Heng Li
|
ccb0f7b05d
|
added a new Makefile for simde
|
2020-04-25 22:43:29 -04:00 |
mbrcic
|
2b3403f094
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fix for Neon after test.
|
2020-04-21 02:08:21 +02:00 |
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mbrcic
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f47e8a525e
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SIMDe made optional. Include paths changes for SIMDe.
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2020-04-21 01:08:32 +02:00 |
|
mbrcic
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c172df7d2d
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fix for Neon
|
2020-04-20 21:14:15 +02:00 |
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mbrcic
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9e6fdd376b
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Changed sse2neon with SIMDe. Added building non-SIMD version.
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2020-04-20 18:28:06 +02:00 |
|
Heng Li
|
367aed4271
|
added the asan and tsan targets to Makefile
|
2019-12-23 17:33:10 -05:00 |
|
Heng Li
|
8b12da8b0f
|
removed a useless dependency (not in repo)
|
2018-09-17 13:59:25 -04:00 |
|
Heng Li
|
7998fe9906
|
r829: replaced musl's getopt with ketopt
|
2018-09-01 21:18:02 -04:00 |
|
Heng Li
|
1a55227d5a
|
write hits to tmp files (unfinished)
|
2018-07-14 12:15:10 -04:00 |
|
Heng Li
|
66674afd09
|
r794: fixed a bug in seed filtering
|
2018-06-20 10:26:29 -04:00 |
|
Heng Li
|
7e6e8ca73f
|
r792: fixed -Wextra warnings and resolved #184
|
2018-06-19 15:26:58 -04:00 |
Hasindu Gamaarachchi
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99dcd75f64
|
added support for 64 bit ARM architectures
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2018-06-19 14:28:45 -04:00 |
|
Heng Li
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a22ebb9836
|
use SSE compiler flags more precisely (#127)
|
2018-02-26 09:51:01 -05:00 |
|
Heng Li
|
53ce317e59
|
Release minimap2-2.8 (r672)
|
2018-02-01 12:50:20 -05:00 |
|
Heng Li
|
123bc1d91d
|
put option operations in another file
|
2018-01-26 08:38:37 -05:00 |
|
Heng Li
|
6b0d3c1fa8
|
added PHONY and comments to makefile
|
2017-12-30 20:54:11 -05:00 |
Hasindu Gamaarachchi
|
8995e2e078
|
added support for arm neon
|
2017-12-15 17:42:19 +11:00 |
|
Heng Li
|
ae85dcde76
|
added esterr.o dependencies
|
2017-12-13 09:01:48 -05:00 |
|
Heng Li
|
704ff9f4c6
|
r607: estimate sequence divergence
Currently using the simplest method. There may be a more accurate estimate.
|
2017-12-06 16:14:39 -05:00 |
|
Heng Li
|
e0baf1ad54
|
r479: a bit code cleanup
|
2017-10-05 16:15:14 -04:00 |
|
Heng Li
|
55d1e4f638
|
r440: better chain filtering for PE reads
|
2017-09-26 11:03:36 -04:00 |
|
Heng Li
|
e9e86f5a48
|
try python build again
|
2017-09-17 00:46:39 -04:00 |
|
Heng Li
|
d5012a1b17
|
this is embarrassing: rename again to mappy
|
2017-09-17 00:05:30 -04:00 |
|
Heng Li
|
28fd3d63fd
|
renamed module name from minimap2 to mmappy
minimap2 clashed with minimap2 from conda
|
2017-09-16 23:29:41 -04:00 |
|
Heng Li
|
10bd4079d1
|
fixed a bug on rev strand; added example
|
2017-09-16 17:51:13 -04:00 |
|
Heng Li
|
7e34bea7ab
|
minor
|
2017-09-16 09:30:00 -04:00 |
|
Heng Li
|
46e8b6a4f9
|
r338: portable CPU dispatch, which is the default
working with gcc, icc, clang and msvc.
|
2017-09-03 20:29:24 -04:00 |
|
Heng Li
|
3c997ca016
|
r337: support CPU dispatch for gcc-4.8+
using __builtin_cpu_supports()
|
2017-09-03 14:29:49 -04:00 |
|
Heng Li
|
0a3ebdc916
|
for better windows compatibility
|
2017-09-02 17:52:33 -04:00 |
|
Heng Li
|
eccdb3a1ca
|
r315: added getopt from musl
|
2017-09-01 20:20:34 +08:00 |
|
Heng Li
|
61eef0575c
|
separate out spliced alignment; not right yet
|
2017-08-12 18:54:32 -04:00 |
|
Heng Li
|
163fa36ee6
|
r281: don't open long gaps on query
|
2017-08-10 15:04:59 -04:00 |
|
Heng Li
|
5934d68772
|
r229: a new way to prevent out-of-band backtrack
|
2017-07-29 23:52:30 -04:00 |
|
Heng Li
|
d08b7a0c51
|
r227: use local alignment for INV alignment
|
2017-07-29 17:40:53 -04:00 |
|
Heng Li
|
947cf162be
|
update dependency; delete minimap2-lite on clean
|
2017-07-18 14:48:46 -04:00 |
|
Heng Li
|
293a7049f3
|
migrated minimap/example.c here.
|
2017-07-18 14:43:43 -04:00 |
|
Heng Li
|
a1addb2949
|
use -msse4 by default, not -march
|
2017-07-18 13:56:51 -04:00 |
|
Heng Li
|
cc554aee43
|
r159: use two-piece gap penalty
|
2017-07-08 10:26:00 -04:00 |
|
Heng Li
|
2e4fd9f1d0
|
r148: revamped regs handling after cigar
|
2017-07-03 10:44:26 -04:00 |
|
Heng Li
|
ecedfe5788
|
code refactoring for mm_reg1_t
|
2017-06-29 19:35:38 -04:00 |
|
Heng Li
|
17944a75c2
|
merge into map.c
|
2017-06-29 14:20:14 -04:00 |
|
Heng Li
|
d274e1b743
|
backup
|
2017-06-29 12:58:52 -04:00 |
|
Heng Li
|
cf703655cb
|
optional sse4
|
2017-06-28 22:21:52 -04:00 |
|
Heng Li
|
b56cd790f6
|
enabled kalloc (was a mistake)
Not using kalloc leads to significant malloc overhead.
|
2017-06-26 15:41:55 -04:00 |
|
Heng Li
|
39083be9ab
|
separated formating printing
for SAM in future; and for performance
|
2017-06-25 16:13:54 -04:00 |
|
Heng Li
|
4fea3d778a
|
backup
|
2017-06-23 18:57:00 -04:00 |
|
Heng Li
|
326d91deb0
|
backup
|
2017-06-23 14:06:00 -04:00 |
|
Heng Li
|
44cdd18de0
|
start to work on alignment
|
2017-06-23 13:44:45 -04:00 |
|
Heng Li
|
1a9fc04cf0
|
backup
|
2017-06-06 10:16:33 -04:00 |
|
Heng Li
|
8c230563cc
|
can be compiled
|
2017-04-07 15:56:10 -04:00 |