
    ftabSz: 4194308
    offsLen: 4031235
    offsSz: 16124940
    isaLen: 0
    isaSz: 0
    lineSz: 64
    sideSz: 64
    sideBwtSz: 56
    sideBwtLen: 224
    numSidePairs: 287946
    numSides: 575892
    numLines: 575892
    ebwtTotLen: 36857088
    ebwtTotSz: 36857088
    reverse: 0
Total time for backward call to driver() for mirror index: 00:01:57