Settings: Output files: "IRTestisIR121/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: IRTestisIR121/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: 6640802 Using parameters --bmax 4980602 --dcv 1024 Doing ahead-of-time memory usage test Passed! Constructing with these parameters: --bmax 4980602 --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: 00:00:02 Splitting and merging Splitting and merging time: 00:00:00 Split 2, 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: 3.79474e+06 (target: 4980601) Converting suffix-array elements to index image Allocating ftab, absorbFtab Entering Ebwt loop Getting block 1 of 7 Reserving size (4980602) 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 3591812 (Using difference cover) Sorting block time: 00:00:02 Returning block of 3591813 Getting block 2 of 7 Reserving size (4980602) 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 3997602 (Using difference cover) Sorting block time: 00:00:01 Returning block of 3997603 Getting block 3 of 7 Reserving size (4980602) 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 4081710 (Using difference cover) Sorting block time: 00:00:01 Returning block of 4081711 Getting block 4 of 7 Reserving size (4980602) 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 4594157 (Using difference cover) Sorting block time: 00:00:02 Returning block of 4594158 Getting block 5 of 7 Reserving size (4980602) 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 4878583 (Using difference cover) Sorting block time: 00:00:02 Returning block of 4878584 Getting block 6 of 7 Reserving size (4980602) 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 4131108 (Using difference cover) Sorting block time: 00:00:01 Returning block of 4131109 Getting block 7 of 7 Reserving size (4980602) 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 1288233 (Using difference cover) Sorting block time: 00:00:00 Returning block of 1288234 Exited Ebwt loop fchr[A]: 0 fchr[C]: 6554057 fchr[G]: 13311594 fchr[T]: 19834799 fchr[$]: 26563211 Exiting Ebwt::buildToDisk() Returning from initFromVector Wrote 47462837 bytes to primary EBWT file: IRTestisIR121/tmp/segment_juncs.1.bt2 Wrote 6640808 bytes to secondary EBWT file: IRTestisIR121/tmp/segment_juncs.2.bt2 Re-opening _in1 and _in2 as input streams Returning from Ebwt constructor Headers: len: 26563211 bwtLen: 26563212 sz: 6640803 bwtSz: 6640803 lineRate: 6 offRate: 4 offMask: 0xfffffff0 ftabChars: 10 eftabLen: 20 eftabSz: 80 ftabLen: 1048577 ftabSz: 4194308 offsLen: 1660201 offsSz: 6640804 lineSz: 64 sideSz: 64 sideBwtSz: 48 sideBwtLen: 192 numSides: 138351 numLines: 138351 ebwtTotLen: 8854464 ebwtTotSz: 8854464 color: 0 reverse: 0 Total time for call to driver() for forward index: 00:00:21 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: 00:00:01 bmax according to bmaxDivN setting: 6640802 Using parameters --bmax 4980602 --dcv 1024 Doing ahead-of-time memory usage test Passed! Constructing with these parameters: --bmax 4980602 --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: 00:00:02 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 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 Split 1, merged 1; iterating... Binary sorting into buckets 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% Binary sorting into buckets time: 00:00:02 Splitting and merging Splitting and merging time: 00:00:00 Avg bucket size: 3.79474e+06 (target: 4980601) Converting suffix-array elements to index image Allocating ftab, absorbFtab Entering Ebwt loop Getting block 1 of 7 Reserving size (4980602) 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 4015053 (Using difference cover) Sorting block time: 00:00:01 Returning block of 4015054 Getting block 2 of 7 Reserving size (4980602) 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 3183834 (Using difference cover) Sorting block time: 00:00:01 Returning block of 3183835 Getting block 3 of 7 Reserving size (4980602) 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 4515043 (Using difference cover) Sorting block time: 00:00:02 Returning block of 4515044 Getting block 4 of 7 Reserving size (4980602) 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 3659743 (Using difference cover) Sorting block time: 00:00:01 Returning block of 3659744 Getting block 5 of 7 Reserving size (4980602) 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 3590020 (Using difference cover) Sorting block time: 00:00:01 Returning block of 3590021 Getting block 6 of 7 Reserving size (4980602) 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 4617899 (Using difference cover) Sorting block time: 00:00:02 Returning block of 4617900 Getting block 7 of 7 Reserving size (4980602) 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 2981613 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2981614 Exited Ebwt loop fchr[A]: 0 fchr[C]: 6554057 fchr[G]: 13311594 fchr[T]: 19834799 fchr[$]: 26563211 Exiting Ebwt::buildToDisk() Returning from initFromVector Wrote 47462837 bytes to primary EBWT file: IRTestisIR121/tmp/segment_juncs.rev.1.bt2 Wrote 6640808 bytes to secondary EBWT file: IRTestisIR121/tmp/segment_juncs.rev.2.bt2 Re-opening _in1 and _in2 as input streams Returning from Ebwt constructor Headers: len: 26563211 bwtLen: 26563212 sz: 6640803 bwtSz: 6640803 lineRate: 6 offRate: 4 offMask: 0xfffffff0 ftabChars: 10 eftabLen: 20 eftabSz: 80 ftabLen: 1048577 ftabSz: 4194308 offsLen: 1660201 offsSz: 6640804 lineSz: 64 sideSz: 64 sideBwtSz: 48 sideBwtLen: 192 numSides: 138351 numLines: 138351 ebwtTotLen: 8854464 ebwtTotSz: 8854464 color: 0 reverse: 1 Total time for backward call to driver() for mirror index: 00:00:24