The tool produced the following additional output:
Settings:
Output files: "genome..bt2l"
Line rate: 7 (line is 128 bytes)
Lines per side: 1 (side is 128 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:
/mnt/galaxy/files/016/dataset_16547.dat
Reading reference sizes
Time reading reference sizes: 00:00:51
Calculating joined length
Writing header
Reserving space for joined string
Joining reference sequences
Time to join reference sequences: 00:00:27
bmax according to bmaxDivN setting: 1111624310
Using parameters --bmax 833718233 --dcv 1024
Doing ahead-of-time memory usage test
Passed! Constructing with these parameters: --bmax 833718233 --dcv 1024
Constructing suffix-array element generator
Building DifferenceCoverSample
Building sPrime
Building sPrimeOrder
V-Sorting samples
V-Sorting samples time: 00:02:33
Allocating rank array
Ranking v-sort output
Ranking v-sort output time: 00:00:34
Invoking Larsson-Sadakane on ranks
Invoking Larsson-Sadakane on ranks time: 00:00:57
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%
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50%
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80%
90%
100%
Binary sorting into buckets time: 00:02:58
Splitting and merging
Splitting and merging time: 00:00:00
Split 2, merged 7; iterating...
Binary sorting into buckets
10%
20%
30%
40%
50%
60%
70%
80%
90%
100%
Binary sorting into buckets time: 00:02:27
Splitting and merging
Splitting and merging time: 00:00:00
Split 1, merged 0; iterating...
Binary sorting into buckets
10%
20%
30%
40%
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60%
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80%
90%
100%
Binary sorting into buckets time: 00:02:19
Splitting and merging
Splitting and merging time: 00:00:00
Avg bucket size: 5.55812e+08 (target: 833718232)
Converting suffix-array elements to index image
Allocating ftab, absorbFtab
Entering Ebwt loop
Getting block 1 of 8
Reserving size (833718233) for bucket
Calculating Z arrays
Calculating Z arrays time: 00:00:00
Entering block accumulator loop:
10%
20%
30%
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100%
Block accumulator loop time: 00:00:43
Sorting block of length 551628983
(Using difference cover)
Sorting block time: 00:07:05
Returning block of 551628984
Getting block 2 of 8
Reserving size (833718233) for bucket
Calculating Z arrays
Calculating Z arrays time: 00:00:00
Entering block accumulator loop:
10%
20%
30%
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100%
Block accumulator loop time: 00:00:51
Sorting block of length 683448832
(Using difference cover)
Sorting block time: 00:09:15
.... (repeating) ......
Returning block of 754851245
Exited Ebwt loop
fchr[A]: 0
fchr[C]: 1235077817
fchr[G]: 2223441633
fchr[T]: 3211648164
fchr[$]: 4446497241
Exiting Ebwt::buildToDisk()
Returning from initFromVector
Wrote 1521337361 bytes to primary EBWT file: genome.rev.1.bt2l
Wrote 2223248628 bytes to secondary EBWT file: genome.rev.2.bt2l
Re-opening _in1 and _in2 as input streams
Returning from Ebwt constructor
Headers:
len: 4446497241
bwtLen: 4446497242
sz: 1111624311
bwtSz: 1111624311
lineRate: 7
offRate: 4
offMask: 0xfffffffffffffff0
ftabChars: 10
eftabLen: 20
eftabSz: 160
ftabLen: 1048577
ftabSz: 8388616
offsLen: 277906078
offsSz: 2223248624
lineSz: 128
sideSz: 128
sideBwtSz: 96
sideBwtLen: 384
numSides: 11579420
numLines: 11579420
ebwtTotLen: 1482165760
ebwtTotSz: 1482165760
color: 0
reverse: 1
Total time for backward call to driver() for mirror index: 01:21:54
[bam_header_read] EOF marker is absent. The input is probably truncated.
[bam_header_read] invalid BAM binary header (this is not a BAM file).
[bam_index_core] Invalid BAM header.[bam_index_build2] fail to index the BAM file.
