针对三代测序的比对工具，在原程序基础之上，做一些并行优化

Heng Li a25866c25c r96: min_cnt still wrong in chaining		2017-06-28 11:03:03 -04:00
.gitignore	make sdust working with kalloc	2017-04-06 15:51:36 -04:00
Makefile	enabled kalloc (was a mistake)	2017-06-26 15:41:55 -04:00
align.c	r93: fixed various small issues	2017-06-28 10:35:21 -04:00
bseq.c	index can be compiled; not tested yet	2017-04-07 15:30:30 -04:00
bseq.h	index can be compiled; not tested yet	2017-04-07 15:30:30 -04:00
chain.c	r96: min_cnt still wrong in chaining	2017-06-28 11:03:03 -04:00
format.c	use long options	2017-06-26 12:31:36 -04:00
index.c	r77: fixed an index loading bug (offset not set)	2017-06-26 13:56:25 -04:00
kalloc.c	number of allocated units must be an even number	2017-06-26 23:15:30 -04:00
kalloc.h	Homopolymer-compressed k-mer sketch	2017-04-06 15:37:34 -04:00
kdq.h	make sdust working with kalloc	2017-04-06 15:51:36 -04:00
khash.h	index can be compiled; not tested yet	2017-04-07 15:30:30 -04:00
kseq.h	Homopolymer-compressed k-mer sketch	2017-04-06 15:37:34 -04:00
ksort.h	chaining	2017-05-03 20:47:29 +08:00
ksw2.h	r87: fixed a bug in ksw2	2017-06-27 13:29:48 -04:00
ksw2_extz2_sse.c	r88: fixed an out-of-boundary bug in ksw2	2017-06-27 14:50:31 -04:00
kthread.c	index can be compiled; not tested yet	2017-04-07 15:30:30 -04:00
kthread.h	index can be compiled; not tested yet	2017-04-07 15:30:30 -04:00
kvec.h	Homopolymer-compressed k-mer sketch	2017-04-06 15:37:34 -04:00
main.c	r96: min_cnt still wrong in chaining	2017-06-28 11:03:03 -04:00
map.c	disable kalloc in the debugging mode	2017-06-28 10:50:27 -04:00
minimap.h	r93: fixed various small issues	2017-06-28 10:35:21 -04:00
misc.c	sort positions in each bucket	2017-04-12 13:31:12 -04:00
mmpriv.h	r92: fixed a bug for overlapping alignment	2017-06-27 22:03:31 -04:00
sdust.c	fixed memory leaks	2017-06-06 21:45:55 -04:00
sdust.h	fixed a few memory leaks	2017-04-13 23:05:19 -04:00
sketch.c	wrong HPC	2017-05-04 17:45:19 +08:00