Settings: Output files: "CBHearttp81/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: CBHearttp81/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: 3734419 Using parameters --bmax 2800815 --dcv 1024 Doing ahead-of-time memory usage test Passed! Constructing with these parameters: --bmax 2800815 --dcv 1024 Constructing suffix-array element generator Building DifferenceCoverSample Building sPrime Building sPrimeOrder V-Sorting samples V-Sorting samples time: 00:00:01 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: 00:00:00 Splitting and merging Splitting and merging time: 00:00:00 Split 1, merged 0; 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: 1.86721e+06 (target: 2800814) Converting suffix-array elements to index image Allocating ftab, absorbFtab Entering Ebwt loop Getting block 1 of 8 Reserving size (2800815) 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 2596075 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2596076 Getting block 2 of 8 Reserving size (2800815) 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 2236205 (Using difference cover) Sorting block time: 00:00:00 Returning block of 2236206 Getting block 3 of 8 Reserving size (2800815) 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 666492 (Using difference cover) Sorting block time: 00:00:00 Returning block of 666493 Getting block 4 of 8 Reserving size (2800815) 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 2249527 (Using difference cover) Sorting block time: 00:00:00 Returning block of 2249528 Getting block 5 of 8 Reserving size (2800815) 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 1121769 (Using difference cover) Sorting block time: 00:00:00 Returning block of 1121770 Getting block 6 of 8 Reserving size (2800815) 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 2747990 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2747991 Getting block 7 of 8 Reserving size (2800815) 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 1263154 (Using difference cover) Sorting block time: 00:00:01 Returning block of 1263155 Getting block 8 of 8 Reserving size (2800815) 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 2056457 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2056458 Exited Ebwt loop fchr[A]: 0 fchr[C]: 3552846 fchr[G]: 7477050 fchr[T]: 11206858 fchr[$]: 14937676 Exiting Ebwt::buildToDisk() Returning from initFromVector Wrote 28553611 bytes to primary EBWT file: CBHearttp81/tmp/segment_juncs.1.bt2 Wrote 3734424 bytes to secondary EBWT file: CBHearttp81/tmp/segment_juncs.2.bt2 Re-opening _in1 and _in2 as input streams Returning from Ebwt constructor Headers: len: 14937676 bwtLen: 14937677 sz: 3734419 bwtSz: 3734420 lineRate: 6 offRate: 4 offMask: 0xfffffff0 ftabChars: 10 eftabLen: 20 eftabSz: 80 ftabLen: 1048577 ftabSz: 4194308 offsLen: 933605 offsSz: 3734420 lineSz: 64 sideSz: 64 sideBwtSz: 48 sideBwtLen: 192 numSides: 77801 numLines: 77801 ebwtTotLen: 4979264 ebwtTotSz: 4979264 color: 0 reverse: 0 Total time for call to driver() for forward index: 00:00:14 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 Time to reverse reference sequence: 00:00:00 bmax according to bmaxDivN setting: 3734419 Using parameters --bmax 2800815 --dcv 1024 Doing ahead-of-time memory usage test Passed! Constructing with these parameters: --bmax 2800815 --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 Avg bucket size: 2.13395e+06 (target: 2800814) Converting suffix-array elements to index image Allocating ftab, absorbFtab Entering Ebwt loop Getting block 1 of 7 Reserving size (2800815) 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 2527983 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2527984 Getting block 2 of 7 Reserving size (2800815) 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 2175581 (Using difference cover) Sorting block time: 00:00:00 Returning block of 2175582 Getting block 3 of 7 Reserving size (2800815) 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 1528927 (Using difference cover) Sorting block time: 00:00:00 Returning block of 1528928 Getting block 4 of 7 Reserving size (2800815) 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 1598576 (Using difference cover) Sorting block time: 00:00:00 Returning block of 1598577 Getting block 5 of 7 Reserving size (2800815) 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 2342200 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2342201 Getting block 6 of 7 Reserving size (2800815) 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 2259606 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2259607 Getting block 7 of 7 Reserving size (2800815) 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 2504797 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2504798 Exited Ebwt loop fchr[A]: 0 fchr[C]: 3552846 fchr[G]: 7477050 fchr[T]: 11206858 fchr[$]: 14937676 Exiting Ebwt::buildToDisk() Returning from initFromVector Wrote 28553611 bytes to primary EBWT file: CBHearttp81/tmp/segment_juncs.rev.1.bt2 Wrote 3734424 bytes to secondary EBWT file: CBHearttp81/tmp/segment_juncs.rev.2.bt2 Re-opening _in1 and _in2 as input streams Returning from Ebwt constructor Headers: len: 14937676 bwtLen: 14937677 sz: 3734419 bwtSz: 3734420 lineRate: 6 offRate: 4 offMask: 0xfffffff0 ftabChars: 10 eftabLen: 20 eftabSz: 80 ftabLen: 1048577 ftabSz: 4194308 offsLen: 933605 offsSz: 3734420 lineSz: 64 sideSz: 64 sideBwtSz: 48 sideBwtLen: 192 numSides: 77801 numLines: 77801 ebwtTotLen: 4979264 ebwtTotSz: 4979264 color: 0 reverse: 1 Total time for backward call to driver() for mirror index: 00:00:11