[rchikhi@cl1n020 ~/tmp]$ time sh dsk.sh

Opening file "HG_reads_all_untrimed.fa", size of first sequence: 100 nt

Total RAM: 144964 MB

Sequentially counting ~826719 MB of kmers with 86 partition(s) using 1 thread(s), ~4000 MB of memory and ~120000 MB of disk space

Pass 1/7, loop through reads to separate (redundant) kmers into partitions, processed 1409M reads out of 1464M

Pass 1/7, loaded and sorted partition 86/86, found 387553588 solid kmers so far

Pass 2/7, loop through reads to separate (redundant) kmers into partitions, processed 1409M reads out of 1464M

Pass 2/7, loaded and sorted partition 86/86, found 775106970 solid kmers so far

Pass 3/7, loop through reads to separate (redundant) kmers into partitions, processed 1409M reads out of 1464M

Pass 3/7, loaded and sorted partition 86/86, found 1162652040 solid kmers so far

Pass 4/7, loop through reads to separate (redundant) kmers into partitions, processed 1409M reads out of 1464M

Pass 4/7, loaded and sorted partition 86/86, found 1550190292 solid kmers so far

Pass 5/7, loop through reads to separate (redundant) kmers into partitions, processed 1409M reads out of 1464M

Pass 5/7, loaded and sorted partition 86/86, found 1937707469 solid kmers so far

Pass 6/7, loop through reads to separate (redundant) kmers into partitions, processed 1409M reads out of 1464M

Pass 6/7, loaded and sorted partition 86/86, found 2325272516 solid kmers so far

Pass 7/7, loop through reads to separate (redundant) kmers into partitions, processed 1409M reads out of 1464M

Pass 7/7, loaded and sorted partition 86/86, found 2712827796 solid kmers so far

Saved 2712827796 solid kmers

-------------------Counted kmers time Wallclock 64651.1 s

------------------ Counted kmers and kept those with abundance >=3,

-------------------Total time Wallclock 64651.5 s

real 1077m31.532s

user 832m43.199s

sys 62m53.525s

49963.201u 3773.525s 17:57:31.58 83.1% 0+0k 0+0io 0pf+0w