Heng Li
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14e6a7bdb9
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fixed a silly bug in ksw_extend()
Query return value is assigned to the target variable and vice versa...
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2013-02-05 17:29:03 -05:00 |
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Heng Li
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1e16f3e701
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calling ksw_global(); ksw_extend() is buggy!
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2013-02-05 17:13:12 -05:00 |
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Heng Li
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7067af833d
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fixed a silly bug on sorted merge
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2013-02-05 00:41:07 -05:00 |
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Heng Li
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d6a73c9171
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chain filtering apparently working
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2013-02-05 00:17:20 -05:00 |
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Heng Li
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9d0cdb2d3c
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unfinished chain filter
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2013-02-04 17:23:06 -05:00 |
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Heng Li
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c589b42fb5
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minor tuning for fewer identical hits
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2013-02-04 16:48:11 -05:00 |
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Heng Li
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29c8546679
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better ref extraction
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2013-02-04 16:08:00 -05:00 |
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Heng Li
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788e9d1e3d
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fixed a couple of leaks; buggy atm
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2013-02-04 15:40:26 -05:00 |
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Heng Li
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f27bd18f20
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check if every seed is included; not used for now
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2013-02-04 15:09:47 -05:00 |
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Heng Li
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5bfa45a69b
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write the mem_aln_t struct
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2013-02-04 15:02:56 -05:00 |
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Heng Li
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666638a953
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changed the default scoring
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2013-02-04 14:51:51 -05:00 |
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Heng Li
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ba18db1a9f
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sw extension works for the simplest case
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2013-02-04 12:37:38 -05:00 |
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Heng Li
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d25a87cc50
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code backup
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2013-02-02 15:14:24 -05:00 |
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Heng Li
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00e5302219
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routine to get subsequence from 2-bit pac
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2013-02-01 16:39:50 -05:00 |
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Heng Li
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7ab4b3321f
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bugfix: memory leak
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2013-02-01 15:26:34 -05:00 |
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Heng Li
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f8f3b7577a
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code cleanup; added a missing file
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2013-02-01 14:38:44 -05:00 |
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Heng Li
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620ad6e5b9
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reseed long SMEMs
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2013-02-01 14:20:38 -05:00 |
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Heng Li
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5d372cef65
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bugfix: wrong B-tree comparison
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2013-01-31 16:39:24 -05:00 |
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Heng Li
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8977737460
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basic chaining working
Definitely suboptimal in a lot of corner cases...
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2013-01-31 16:26:05 -05:00 |
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Heng Li
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6c19c9640c
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code backup
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2013-01-31 15:55:22 -05:00 |
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Heng Li
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91debf412b
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move smem iterators to bwamem.{c,h}
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2013-01-31 13:59:48 -05:00 |