Heng Li
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eea9e851d8
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Merge branch 'dev' into short
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2017-09-11 09:32:28 -04:00 |
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Heng Li
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c7c3585531
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r347: merged mm_map_frag() into mm_map()
mm_map_frag() was separated due to an earlier design that has been rejected.
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2017-09-10 15:02:55 -04:00 |
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Heng Li
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87a278d06a
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Merge branch 'dev' into short
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2017-09-09 08:49:58 -04:00 |
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Heng Li
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59c822b722
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removed some commented code
which *might* return at some time later
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2017-09-09 08:38:39 -04:00 |
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Heng Li
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f422175e4e
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r344: avoid unnecessary refName retrieval
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2017-09-08 22:44:14 -04:00 |
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Heng Li
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709b6ec1f1
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increase seed occurrences
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2017-09-08 22:42:39 -04:00 |
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Heng Li
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0031158936
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Merge branch 'master' into short
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2017-09-07 11:41:32 -04:00 |
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Heng Li
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ef3f7ea2f2
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Release minimap2-2.1.1 (r341)
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2017-09-06 13:46:51 -04:00 |
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Heng Li
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8b9f2aaf04
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r339: improved SIMD detection
old code does not check AVX2
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2017-09-05 13:10:30 -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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f9ccc522cd
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Merge branch 'master' into short
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2017-09-03 11:58:15 -04:00 |
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Heng Li
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101b8bb97d
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r335: report an error if query can't be opened
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2017-09-03 11:54:38 -04:00 |
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Heng Li
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f4a71d447f
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Merge branch 'master' of github.com:lh3/minimap2
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2017-09-03 11:07:32 -04:00 |
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Heng Li
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6db9b7579c
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Better MSVC support
* get rid of alloca()
* no variable-sized arrays
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2017-09-03 11:05:55 -04:00 |
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Heng Li
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f50b9a14a7
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last commit can't be compiled
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2017-09-02 21:07:19 -04:00 |
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Heng Li
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33423e1568
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get rid of the last var-sized array in ksort
for MSVC
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2017-09-02 21:05:03 -04:00 |
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Heng Li
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aeb6b5eeb1
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fixed an issue due to the 64-bit assumption
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2017-09-02 19:29:52 -04:00 |
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Heng Li
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3d3fde8224
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replaced remaining alloca()
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2017-09-02 18:50:42 -04:00 |
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Heng Li
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6f4cbf4f12
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ok, %zu is a C99 feature...
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2017-09-02 18:48:14 -04:00 |
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Heng Li
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2a5d5b6f12
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print size_t with %zu instead of %lu
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2017-09-02 18:37:48 -04:00 |
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Heng Li
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3d48516885
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reduced a heap allocation
which *might* be frequent for short reads
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2017-09-02 18:32:45 -04:00 |
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Heng Li
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00416c76d1
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for MinGW32 compatibility
get rid of alloca()
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2017-09-02 18:23:29 -04:00 |
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Heng Li
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2b8681ead7
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fixed memory leak in example
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2017-09-02 17:55:25 -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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b97620afed
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moved gettimeofday() to misc.c
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2017-09-02 17:40:10 -04:00 |
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Heng Li
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743d26eab0
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Merge pull request #20 from nanoporetech/msvc14
ONT source code changes to compile with MSVC 14
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2017-09-02 14:35:02 -07:00 |
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Heng Li
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62535ecd7f
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Merge branch 'dev'
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2017-09-01 10:06:21 -07:00 |
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Heng Li
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40665d1083
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Merge pull request #23 from simonrharris/segfaultfix
Fixed segfault caused when reading from index file
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2017-09-02 00:46:55 +08:00 |
Simon Harris
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4db1c0295c
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Fixed segfault caused when reading from index file
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2017-09-01 15:48:59 +01:00 |
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Heng Li
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d4074874ee
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r316: get rid of a harmless gcc warning
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2017-09-01 20:25:27 +08:00 |
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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 |
Stefan von Deylen
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a3c3db6b9b
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ONT source code changes to compile with MSVC 14
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2017-08-30 16:25:20 +01:00 |
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Heng Li
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c4080aaf7e
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Merge branch 'master' into short
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2017-08-28 07:02:22 +08:00 |
|
Heng Li
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2641613686
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various minor improvements
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2017-08-25 17:56:16 +08:00 |
|
Heng Li
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5f96d851a8
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added spliced alignment example
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2017-08-25 14:11:54 +08:00 |
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Heng Li
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bf8246f872
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Release minimap2-2.1-r311
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2017-08-25 13:35:55 +08:00 |
|
Heng Li
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5cbd776651
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test data for spliced alignment
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2017-08-25 13:17:56 +08:00 |
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Heng Li
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0fe1a224ab
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r309: improved SAM header output
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2017-08-25 10:35:58 +08:00 |
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Heng Li
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240f6caaff
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backup manuscript
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2017-08-24 22:05:14 +08:00 |
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Heng Li
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b8bdac7e64
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backup
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2017-08-22 17:45:01 +08:00 |
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Heng Li
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19e4b2aab0
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backup
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2017-08-20 22:10:03 +08:00 |
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Heng Li
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ce859dbe1c
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evaluate introns
this simplies the metrics
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2017-08-20 21:54:59 +08:00 |
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Heng Li
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a4c41f64a5
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the final version
to be replaced by intron-eval
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2017-08-20 21:54:35 +08:00 |
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Heng Li
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5ed2faf270
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minor tuning to the matching rules
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2017-08-19 16:21:49 +08:00 |
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Heng Li
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8058c85b72
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moved appendix to methods; detailed splice aln
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2017-08-18 23:33:57 +08:00 |
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Heng Li
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993a2bb521
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r301: separate introns from deletions
When an intron is adjacent to a deletion, the old code count both as introns,
which lead to an inaccurate exon boundary.
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2017-08-18 15:31:15 +08:00 |
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Heng Li
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64c1389e1a
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Merge branch 'master' into splice
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2017-08-17 23:39:27 +08:00 |
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Heng Li
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81cff97208
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r299: support -h: output to stdout; return 0
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2017-08-17 23:38:31 +08:00 |
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Heng Li
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bbb37d95f2
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support inserting RG lines
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2017-08-17 23:34:09 +08:00 |