refs/genome.fa
refs/features.gff
refs/transcripts.fa
reads/BORED_1_R1.fq
reads/BORED_1_R2.fq
reads/BORED_2_R1.fq
reads/BORED_2_R2.fq
reads/BORED_3_R1.fq
reads/BORED_3_R2.fq
reads/EXCITED_1_R1.fq
reads/EXCITED_1_R2.fq
reads/EXCITED_2_R1.fq
reads/EXCITED_2_R2.fq
reads/EXCITED_3_R1.fq
reads/EXCITED_3_R2.fq
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
Splitting and merging
  Splitting and merging time: 00:00:00
Split 1, merged 6; iterating...
Splitting and merging
  Splitting and merging time: 00:00:00
Avg bucket size: 18392.7 (target: 24140)
Getting block 1 of 7
  Reserving size (24141) for bucket 1
  Calculating Z arrays for bucket 1
  Entering block accumulator loop for bucket 1:
  bucket 1: 10%
  bucket 1: 20%
  bucket 1: 30%
  bucket 1: 40%
  bucket 1: 50%
  bucket 1: 60%
  bucket 1: 70%
  bucket 1: 80%
  bucket 1: 90%
  bucket 1: 100%
  Sorting block of length 11794 for bucket 1
  (Using difference cover)
  Sorting block time: 00:00:00
Returning block of 11795 for bucket 1
Getting block 2 of 7
  Reserving size (24141) for bucket 2
  Calculating Z arrays for bucket 2
  Entering block accumulator loop for bucket 2:
  bucket 2: 10%
  bucket 2: 20%
  bucket 2: 30%
  bucket 2: 40%
  bucket 2: 50%
  bucket 2: 60%
  bucket 2: 70%
  bucket 2: 80%
  bucket 2: 90%
  bucket 2: 100%
  Sorting block of length 15630 for bucket 2
  (Using difference cover)
  Sorting block time: 00:00:00
Returning block of 15631 for bucket 2
Getting block 3 of 7
  Reserving size (24141) for bucket 3
  Calculating Z arrays for bucket 3
  Entering block accumulator loop for bucket 3:
  bucket 3: 10%
  bucket 3: 20%
  bucket 3: 30%
  bucket 3: 40%
  bucket 3: 50%
  bucket 3: 60%
  bucket 3: 70%
  bucket 3: 80%
  bucket 3: 90%
  bucket 3: 100%
  Sorting block of length 19642 for bucket 3
  (Using difference cover)
  Sorting block time: 00:00:00
Returning block of 19643 for bucket 3
Getting block 4 of 7
  Reserving size (24141) for bucket 4
  Calculating Z arrays for bucket 4
  Entering block accumulator loop for bucket 4:
  bucket 4: 10%
  bucket 4: 20%
  bucket 4: 30%
  bucket 4: 40%
  bucket 4: 50%
  bucket 4: 60%
  bucket 4: 70%
  bucket 4: 80%
  bucket 4: 90%
  bucket 4: 100%
  Sorting block of length 19091 for bucket 4
  (Using difference cover)
  Sorting block time: 00:00:00
Returning block of 19092 for bucket 4
Getting block 5 of 7
  Reserving size (24141) for bucket 5
  Calculating Z arrays for bucket 5
  Entering block accumulator loop for bucket 5:
  bucket 5: 10%
  bucket 5: 20%
  bucket 5: 30%
  bucket 5: 40%
  bucket 5: 50%
  bucket 5: 60%
  bucket 5: 70%
  bucket 5: 80%
  bucket 5: 90%
  bucket 5: 100%
  Sorting block of length 21618 for bucket 5
  (Using difference cover)
  Sorting block time: 00:00:00
Returning block of 21619 for bucket 5
Getting block 6 of 7
  Reserving size (24141) for bucket 6
  Calculating Z arrays for bucket 6
  Entering block accumulator loop for bucket 6:
  bucket 6: 10%
  bucket 6: 20%
  bucket 6: 30%
  bucket 6: 40%
  bucket 6: 50%
  bucket 6: 60%
  bucket 6: 70%
  bucket 6: 80%
  bucket 6: 90%
  bucket 6: 100%
  Sorting block of length 22719 for bucket 6
  (Using difference cover)
  Sorting block time: 00:00:00
Returning block of 22720 for bucket 6
Getting block 7 of 7
  Reserving size (24141) for bucket 7
  Calculating Z arrays for bucket 7
  Entering block accumulator loop for bucket 7:
  bucket 7: 10%
  bucket 7: 20%
  bucket 7: 30%
  bucket 7: 40%
  bucket 7: 50%
  bucket 7: 60%
  bucket 7: 70%
  bucket 7: 80%
  bucket 7: 90%
  bucket 7: 100%
  Sorting block of length 18255 for bucket 7
  (Using difference cover)
  Sorting block time: 00:00:00
Returning block of 18256 for bucket 7