Heng Li
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6b0d3c1fa8
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added PHONY and comments to makefile
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2017-12-30 20:54:11 -05:00 |
Hasindu Gamaarachchi
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8995e2e078
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added support for arm neon
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2017-12-15 17:42:19 +11:00 |
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Heng Li
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ae85dcde76
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added esterr.o dependencies
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2017-12-13 09:01:48 -05:00 |
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Heng Li
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704ff9f4c6
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r607: estimate sequence divergence
Currently using the simplest method. There may be a more accurate estimate.
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2017-12-06 16:14:39 -05:00 |
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Heng Li
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e0baf1ad54
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r479: a bit code cleanup
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2017-10-05 16:15:14 -04:00 |
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Heng Li
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55d1e4f638
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r440: better chain filtering for PE reads
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2017-09-26 11:03:36 -04:00 |
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Heng Li
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e9e86f5a48
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try python build again
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2017-09-17 00:46:39 -04:00 |
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Heng Li
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d5012a1b17
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this is embarrassing: rename again to mappy
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2017-09-17 00:05:30 -04:00 |
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Heng Li
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28fd3d63fd
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renamed module name from minimap2 to mmappy
minimap2 clashed with minimap2 from conda
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2017-09-16 23:29:41 -04:00 |
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Heng Li
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10bd4079d1
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fixed a bug on rev strand; added example
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2017-09-16 17:51:13 -04:00 |
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Heng Li
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7e34bea7ab
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minor
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2017-09-16 09:30:00 -04:00 |
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Heng Li
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46e8b6a4f9
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r338: portable CPU dispatch, which is the default
working with gcc, icc, clang and msvc.
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2017-09-03 20:29:24 -04:00 |
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Heng Li
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3c997ca016
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r337: support CPU dispatch for gcc-4.8+
using __builtin_cpu_supports()
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2017-09-03 14:29:49 -04:00 |
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Heng Li
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0a3ebdc916
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for better windows compatibility
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2017-09-02 17:52:33 -04:00 |
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Heng Li
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eccdb3a1ca
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r315: added getopt from musl
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2017-09-01 20:20:34 +08:00 |
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Heng Li
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61eef0575c
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separate out spliced alignment; not right yet
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2017-08-12 18:54:32 -04:00 |
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Heng Li
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163fa36ee6
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r281: don't open long gaps on query
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2017-08-10 15:04:59 -04:00 |
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Heng Li
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5934d68772
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r229: a new way to prevent out-of-band backtrack
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2017-07-29 23:52:30 -04:00 |
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Heng Li
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d08b7a0c51
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r227: use local alignment for INV alignment
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2017-07-29 17:40:53 -04:00 |
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Heng Li
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947cf162be
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update dependency; delete minimap2-lite on clean
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2017-07-18 14:48:46 -04:00 |
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Heng Li
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293a7049f3
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migrated minimap/example.c here.
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2017-07-18 14:43:43 -04:00 |
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Heng Li
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a1addb2949
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use -msse4 by default, not -march
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2017-07-18 13:56:51 -04:00 |
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Heng Li
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cc554aee43
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r159: use two-piece gap penalty
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2017-07-08 10:26:00 -04:00 |
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Heng Li
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2e4fd9f1d0
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r148: revamped regs handling after cigar
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2017-07-03 10:44:26 -04:00 |
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Heng Li
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ecedfe5788
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code refactoring for mm_reg1_t
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2017-06-29 19:35:38 -04:00 |
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Heng Li
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17944a75c2
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merge into map.c
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2017-06-29 14:20:14 -04:00 |
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Heng Li
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d274e1b743
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backup
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2017-06-29 12:58:52 -04:00 |
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Heng Li
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cf703655cb
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optional sse4
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2017-06-28 22:21:52 -04:00 |
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Heng Li
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b56cd790f6
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enabled kalloc (was a mistake)
Not using kalloc leads to significant malloc overhead.
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2017-06-26 15:41:55 -04:00 |
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Heng Li
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39083be9ab
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separated formating printing
for SAM in future; and for performance
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2017-06-25 16:13:54 -04:00 |
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Heng Li
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4fea3d778a
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backup
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2017-06-23 18:57:00 -04:00 |
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Heng Li
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326d91deb0
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backup
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2017-06-23 14:06:00 -04:00 |
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Heng Li
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44cdd18de0
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start to work on alignment
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2017-06-23 13:44:45 -04:00 |
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Heng Li
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1a9fc04cf0
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backup
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2017-06-06 10:16:33 -04:00 |
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Heng Li
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8c230563cc
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can be compiled
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2017-04-07 15:56:10 -04:00 |
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Heng Li
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17b57a9af0
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forgot to link misc.o
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2017-04-07 15:43:55 -04:00 |
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Heng Li
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f5cdd3f72f
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is_hpc is a property of the index
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2017-04-07 15:42:33 -04:00 |
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Heng Li
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b3bc4911ba
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index can be compiled; not tested yet
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2017-04-07 15:30:30 -04:00 |