Settings: Output files: "CB_Heart_tp4a/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_tp4a/tmp/segment_juncs.fa 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 bmax according to bmaxDivN setting: 3664439 Using parameters --bmax 2748330 --dcv 1024 Doing ahead-of-time memory usage test Passed! Constructing with these parameters: --bmax 2748330 --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: 00:00:01 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: 00:00:00 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 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 Split 1, merged 1; iterating... Binary sorting into buckets 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% Binary sorting into buckets time: 00:00:00 Splitting and merging Splitting and merging time: 00:00:00 Avg bucket size: 1.83222e+06 (target: 2748329) Converting suffix-array elements to index image Allocating ftab, absorbFtab Entering Ebwt loop Getting block 1 of 8 Reserving size (2748330) 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 2186501 (Using difference cover) Sorting block time: 00:00:00 Returning block of 2186502 Getting block 2 of 8 Reserving size (2748330) 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 1419534 (Using difference cover) Sorting block time: 00:00:00 Returning block of 1419535 Getting block 3 of 8 Reserving size (2748330) 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 2293935 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2293936 Getting block 4 of 8 Reserving size (2748330) 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 1188495 (Using difference cover) Sorting block time: 00:00:00 Returning block of 1188496 Getting block 5 of 8 Reserving size (2748330) 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 2115188 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2115189 Getting block 6 of 8 Reserving size (2748330) 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 1869859 (Using difference cover) Sorting block time: 00:00:01 Returning block of 1869860 Getting block 7 of 8 Reserving size (2748330) 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 1199986 (Using difference cover) Sorting block time: 00:00:00 Returning block of 1199987 Getting block 8 of 8 Reserving size (2748330) 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 2384254 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2384255 Exited Ebwt loop fchr[A]: 0 fchr[C]: 3507942 fchr[G]: 7320274 fchr[T]: 10978713 fchr[$]: 14657759 Exiting Ebwt::buildToDisk() Returning from initFromVector Wrote 28085311 bytes to primary EBWT file: CB_Heart_tp4a/tmp/segment_juncs.1.bt2 Wrote 3664444 bytes to secondary EBWT file: CB_Heart_tp4a/tmp/segment_juncs.2.bt2 Re-opening _in1 and _in2 as input streams Returning from Ebwt constructor Headers: len: 14657759 bwtLen: 14657760 sz: 3664440 bwtSz: 3664440 lineRate: 6 offRate: 4 offMask: 0xfffffff0 ftabChars: 10 eftabLen: 20 eftabSz: 80 ftabLen: 1048577 ftabSz: 4194308 offsLen: 916110 offsSz: 3664440 lineSz: 64 sideSz: 64 sideBwtSz: 48 sideBwtLen: 192 numSides: 76343 numLines: 76343 ebwtTotLen: 4885952 ebwtTotSz: 4885952 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: 3664439 Using parameters --bmax 2748330 --dcv 1024 Doing ahead-of-time memory usage test Passed! Constructing with these parameters: --bmax 2748330 --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 8; 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: 2.09396e+06 (target: 2748329) Converting suffix-array elements to index image Allocating ftab, absorbFtab Entering Ebwt loop Getting block 1 of 7 Reserving size (2748330) 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 1422893 (Using difference cover) Sorting block time: 00:00:00 Returning block of 1422894 Getting block 2 of 7 Reserving size (2748330) 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 2085047 (Using difference cover) Sorting block time: 00:00:00 Returning block of 2085048 Getting block 3 of 7 Reserving size (2748330) 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 1860981 (Using difference cover) Sorting block time: 00:00:00 Returning block of 1860982 Getting block 4 of 7 Reserving size (2748330) 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 2618332 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2618333 Getting block 5 of 7 Reserving size (2748330) 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 2667895 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2667896 Getting block 6 of 7 Reserving size (2748330) 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 1787115 (Using difference cover) Sorting block time: 00:00:01 Returning block of 1787116 Getting block 7 of 7 Reserving size (2748330) 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 2215490 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2215491 Exited Ebwt loop fchr[A]: 0 fchr[C]: 3507942 fchr[G]: 7320274 fchr[T]: 10978713 fchr[$]: 14657759 Exiting Ebwt::buildToDisk() Returning from initFromVector Wrote 28085311 bytes to primary EBWT file: CB_Heart_tp4a/tmp/segment_juncs.rev.1.bt2 Wrote 3664444 bytes to secondary EBWT file: CB_Heart_tp4a/tmp/segment_juncs.rev.2.bt2 Re-opening _in1 and _in2 as input streams Returning from Ebwt constructor Headers: len: 14657759 bwtLen: 14657760 sz: 3664440 bwtSz: 3664440 lineRate: 6 offRate: 4 offMask: 0xfffffff0 ftabChars: 10 eftabLen: 20 eftabSz: 80 ftabLen: 1048577 ftabSz: 4194308 offsLen: 916110 offsSz: 3664440 lineSz: 64 sideSz: 64 sideBwtSz: 48 sideBwtLen: 192 numSides: 76343 numLines: 76343 ebwtTotLen: 4885952 ebwtTotSz: 4885952 color: 0 reverse: 1 Total time for backward call to driver() for mirror index: 00:00:12