Settings: Output files: "IR_Heart_02FC_1/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_02FC_1/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: 3746717 Using parameters --bmax 2810038 --dcv 1024 Doing ahead-of-time memory usage test Passed! Constructing with these parameters: --bmax 2810038 --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 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 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 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: 00:00:01 Splitting and merging Splitting and merging time: 00:00:00 Avg bucket size: 2.14098e+06 (target: 2810037) Converting suffix-array elements to index image Allocating ftab, absorbFtab Entering Ebwt loop Getting block 1 of 7 Reserving size (2810038) 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 1848390 (Using difference cover) Sorting block time: 00:00:00 Returning block of 1848391 Getting block 2 of 7 Reserving size (2810038) 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 1817344 (Using difference cover) Sorting block time: 00:00:00 Returning block of 1817345 Getting block 3 of 7 Reserving size (2810038) 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 1009196 (Using difference cover) Sorting block time: 00:00:00 Returning block of 1009197 Getting block 4 of 7 Reserving size (2810038) 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 2732855 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2732856 Getting block 5 of 7 Reserving size (2810038) 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 2483492 (Using difference cover) Sorting block time: 00:00:00 Returning block of 2483493 Getting block 6 of 7 Reserving size (2810038) 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 2784016 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2784017 Getting block 7 of 7 Reserving size (2810038) 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 2311569 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2311570 Exited Ebwt loop fchr[A]: 0 fchr[C]: 3559250 fchr[G]: 7519761 fchr[T]: 11250716 fchr[$]: 14986868 Exiting Ebwt::buildToDisk() Returning from initFromVector Wrote 28617228 bytes to primary EBWT file: IR_Heart_02FC_1/tmp/segment_juncs.1.bt2 Wrote 3746724 bytes to secondary EBWT file: IR_Heart_02FC_1/tmp/segment_juncs.2.bt2 Re-opening _in1 and _in2 as input streams Returning from Ebwt constructor Headers: len: 14986868 bwtLen: 14986869 sz: 3746717 bwtSz: 3746718 lineRate: 6 offRate: 4 offMask: 0xfffffff0 ftabChars: 10 eftabLen: 20 eftabSz: 80 ftabLen: 1048577 ftabSz: 4194308 offsLen: 936680 offsSz: 3746720 lineSz: 64 sideSz: 64 sideBwtSz: 48 sideBwtLen: 192 numSides: 78057 numLines: 78057 ebwtTotLen: 4995648 ebwtTotSz: 4995648 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: 3746717 Using parameters --bmax 2810038 --dcv 1024 Doing ahead-of-time memory usage test Passed! Constructing with these parameters: --bmax 2810038 --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: 00:00:00 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: 1.87336e+06 (target: 2810037) Converting suffix-array elements to index image Allocating ftab, absorbFtab Entering Ebwt loop Getting block 1 of 8 Reserving size (2810038) 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 1354019 (Using difference cover) Sorting block time: 00:00:01 Returning block of 1354020 Getting block 2 of 8 Reserving size (2810038) 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 2239867 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2239868 Getting block 3 of 8 Reserving size (2810038) 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 2473368 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2473369 Getting block 4 of 8 Reserving size (2810038) 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 496939 (Using difference cover) Sorting block time: 00:00:01 Returning block of 496940 Getting block 5 of 8 Reserving size (2810038) 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 2437050 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2437051 Getting block 6 of 8 Reserving size (2810038) 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 2552022 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2552023 Getting block 7 of 8 Reserving size (2810038) 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 2305259 (Using difference cover) Sorting block time: 00:00:00 Returning block of 2305260 Getting block 8 of 8 Reserving size (2810038) 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 1128337 (Using difference cover) Sorting block time: 00:00:00 Returning block of 1128338 Exited Ebwt loop fchr[A]: 0 fchr[C]: 3559250 fchr[G]: 7519761 fchr[T]: 11250716 fchr[$]: 14986868 Exiting Ebwt::buildToDisk() Returning from initFromVector Wrote 28617228 bytes to primary EBWT file: IR_Heart_02FC_1/tmp/segment_juncs.rev.1.bt2 Wrote 3746724 bytes to secondary EBWT file: IR_Heart_02FC_1/tmp/segment_juncs.rev.2.bt2 Re-opening _in1 and _in2 as input streams Returning from Ebwt constructor Headers: len: 14986868 bwtLen: 14986869 sz: 3746717 bwtSz: 3746718 lineRate: 6 offRate: 4 offMask: 0xfffffff0 ftabChars: 10 eftabLen: 20 eftabSz: 80 ftabLen: 1048577 ftabSz: 4194308 offsLen: 936680 offsSz: 3746720 lineSz: 64 sideSz: 64 sideBwtSz: 48 sideBwtLen: 192 numSides: 78057 numLines: 78057 ebwtTotLen: 4995648 ebwtTotSz: 4995648 color: 0 reverse: 1 Total time for backward call to driver() for mirror index: 00:00:10