Settings: Output files: "IRTestis05F1C1/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: IRTestis05F1C1/tmp/segment_juncs.fa Reading reference sizes Time reading reference sizes: 00:00:01 Calculating joined length Writing header Reserving space for joined string Joining reference sequences Time to join reference sequences: 00:00:01 bmax according to bmaxDivN setting: 7166587 Using parameters --bmax 5374941 --dcv 1024 Doing ahead-of-time memory usage test Passed! Constructing with these parameters: --bmax 5374941 --dcv 1024 Constructing suffix-array element generator Building DifferenceCoverSample Building sPrime Building sPrimeOrder V-Sorting samples V-Sorting samples time: 00:00:00 Allocating rank array Ranking v-sort output Ranking v-sort output time: 00:00:00 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 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% Binary sorting into buckets time: 00:00:01 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: 00:00:02 Splitting and merging Splitting and merging time: 00:00:00 Split 1, merged 1; iterating... Binary sorting into buckets 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% Binary sorting into buckets time: 00:00:01 Splitting and merging Splitting and merging time: 00:00:00 Avg bucket size: 4.09519e+06 (target: 5374940) Converting suffix-array elements to index image Allocating ftab, absorbFtab Entering Ebwt loop Getting block 1 of 7 Reserving size (5374941) for bucket Calculating Z arrays Calculating Z arrays time: 00:00:00 Entering block accumulator loop: 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% Block accumulator loop time: 00:00:00 Sorting block of length 3087195 (Using difference cover) Sorting block time: 00:00:02 Returning block of 3087196 Getting block 2 of 7 Reserving size (5374941) for bucket Calculating Z arrays Calculating Z arrays time: 00:00:00 Entering block accumulator loop: 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% Block accumulator loop time: 00:00:00 Sorting block of length 4823845 (Using difference cover) Sorting block time: 00:00:02 Returning block of 4823846 Getting block 3 of 7 Reserving size (5374941) for bucket Calculating Z arrays Calculating Z arrays time: 00:00:00 Entering block accumulator loop: 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% Block accumulator loop time: 00:00:00 Sorting block of length 4995022 (Using difference cover) Sorting block time: 00:00:02 Returning block of 4995023 Getting block 4 of 7 Reserving size (5374941) for bucket Calculating Z arrays Calculating Z arrays time: 00:00:00 Entering block accumulator loop: 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% Block accumulator loop time: 00:00:00 Sorting block of length 4561845 (Using difference cover) Sorting block time: 00:00:02 Returning block of 4561846 Getting block 5 of 7 Reserving size (5374941) for bucket Calculating Z arrays Calculating Z arrays time: 00:00:00 Entering block accumulator loop: 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% Block accumulator loop time: 00:00:00 Sorting block of length 1907139 (Using difference cover) Sorting block time: 00:00:01 Returning block of 1907140 Getting block 6 of 7 Reserving size (5374941) for bucket Calculating Z arrays Calculating Z arrays time: 00:00:00 Entering block accumulator loop: 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% Block accumulator loop time: 00:00:01 Sorting block of length 3998950 (Using difference cover) Sorting block time: 00:00:01 Returning block of 3998951 Getting block 7 of 7 Reserving size (5374941) for bucket Calculating Z arrays Calculating Z arrays time: 00:00:00 Entering block accumulator loop: 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% Block accumulator loop time: 00:00:00 Sorting block of length 5292346 (Using difference cover) Sorting block time: 00:00:02 Returning block of 5292347 Exited Ebwt loop fchr[A]: 0 fchr[C]: 7081919 fchr[G]: 14364209 fchr[T]: 21411514 fchr[$]: 28666348 Exiting Ebwt::buildToDisk() Returning from initFromVector Wrote 50891765 bytes to primary EBWT file: IRTestis05F1C1/tmp/segment_juncs.1.bt2 Wrote 7166592 bytes to secondary EBWT file: IRTestis05F1C1/tmp/segment_juncs.2.bt2 Re-opening _in1 and _in2 as input streams Returning from Ebwt constructor Headers: len: 28666348 bwtLen: 28666349 sz: 7166587 bwtSz: 7166588 lineRate: 6 offRate: 4 offMask: 0xfffffff0 ftabChars: 10 eftabLen: 20 eftabSz: 80 ftabLen: 1048577 ftabSz: 4194308 offsLen: 1791647 offsSz: 7166588 lineSz: 64 sideSz: 64 sideBwtSz: 48 sideBwtLen: 192 numSides: 149304 numLines: 149304 ebwtTotLen: 9555456 ebwtTotSz: 9555456 color: 0 reverse: 0 Total time for call to driver() for forward index: 00:00:25 Reading reference sizes Time reading reference sizes: 00:00:01 Calculating joined length Writing header Reserving space for joined