Settings: Output files: "IR_Heart_05F1C1/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: IR_Heart_05F1C1/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: 00:00:00 bmax according to bmaxDivN setting: 3792607 Using parameters --bmax 2844456 --dcv 1024 Doing ahead-of-time memory usage test Passed! Constructing with these parameters: --bmax 2844456 --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: 1.8963e+06 (target: 2844455) Converting suffix-array elements to index image Allocating ftab, absorbFtab Entering Ebwt loop Getting block 1 of 8 Reserving size (2844456) 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 2364138 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2364139 Getting block 2 of 8 Reserving size (2844456) 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 2077218 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2077219 Getting block 3 of 8 Reserving size (2844456) 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 2171656 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2171657 Getting block 4 of 8 Reserving size (2844456) 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 2804177 (Using difference cover) Sorting block time: 00:00:00 Returning block of 2804178 Getting block 5 of 8 Reserving size (2844456) 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 1456301 (Using difference cover) Sorting block time: 00:00:00 Returning block of 1456302 Getting block 6 of 8 Reserving size (2844456) 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 1438659 (Using difference cover) Sorting block time: 00:00:00 Returning block of 1438660 Getting block 7 of 8 Reserving size (2844456) 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 2045116 (Using difference cover) Sorting block time: 00:00:00 Returning block of 2045117 Getting block 8 of 8 Reserving size (2844456) 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 813156 (Using difference cover) Sorting block time: 00:00:00 Returning block of 813157 Exited Ebwt loop fchr[A]: 0 fchr[C]: 3616618 fchr[G]: 7587576 fchr[T]: 11363725 fchr[$]: 15170428 Exiting Ebwt::buildToDisk() Returning from initFromVector Wrote 28921857 bytes to primary EBWT file: IR_Heart_05F1C1/tmp/segment_juncs.1.bt2 Wrote 3792612 bytes to secondary EBWT file: IR_Heart_05F1C1/tmp/segment_juncs.2.bt2 Re-opening _in1 and _in2 as input streams Returning from Ebwt constructor Headers: len: 15170428 bwtLen: 15170429 sz: 3792607 bwtSz: 3792608 lineRate: 6 offRate: 4 offMask: 0xfffffff0 ftabChars: 10 eftabLen: 20 eftabSz: 80 ftabLen: 1048577 ftabSz: 4194308 offsLen: 948152 offsSz: 3792608 lineSz: 64 sideSz: 64 sideBwtSz: 48 sideBwtLen: 192 numSides: 79013 numLines: 79013 ebwtTotLen: 5056832 ebwtTotSz: 5056832 color: 0 reverse: 0 Total time for call to driver() for forward index: 00:00:11 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: 00:00:00 Time to reverse reference sequence: 00:00:00 bmax according to bmaxDivN setting: 3792607 Using parameters --bmax 2844456 --dcv 1024 Doing ahead-of-time memory usage test Passed! Constructing with these parameters: --bmax 2844456 --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 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: 1.8963e+06 (target: 2844455) Converting suffix-array elements to index image Allocating ftab, absorbFtab Entering Ebwt loop Getting block 1 of 8 Reserving size (2844456) 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 2584205 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2584206 Getting block 2 of 8 Reserving size (2844456) 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 634931 (Using difference cover) Sorting block time: 00:00:01 Returning block of 634932 Getting block 3 of 8 Reserving size (2844456) 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 2361366 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2361367 Getting block 4 of 8 Reserving size (2844456) 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 2790902 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2790903 Getting block 5 of 8 Reserving size (2844456) 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 1170676 (Using difference cover) Sorting block time: 00:00:01 Returning block of 1170677 Getting block 6 of 8 Reserving size (2844456) 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 2698906 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2698907 Getting block 7 of 8 Reserving size (2844456) 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 1553700 (Using difference cover) Sorting block time: 00:00:01 Returning block of 1553701 Getting block 8 of 8 Reserving size (2844456) 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 1375735 (Using difference cover) Sorting block time: 00:00:00 Returning block of 1375736 Exited Ebwt loop fchr[A]: 0 fchr[C]: 3616618 fchr[G]: 7587576 fchr[T]: 11363725 fchr[$]: 15170428 Exiting Ebwt::buildToDisk() Returning from initFromVector Wrote 28921857 bytes to primary EBWT file: IR_Heart_05F1C1/tmp/segment_juncs.rev.1.bt2 Wrote 3792612 bytes to secondary EBWT file: IR_Heart_05F1C1/tmp/segment_juncs.rev.2.bt2 Re-opening _in1 and _in2 as input streams Returning from Ebwt constructor Headers: len: 15170428 bwtLen: 15170429 sz: 3792607 bwtSz: 3792608 lineRate: 6 offRate: 4 offMask: 0xfffffff0 ftabChars: 10 eftabLen: 20 eftabSz: 80 ftabLen: 1048577 ftabSz: 4194308 offsLen: 948152 offsSz: 3792608 lineSz: 64 sideSz: 64 sideBwtSz: 48 sideBwtLen: 192 numSides: 79013 numLines: 79013 ebwtTotLen: 5056832 ebwtTotSz: 5056832 color: 0 reverse: 1 Total time for backward call to driver() for mirror index: 00:00:11