Settings: Output files: "MCMuscle15b/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: MCMuscle15b/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: 3214510 Using parameters --bmax 2410883 --dcv 1024 Doing ahead-of-time memory usage test Passed! Constructing with these parameters: --bmax 2410883 --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 2, 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: 1.60725e+06 (target: 2410882) Converting suffix-array elements to index image Allocating ftab, absorbFtab Entering Ebwt loop Getting block 1 of 8 Reserving size (2410883) 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 1361788 (Using difference cover) Sorting block time: 00:00:00 Returning block of 1361789 Getting block 2 of 8 Reserving size (2410883) 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 1610099 (Using difference cover) Sorting block time: 00:00:00 Returning block of 1610100 Getting block 3 of 8 Reserving size (2410883) 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 1105178 (Using difference cover) Sorting block time: 00:00:00 Returning block of 1105179 Getting block 4 of 8 Reserving size (2410883) 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 2393894 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2393895 Getting block 5 of 8 Reserving size (2410883) 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 431919 (Using difference cover) Sorting block time: 00:00:00 Returning block of 431920 Getting block 6 of 8 Reserving size (2410883) 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 2134051 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2134052 Getting block 7 of 8 Reserving size (2410883) 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 1444038 (Using difference cover) Sorting block time: 00:00:00 Returning block of 1444039 Getting block 8 of 8 Reserving size (2410883) 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 2377066 (Using difference cover) Sorting block time: 00:00:00 Returning block of 2377067 Exited Ebwt loop fchr[A]: 0 fchr[C]: 3114188 fchr[G]: 6457926 fchr[T]: 9664051 fchr[$]: 12858040 Exiting Ebwt::buildToDisk() Returning from initFromVector Wrote 25146394 bytes to primary EBWT file: MCMuscle15b/tmp/segment_juncs.1.bt2 Wrote 3214516 bytes to secondary EBWT file: MCMuscle15b/tmp/segment_juncs.2.bt2 Re-opening _in1 and _in2 as input streams Returning from Ebwt constructor Headers: len: 12858040 bwtLen: 12858041 sz: 3214510 bwtSz: 3214511 lineRate: 6 offRate: 4 offMask: 0xfffffff0 ftabChars: 10 eftabLen: 20 eftabSz: 80 ftabLen: 1048577 ftabSz: 4194308 offsLen: 803628 offsSz: 3214512 lineSz: 64 sideSz: 64 sideBwtSz: 48 sideBwtLen: 192 numSides: 66969 numLines: 66969 ebwtTotLen: 4286016 ebwtTotSz: 4286016 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: 00:00:01 Time to reverse reference sequence: 00:00:00 bmax according to bmaxDivN setting: 3214510 Using parameters --bmax 2410883 --dcv 1024 Doing ahead-of-time memory usage test Passed! Constructing with these parameters: --bmax 2410883 --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: 1.60725e+06 (target: 2410882) Converting suffix-array elements to index image Allocating ftab, absorbFtab Entering Ebwt loop Getting block 1 of 8 Reserving size (2410883) 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 1953989 (Using difference cover) Sorting block time: 00:00:01 Returning block of 1953990 Getting block 2 of 8 Reserving size (2410883) 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 984663 (Using difference cover) Sorting block time: 00:00:00 Returning block of 984664 Getting block 3 of 8 Reserving size (2410883) 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 1590353 (Using difference cover) Sorting block time: 00:00:00 Returning block of 1590354 Getting block 4 of 8 Reserving size (2410883) 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 2174268 (Using difference cover) Sorting block time: 00:00:00 Returning block of 2174269 Getting block 5 of 8 Reserving size (2410883) 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 984658 (Using difference cover) Sorting block time: 00:00:00 Returning block of 984659 Getting block 6 of 8 Reserving size (2410883) 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 1599012 (Using difference cover) Sorting block time: 00:00:01 Returning block of 1599013 Getting block 7 of 8 Reserving size (2410883) 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 1561910 (Using difference cover) Sorting block time: 00:00:01 Returning block of 1561911 Getting block 8 of 8 Reserving size (2410883) 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 2009180 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2009181 Exited Ebwt loop fchr[A]: 0 fchr[C]: 3114188 fchr[G]: 6457926 fchr[T]: 9664051 fchr[$]: 12858040 Exiting Ebwt::buildToDisk() Returning from initFromVector Wrote 25146394 bytes to primary EBWT file: MCMuscle15b/tmp/segment_juncs.rev.1.bt2 Wrote 3214516 bytes to secondary EBWT file: MCMuscle15b/tmp/segment_juncs.rev.2.bt2 Re-opening _in1 and _in2 as input streams Returning from Ebwt constructor Headers: len: 12858040 bwtLen: 12858041 sz: 3214510 bwtSz: 3214511 lineRate: 6 offRate: 4 offMask: 0xfffffff0 ftabChars: 10 eftabLen: 20 eftabSz: 80 ftabLen: 1048577 ftabSz: 4194308 offsLen: 803628 offsSz: 3214512 lineSz: 64 sideSz: 64 sideBwtSz: 48 sideBwtLen: 192 numSides: 66969 numLines: 66969 ebwtTotLen: 4286016 ebwtTotSz: 4286016 color: 0 reverse: 1 Total time for backward call to driver() for mirror index: 00:00:10