Settings: Output files: "MCHeartE1b/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: MCHeartE1b/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: 3508856 Using parameters --bmax 2631642 --dcv 1024 Doing ahead-of-time memory usage test Passed! Constructing with these parameters: --bmax 2631642 --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: 00:00:00 Splitting and merging Splitting and merging time: 00:00:00 Avg bucket size: 1.75443e+06 (target: 2631641) Converting suffix-array elements to index image Allocating ftab, absorbFtab Entering Ebwt loop Getting block 1 of 8 Reserving size (2631642) 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 2624990 (Using difference cover) Sorting block time: 00:00:00 Returning block of 2624991 Getting block 2 of 8 Reserving size (2631642) 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 1730580 (Using difference cover) Sorting block time: 00:00:00 Returning block of 1730581 Getting block 3 of 8 Reserving size (2631642) 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 1784352 (Using difference cover) Sorting block time: 00:00:00 Returning block of 1784353 Getting block 4 of 8 Reserving size (2631642) 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 1594553 (Using difference cover) Sorting block time: 00:00:00 Returning block of 1594554 Getting block 5 of 8 Reserving size (2631642) 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 1428438 (Using difference cover) Sorting block time: 00:00:01 Returning block of 1428439 Getting block 6 of 8 Reserving size (2631642) 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 1628068 (Using difference cover) Sorting block time: 00:00:01 Returning block of 1628069 Getting block 7 of 8 Reserving size (2631642) 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 2548649 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2548650 Getting block 8 of 8 Reserving size (2631642) 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 695787 (Using difference cover) Sorting block time: 00:00:00 Returning block of 695788 Exited Ebwt loop fchr[A]: 0 fchr[C]: 3388963 fchr[G]: 7045053 fchr[T]: 10490589 fchr[$]: 14035424 Exiting Ebwt::buildToDisk() Returning from initFromVector Wrote 27054853 bytes to primary EBWT file: MCHeartE1b/tmp/segment_juncs.1.bt2 Wrote 3508864 bytes to secondary EBWT file: MCHeartE1b/tmp/segment_juncs.2.bt2 Re-opening _in1 and _in2 as input streams Returning from Ebwt constructor Headers: len: 14035424 bwtLen: 14035425 sz: 3508856 bwtSz: 3508857 lineRate: 6 offRate: 4 offMask: 0xfffffff0 ftabChars: 10 eftabLen: 20 eftabSz: 80 ftabLen: 1048577 ftabSz: 4194308 offsLen: 877215 offsSz: 3508860 lineSz: 64 sideSz: 64 sideBwtSz: 48 sideBwtLen: 192 numSides: 73102 numLines: 73102 ebwtTotLen: 4678528 ebwtTotSz: 4678528 color: 0 reverse: 0 Total time for call to driver() for forward index: 00:00:10 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: 3508856 Using parameters --bmax 2631642 --dcv 1024 Doing ahead-of-time memory usage test Passed! Constructing with these parameters: --bmax 2631642 --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 5; 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 Avg bucket size: 2.00506e+06 (target: 2631641) Converting suffix-array elements to index image Allocating ftab, absorbFtab Entering Ebwt loop Getting block 1 of 7 Reserving size (2631642) 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 1978105 (Using difference cover) Sorting block time: 00:00:01 Returning block of 1978106 Getting block 2 of 7 Reserving size (2631642) 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 2359774 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2359775 Getting block 3 of 7 Reserving size (2631642) 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 2011108 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2011109 Getting block 4 of 7 Reserving size (2631642) 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 1214932 (Using difference cover) Sorting block time: 00:00:01 Returning block of 1214933 Getting block 5 of 7 Reserving size (2631642) 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 1853943 (Using difference cover) Sorting block time: 00:00:01 Returning block of 1853944 Getting block 6 of 7 Reserving size (2631642) 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 2030754 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2030755 Getting block 7 of 7 Reserving size (2631642) 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 2586802 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2586803 Exited Ebwt loop fchr[A]: 0 fchr[C]: 3388963 fchr[G]: 7045053 fchr[T]: 10490589 fchr[$]: 14035424 Exiting Ebwt::buildToDisk() Returning from initFromVector Wrote 27054853 bytes to primary EBWT file: MCHeartE1b/tmp/segment_juncs.rev.1.bt2 Wrote 3508864 bytes to secondary EBWT file: MCHeartE1b/tmp/segment_juncs.rev.2.bt2 Re-opening _in1 and _in2 as input streams Returning from Ebwt constructor Headers: len: 14035424 bwtLen: 14035425 sz: 3508856 bwtSz: 3508857 lineRate: 6 offRate: 4 offMask: 0xfffffff0 ftabChars: 10 eftabLen: 20 eftabSz: 80 ftabLen: 1048577 ftabSz: 4194308 offsLen: 877215 offsSz: 3508860 lineSz: 64 sideSz: 64 sideBwtSz: 48 sideBwtLen: 192 numSides: 73102 numLines: 73102 ebwtTotLen: 4678528 ebwtTotSz: 4678528 color: 0 reverse: 1 Total time for backward call to driver() for mirror index: 00:00:09