string Joining reference sequences Time to join reference sequences: 00:00:01 Time to reverse reference sequence: 00:00:00 bmax according to bmaxDivN setting: 7166587 Using parameters --bmax 5374941 --dcv 1024 Doing ahead-of-time memory usage test Passed! Constructing with these parameters: --bmax 5374941 --dcv 1024 Constructing suffix-array element generator Building DifferenceCoverSample Building sPrime Building sPrimeOrder V-Sorting samples V-Sorting samples time: 00:00:00 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: 00:00:00 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: 00:00:01 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: 00:00:02 Splitting and merging Splitting and merging time: 00:00:00 Split 2, merged 1; iterating... Binary sorting into buckets 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% Binary sorting into buckets time: 00:00:01 Splitting and merging Splitting and merging time: 00:00:00 Split 2, merged 2; iterating... Binary sorting into buckets 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% Binary sorting into buckets time: 00:00:01 Splitting and merging Splitting and merging time: 00:00:00 Split 1, merged 2; iterating... Binary sorting into buckets 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% Binary sorting into buckets time: 00:00:02 Splitting and merging Splitting and merging time: 00:00:00 Avg bucket size: 4.09519e+06 (target: 5374940) Converting suffix-array elements to index image Allocating ftab, absorbFtab Entering Ebwt loop Getting block 1 of 7 Reserving size (5374941) for bucket Calculating Z arrays Calculating Z arrays time: 00:00:00 Entering block accumulator loop: 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% Block accumulator loop time: 00:00:00 Sorting block of length 4864360 (Using difference cover) Sorting block time: 00:00:02 Returning block of 4864361 Getting block 2 of 7 Reserving size (5374941) for bucket Calculating Z arrays Calculating Z arrays time: 00:00:00 Entering block accumulator loop: 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% Block accumulator loop time: 00:00:00 Sorting block of length 3983652 (Using difference cover) Sorting block time: 00:00:02 Returning block of 3983653 Getting block 3 of 7 Reserving size (5374941) for bucket Calculating Z arrays Calculating Z arrays time: 00:00:00 Entering block accumulator loop: 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% Block accumulator loop time: 00:00:01 Sorting block of length 4553017 (Using difference cover) Sorting block time: 00:00:02 Returning block of 4553018 Getting block 4 of 7 Reserving size (5374941) for bucket Calculating Z arrays Calculating Z arrays time: 00:00:00 Entering block accumulator loop: 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% Block accumulator loop time: 00:00:00 Sorting block of length 1449836 (Using difference cover) Sorting block time: 00:00:01 Returning block of 1449837 Getting block 5 of 7 Reserving size (5374941) for bucket Calculating Z arrays Calculating Z arrays time: 00:00:00 Entering block accumulator loop: 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% Block accumulator loop time: 00:00:01 Sorting block of length 4291665 (Using difference cover) Sorting block time: 00:00:02 Returning block of 4291666 Getting block 6 of 7 Reserving size (5374941) for bucket Calculating Z arrays Calculating Z arrays time: 00:00:00 Entering block accumulator loop: 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% Block accumulator loop time: 00:00:00 Sorting block of length 4300775 (Using difference cover) Sorting block time: 00:00:02 Returning block of 4300776 Getting block 7 of 7 Reserving size (5374941) for bucket Calculating Z arrays Calculating Z arrays time: 00:00:00 Entering block accumulator loop: 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% Block accumulator loop time: 00:00:00 Sorting block of length 5223037 (Using difference cover) Sorting block time: 00:00:02 Returning block of 5223038 Exited Ebwt loop fchr[A]: 0 fchr[C]: 7081919 fchr[G]: 14364209 fchr[T]: 21411514 fchr[$]: 28666348 Exiting Ebwt::buildToDisk() Returning from initFromVector Wrote 50891765 bytes to primary EBWT file: IRTestis05F1C1/tmp/segment_juncs.rev.1.bt2 Wrote 7166592 bytes to secondary EBWT file: IRTestis05F1C1/tmp/segment_juncs.rev.2.bt2 Re-opening _in1 and _in2 as input streams Returning from Ebwt constructor Headers: len: 28666348 bwtLen: 28666349 sz: 7166587 bwtSz: 7166588 lineRate: 6 offRate: 4 offMask: 0xfffffff0 ftabChars: 10 eftabLen: 20 eftabSz: 80 ftabLen: 1048577 ftabSz: 4194308 offsLen: 1791647 offsSz: 7166588 lineSz: 64 sideSz: 64 sideBwtSz: 48 sideBwtLen: 192 numSides: 149304 numLines: 149304 ebwtTotLen: 9555456 ebwtTotSz: 9555456 color: 0 reverse: 1 Total time for backward call to driver() for mirror index: 00:00:28