Settings: Output files: "IR_Heart_131/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_131/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: 3714672 Using parameters --bmax 2786004 --dcv 1024 Doing ahead-of-time memory usage test Passed! Constructing with these parameters: --bmax 2786004 --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 5; 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: 1.65096e+06 (target: 2786003) Converting suffix-array elements to index image Allocating ftab, absorbFtab Entering Ebwt loop Getting block 1 of 9 Reserving size (2786004) 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 1582291 (Using difference cover) Sorting block time: 00:00:00 Returning block of 1582292 Getting block 2 of 9 Reserving size (2786004) 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 2695596 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2695597 Getting block 3 of 9 Reserving size (2786004) 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 832800 (Using difference cover) Sorting block time: 00:00:00 Returning block of 832801 Getting block 4 of 9 Reserving size (2786004) 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 2160389 (Using difference cover) Sorting block time: 00:00:00 Returning block of 2160390 Getting block 5 of 9 Reserving size (2786004) 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 667359 (Using difference cover) Sorting block time: 00:00:00 Returning block of 667360 Getting block 6 of 9 Reserving size (2786004) 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 2547228 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2547229 Getting block 7 of 9 Reserving size (2786004) 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 1219686 (Using difference cover) Sorting block time: 00:00:01 Returning block of 1219687 Getting block 8 of 9 Reserving size (2786004) 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 2396245 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2396246 Getting block 9 of 9 Reserving size (2786004) 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 757086 (Using difference cover) Sorting block time: 00:00:00 Returning block of 757087 Exited Ebwt loop fchr[A]: 0 fchr[C]: 3543693 fchr[G]: 7455839 fchr[T]: 11134957 fchr[$]: 14858688 Exiting Ebwt::buildToDisk() Returning from initFromVector Wrote 28421454 bytes to primary EBWT file: IR_Heart_131/tmp/segment_juncs.1.bt2 Wrote 3714680 bytes to secondary EBWT file: IR_Heart_131/tmp/segment_juncs.2.bt2 Re-opening _in1 and _in2 as input streams Returning from Ebwt constructor Headers: len: 14858688 bwtLen: 14858689 sz: 3714672 bwtSz: 3714673 lineRate: 6 offRate: 4 offMask: 0xfffffff0 ftabChars: 10 eftabLen: 20 eftabSz: 80 ftabLen: 1048577 ftabSz: 4194308 offsLen: 928669 offsSz: 3714676 lineSz: 64 sideSz: 64 sideBwtSz: 48 sideBwtLen: 192 numSides: 77390 numLines: 77390 ebwtTotLen: 4952960 ebwtTotSz: 4952960 color: 0 reverse: 0 Total time for call to driver() for forward index: 00:00:11 Reading reference sizes Time reading reference sizes: 00:00:00 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: 3714672 Using parameters --bmax 2786004 --dcv 1024 Doing ahead-of-time memory usage test Passed! Constructing with these parameters: --bmax 2786004 --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 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 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: 1.85734e+06 (target: 2786003) Converting suffix-array elements to index image Allocating ftab, absorbFtab Entering Ebwt loop Getting block 1 of 8 Reserving size (2786004) 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 2341567 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2341568 Getting block 2 of 8 Reserving size (2786004) 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 1834941 (Using difference cover) Sorting block time: 00:00:01 Returning block of 1834942 Getting block 3 of 8 Reserving size (2786004) 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 2346913 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2346914 Getting block 4 of 8 Reserving size (2786004) 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 799180 (Using difference cover) Sorting block time: 00:00:00 Returning block of 799181 Getting block 5 of 8 Reserving size (2786004) 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 2606899 (Using difference cover) Sorting block time: 00:00:00 Returning block of 2606900 Getting block 6 of 8 Reserving size (2786004) 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 1365743 (Using difference cover) Sorting block time: 00:00:00 Returning block of 1365744 Getting block 7 of 8 Reserving size (2786004) 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 1855489 (Using difference cover) Sorting block time: 00:00:00 Returning block of 1855490 Getting block 8 of 8 Reserving size (2786004) 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 1707949 (Using difference cover) Sorting block time: 00:00:00 Returning block of 1707950 Exited Ebwt loop fchr[A]: 0 fchr[C]: 3543693 fchr[G]: 7455839 fchr[T]: 11134957 fchr[$]: 14858688 Exiting Ebwt::buildToDisk() Returning from initFromVector Wrote 28421454 bytes to primary EBWT file: IR_Heart_131/tmp/segment_juncs.rev.1.bt2 Wrote 3714680 bytes to secondary EBWT file: IR_Heart_131/tmp/segment_juncs.rev.2.bt2 Re-opening _in1 and _in2 as input streams Returning from Ebwt constructor Headers: len: 14858688 bwtLen: 14858689 sz: 3714672 bwtSz: 3714673 lineRate: 6 offRate: 4 offMask: 0xfffffff0 ftabChars: 10 eftabLen: 20 eftabSz: 80 ftabLen: 1048577 ftabSz: 4194308 offsLen: 928669 offsSz: 3714676 lineSz: 64 sideSz: 64 sideBwtSz: 48 sideBwtLen: 192 numSides: 77390 numLines: 77390 ebwtTotLen: 4952960 ebwtTotSz: 4952960 color: 0 reverse: 1 Total time for backward call to driver() for mirror index: 00:00:11