Settings: Output files: "CB_Heart_tp51/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: CB_Heart_tp51/tmp/segment_juncs.fa Reading reference sizes Time reading reference sizes: 00:00:00 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: 3851588 Using parameters --bmax 2888691 --dcv 1024 Doing ahead-of-time memory usage test Passed! Constructing with these parameters: --bmax 2888691 --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: 00:00:00 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 3, merged 6; 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: 1.92579e+06 (target: 2888690) Converting suffix-array elements to index image Allocating ftab, absorbFtab Entering Ebwt loop Getting block 1 of 8 Reserving size (2888691) 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 1438634 (Using difference cover) Sorting block time: 00:00:01 Returning block of 1438635 Getting block 2 of 8 Reserving size (2888691) 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 2716675 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2716676 Getting block 3 of 8 Reserving size (2888691) 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 2596572 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2596573 Getting block 4 of 8 Reserving size (2888691) 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 2588872 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2588873 Getting block 5 of 8 Reserving size (2888691) 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 650051 (Using difference cover) Sorting block time: 00:00:00 Returning block of 650052 Getting block 6 of 8 Reserving size (2888691) 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 2370734 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2370735 Getting block 7 of 8 Reserving size (2888691) 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 2324923 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2324924 Getting block 8 of 8 Reserving size (2888691) 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 719884 (Using difference cover) Sorting block time: 00:00:00 Returning block of 719885 Exited Ebwt loop fchr[A]: 0 fchr[C]: 3675642 fchr[G]: 7742720 fchr[T]: 11540963 fchr[$]: 15406352 Exiting Ebwt::buildToDisk() Returning from initFromVector Wrote 29323145 bytes to primary EBWT file: CB_Heart_tp51/tmp/segment_juncs.1.bt2 Wrote 3851596 bytes to secondary EBWT file: CB_Heart_tp51/tmp/segment_juncs.2.bt2 Re-opening _in1 and _in2 as input streams Returning from Ebwt constructor Headers: len: 15406352 bwtLen: 15406353 sz: 3851588 bwtSz: 3851589 lineRate: 6 offRate: 4 offMask: 0xfffffff0 ftabChars: 10 eftabLen: 20 eftabSz: 80 ftabLen: 1048577 ftabSz: 4194308 offsLen: 962898 offsSz: 3851592 lineSz: 64 sideSz: 64 sideBwtSz: 48 sideBwtLen: 192 numSides: 80242 numLines: 80242 ebwtTotLen: 5135488 ebwtTotSz: 5135488 color: 0 reverse: 0 Total time for call to driver() for forward index: 00:00:13 Reading reference sizes Time reading reference sizes: 00:00:00 Calculating joined length Writing header Reserving space for joined string Joining reference sequences Time to join reference sequences: 00:00:00 Time to reverse reference sequence: 00:00:00 bmax according to bmaxDivN setting: 3851588 Using parameters --bmax 2888691 --dcv 1024 Doing ahead-of-time memory usage test Passed! Constructing with these parameters: --bmax 2888691 --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: 00:00:00 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 1, merged 7; 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: 2.20091e+06 (target: 2888690) Converting suffix-array elements to index image Allocating ftab, absorbFtab Entering Ebwt loop Getting block 1 of 7 Reserving size (2888691) 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 1630928 (Using difference cover) Sorting block time: 00:00:00 Returning block of 1630929 Getting block 2 of 7 Reserving size (2888691) 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 1968820 (Using difference cover) Sorting block time: 00:00:00 Returning block of 1968821 Getting block 3 of 7 Reserving size (2888691) 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 2819333 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2819334 Getting block 4 of 7 Reserving size (2888691) 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 2608448 (Using difference cover) Sorting block time: 00:00:02 Returning block of 2608449 Getting block 5 of 7 Reserving size (2888691) 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 1479027 (Using difference cover) Sorting block time: 00:00:01 Returning block of 1479028 Getting block 6 of 7 Reserving size (2888691) 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 2631526 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2631527 Getting block 7 of 7 Reserving size (2888691) 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 2268264 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2268265 Exited Ebwt loop fchr[A]: 0 fchr[C]: 3675642 fchr[G]: 7742720 fchr[T]: 11540963 fchr[$]: 15406352 Exiting Ebwt::buildToDisk() Returning from initFromVector Wrote 29323145 bytes to primary EBWT file: CB_Heart_tp51/tmp/segment_juncs.rev.1.bt2 Wrote 3851596 bytes to secondary EBWT file: CB_Heart_tp51/tmp/segment_juncs.rev.2.bt2 Re-opening _in1 and _in2 as input streams Returning from Ebwt constructor Headers: len: 15406352 bwtLen: 15406353 sz: 3851588 bwtSz: 3851589 lineRate: 6 offRate: 4 offMask: 0xfffffff0 ftabChars: 10 eftabLen: 20 eftabSz: 80 ftabLen: 1048577 ftabSz: 4194308 offsLen: 962898 offsSz: 3851592 lineSz: 64 sideSz: 64 sideBwtSz: 48 sideBwtLen: 192 numSides: 80242 numLines: 80242 ebwtTotLen: 5135488 ebwtTotSz: 5135488 color: 0 reverse: 1 Total time for backward call to driver() for mirror index: 00:00:13