Settings: Output files: "IR_Gut_05F1C1/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_Gut_05F1C1/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: 4877379 Using parameters --bmax 3658035 --dcv 1024 Doing ahead-of-time memory usage test Passed! Constructing with these parameters: --bmax 3658035 --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: 00:00:01 Splitting and merging Splitting and merging time: 00:00:00 Avg bucket size: 2.43869e+06 (target: 3658034) Converting suffix-array elements to index image Allocating ftab, absorbFtab Entering Ebwt loop Getting block 1 of 8 Reserving size (3658035) 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 3240064 (Using difference cover) Sorting block time: 00:00:01 Returning block of 3240065 Getting block 2 of 8 Reserving size (3658035) 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 1725981 (Using difference cover) Sorting block time: 00:00:01 Returning block of 1725982 Getting block 3 of 8 Reserving size (3658035) 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 2517604 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2517605 Getting block 4 of 8 Reserving size (3658035) 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 2950913 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2950914 Getting block 5 of 8 Reserving size (3658035) 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 2137418 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2137419 Getting block 6 of 8 Reserving size (3658035) 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 1618615 (Using difference cover) Sorting block time: 00:00:00 Returning block of 1618616 Getting block 7 of 8 Reserving size (3658035) 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 3302283 (Using difference cover) Sorting block time: 00:00:01 Returning block of 3302284 Getting block 8 of 8 Reserving size (3658035) 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 2016631 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2016632 Exited Ebwt loop fchr[A]: 0 fchr[C]: 4660113 fchr[G]: 9732056 fchr[T]: 14614307 fchr[$]: 19509516 Exiting Ebwt::buildToDisk() Returning from initFromVector Wrote 36088255 bytes to primary EBWT file: IR_Gut_05F1C1/tmp/segment_juncs.1.bt2 Wrote 4877384 bytes to secondary EBWT file: IR_Gut_05F1C1/tmp/segment_juncs.2.bt2 Re-opening _in1 and _in2 as input streams Returning from Ebwt constructor Headers: len: 19509516 bwtLen: 19509517 sz: 4877379 bwtSz: 4877380 lineRate: 6 offRate: 4 offMask: 0xfffffff0 ftabChars: 10 eftabLen: 20 eftabSz: 80 ftabLen: 1048577 ftabSz: 4194308 offsLen: 1219345 offsSz: 4877380 lineSz: 64 sideSz: 64 sideBwtSz: 48 sideBwtLen: 192 numSides: 101613 numLines: 101613 ebwtTotLen: 6503232 ebwtTotSz: 6503232 color: 0 reverse: 0 Total time for call to driver() for forward index: 00:00:16 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: 00:00:00 bmax according to bmaxDivN setting: 4877379 Using parameters --bmax 3658035 --dcv 1024 Doing ahead-of-time memory usage test Passed! Constructing with these parameters: --bmax 3658035 --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 Avg bucket size: 2.78707e+06 (target: 3658034) Converting suffix-array elements to index image Allocating ftab, absorbFtab Entering Ebwt loop Getting block 1 of 7 Reserving size (3658035) 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 1758250 (Using difference cover) Sorting block time: 00:00:01 Returning block of 1758251 Getting block 2 of 7 Reserving size (3658035) 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 2934363 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2934364 Getting block 3 of 7 Reserving size (3658035) 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 1361892 (Using difference cover) Sorting block time: 00:00:00 Returning block of 1361893 Getting block 4 of 7 Reserving size (3658035) 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 3573738 (Using difference cover) Sorting block time: 00:00:01 Returning block of 3573739 Getting block 5 of 7 Reserving size (3658035) 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 3376275 (Using difference cover) Sorting block time: 00:00:01 Returning block of 3376276 Getting block 6 of 7 Reserving size (3658035) 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 2932456 (Using difference cover) Sorting block time: 00:00:01 Returning block of 2932457 Getting block 7 of 7 Reserving size (3658035) 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 3572536 (Using difference cover) Sorting block time: 00:00:01 Returning block of 3572537 Exited Ebwt loop fchr[A]: 0 fchr[C]: 4660113 fchr[G]: 9732056 fchr[T]: 14614307 fchr[$]: 19509516 Exiting Ebwt::buildToDisk() Returning from initFromVector Wrote 36088255 bytes to primary EBWT file: IR_Gut_05F1C1/tmp/segment_juncs.rev.1.bt2 Wrote 4877384 bytes to secondary EBWT file: IR_Gut_05F1C1/tmp/segment_juncs.rev.2.bt2 Re-opening _in1 and _in2 as input streams Returning from Ebwt constructor Headers: len: 19509516 bwtLen: 19509517 sz: 4877379 bwtSz: 4877380 lineRate: 6 offRate: 4 offMask: 0xfffffff0 ftabChars: 10 eftabLen: 20 eftabSz: 80 ftabLen: 1048577 ftabSz: 4194308 offsLen: 1219345 offsSz: 4877380 lineSz: 64 sideSz: 64 sideBwtSz: 48 sideBwtLen: 192 numSides: 101613 numLines: 101613 ebwtTotLen: 6503232 ebwtTotSz: 6503232 color: 0 reverse: 1 Total time for backward call to driver() for mirror index: 00:00:15